Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012880.1 Corchorus capsularis cultivar CVL-1 contig12901, 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: 96090
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:5951 original size:30 final size:30
Alignment explanation
Indices: 5894--5952 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
5884 TCAGCAATTC
** *
5894 AGCATATATAAATAATGTTTCACCAAAAAA
1 AGCATATATAAATAATGTTAAAACAAAAAA
5924 AGCATATATAAATAATG-TAAAGACAAAAA
1 AGCATATATAAATAATGTTAAA-ACAAAAA
5953 TACAAAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.24
Consensus pattern (30 bp):
AGCATATATAAATAATGTTAAAACAAAAAA
Found at i:20807 original size:88 final size:88
Alignment explanation
Indices: 20665--20829 Score: 294
Period size: 88 Copynumber: 1.9 Consensus size: 88
20655 AAAGGCATCC
* **
20665 CAGGCCATAAATACAAATGTTTTATCGCATGATGAATAATAGACATCTTGTATTCCTACCCCTGT
1 CAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTCATATTCCTACCCCTGT
20730 TTTTGCATAATACAAAGGAATTA
66 TTTTGCATAATACAAAGGAATTA
*
20753 CAGGCCATAAATACAAATGTTTTATCTCACGATGAATAATAGACATCTCATATTCCTACCCCTGT
1 CAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTCATATTCCTACCCCTGT
20818 TTTTGCATAATA
66 TTTTGCATAATA
20830 TCATATGGCT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (88 bp):
CAGGCCATAAATACAAATGTTTTATCGCACGATGAATAATAGACATCTCATATTCCTACCCCTGT
TTTTGCATAATACAAAGGAATTA
Found at i:32233 original size:34 final size:34
Alignment explanation
Indices: 32152--32245 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
32142 CCAGTAGGGG
* *
32152 TCATGTAGTTGCATATTCAATAAGGGTTATCTGCA
1 TCATGTAGTTGCATATTCAGT-AGGGTCATCTGCA
*
32187 TCATGTAG-TGCATATTGAGTAGGGTCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
*
32220 TCATGTAGTTGCATATTTAGTAGGGT
1 TCATGTAGTTGCATATTCAGTAGGGT
32246 TCATGTAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
33 20 0.37
34 26 0.48
35 8 0.15
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (34 bp):
TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
Found at i:32256 original size:26 final size:26
Alignment explanation
Indices: 32219--32593 Score: 231
Period size: 26 Copynumber: 14.2 Consensus size: 26
32209 GGTCATCTGC
*
32219 ATCATGTAGTTGCATATTTAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
* *
32245 TTCATGTAGTTGCATATTGAGTATGGG
1 ATCATGTAGTTGCATATTCAGTA-GGG
* *
32272 -TCATATAATTGCATATTCAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
32297 ATCATGTAGTTGCATATTCAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
** * *
32323 -TTTTGTAG--G-GTCA-TC--TA--C
1 ATCATGTAGTTGCAT-ATTCAGTAGGG
32341 ATCATGTAGTTGCATATTCAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
* * *
32367 ATTATGTAGTTACATATTTAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
* ****
32393 -TCAGGTAGTTGCATTATGGTCA-TCTCC
1 ATCATGTAGTTGCA-TAT--TCAGTAGGG
*
32420 ATCATGTAGTTGAATATTCAGATTCAGTAGGG
1 ATCATGTAGTTG------CATATTCAGTAGGG
****
32452 ATCATGTAGTTGCATTATGGTCA-TCTCC
1 ATCATGTAGTTGCA-TAT--TCAGTAGGG
*
32480 ATCATGTAGTTGAATATTCAGATTCAGTAGGG
1 ATCATGTAGTTG------CATATTCAGTAGGG
32512 ATCATGTAGTTGCATATTCAGTAGGGG
1 ATCATGTAGTTGCATATTCAGTA-GGG
32539 A-CATGTAGTTGCATATTCAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
* *
32564 GTCATGTAGTAGCATATTCAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
32590 -TCAT
1 ATCAT
32594 CTACATCATG
Statistics
Matches: 269, Mismatches: 45, Indels: 71
0.70 0.12 0.18
Matches are distributed among these distances:
19 6 0.02
20 2 0.01
21 2 0.01
22 6 0.02
23 2 0.01
24 2 0.01
25 26 0.10
26 145 0.54
27 10 0.04
28 25 0.09
29 3 0.01
31 6 0.02
32 26 0.10
33 4 0.01
34 4 0.01
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (26 bp):
ATCATGTAGTTGCATATTCAGTAGGG
Found at i:32306 original size:52 final size:51
Alignment explanation
Indices: 32220--35296 Score: 1459
Period size: 52 Copynumber: 55.6 Consensus size: 51
32210 GTCATCTGCA
* * *
32220 TCATGTAGTTGCATATTTAGTAGGGTTCATGTAGTTGCATATTGAGTATGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GGG
* *
32272 TCATATAATTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
** * *
32323 TTTTGTAG--G-GTCA-TC--TA--CATCATGTAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCAT-ATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* * * * ****
32367 ATTATGTAGTTACATATTTAGTAGGG-TCAGGTAGTTGCATTATGGTCA-TCTCCA
1 -TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCA-TAT--TCAGT-AGGG
* ****
32421 TCATGTAGTTGAATATTCAGATTCAGTAGGGATCATGTAGTTGCATTATGGTCA-TCTCCA
1 TCATGTAGTTG------CATATTCAGTAGGGATCATGTAGTTGCA-TAT--TCAGT-AGGG
*
32481 TCATGTAGTTGAATATTCAGATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTG------CATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GGG
* * *
32539 ACATGTAGTTGCATATTCAGTAGGGGTCATGTAGTAGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
*
32590 TCATCTACATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGCATATTCAGTAGGG
1 ---------TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* *
32650 ATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGCATATTCAATAGGG
1 -TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
32702 ATCATGTAGTTGCATATTCAGTAGGGGAT-ATGTAGTTGCATATTCAGTAGGG
1 -TCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTAGGG
*
32754 CCATCTGCATCAAGTAGTTGCATATTCAGTAGGGCTATCTGCATCATGTTGTTGCATATTCAGTA
1 -----T-CAT---GTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGT-
*
32819 AGGA
48 AGGG
* *
32823 TCATGTAGTTGCATATTCAGTAGGGGTCATTTAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* *
32874 ATCATGTAGTTGCATATTTAGTAGGGATCATGTGGTTGCATATTCAGTAGGG
1 -TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
*
32926 TCATCACTACATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCCGTAGGG
1 -----------TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
*
32988 ATCATGTAGTTGCATATTCAGTAGGGCCATCTGCATCATGTAGTTGCATATTTAGTAGGGG
1 -TCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTA-GGG
* *
33049 TCATGTAGTTGAATATTCTGTAGGGATCATGTAGTTGCATATTCAGTAGGAG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGG-G
* * *
33101 TCATGTAGTTGCATATTCAGTTGGGTCATCTGCATCATGTAGTTGAATATTCTGTAGGG
1 TCATGTAGTTGCATATTCAG-TAGG------G-ATCATGTAGTTGCATATTCAGTAGGG
* * *
33160 ATCATGTAGTTGCATATTCAGTGGGGATCATGCAATTGCATATTCAGTAGGG
1 -TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* *
33212 TCATGCAATTGCATATTCAGTAAGGG-TCATGTAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGT-AGGGATCATGTAGTTGCATATTCAGTAGGG
* * *
33263 ATTATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCGGTA-GA
1 -TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* *
33314 T-GTGTAGTTGCATATTCAGTAGGGACCATGTAGTTGCATATTCAGTAAGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGT-AGGG
* * *
33365 TTATGAAGTTGCATATTCAGTAGAGG-TCATATAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTAG-GGATCATGTAGTTGCATATTCAGTAGGG
* * * *
33416 ATCATATAGTTGCATATTCAGTAGGGGA-CATGTAGTTGCATGTTCACTA--T
1 -TCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTAGGG
** * * * *
33466 TCA-GT-G--GGGTCA-TC--TA--CATCATGTAATGGCATATTCAGTTGGG
1 TCATGTAGTTGCAT-ATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* * * * *
33509 ATCATGTAGTGGCATATTTAGTTGGGTCATCTGCATCATGTAGTTGCATATTCACTA--T
1 -TCATGTAGTTGCATATTCAG-TAGG------G-ATCATGTAGTTGCATATTCAGTAGGG
* * * * *
33567 TCA-GTAG--G-GTCA-TC--TA--CATCATGTA-ATGACATATTCAATTGGG
1 TCATGTAGTTGCAT-ATTCAGTAGGGATCATGTAGTTG-CATATTCAGTAGGG
* * * *
33610 ATCATGTAGTGGCGTATTTAGTAGGGTCATCTACATCATGTAGTTGCATATTCGGTAGGG
1 -TCATGTAGTTGCATATTCAGTAGGG--------ATCATGTAGTTGCATATTCAGTAGGG
* *
33670 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGCATCATGTAATTGCATATTCAGTAGGGTCATC
1 -TCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTA-GG-----
33735 G
51 G
* * *
33736 ACATCATGTAGTTGCATATTCAGTAGTG-TCA--TCG--GCATCATGTC-GT--GA
1 ---TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCAT-AT-TCAGTAGGG
* *
33784 TCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTACATATGTATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAG-----T-TGCATATTCAGTAGGG
* *
33841 TCA--TCG--GC--A-TCATGTAGTGATCATGTAGTTGCATATTCAGTAGGGTCATCG
1 TCATGTAGTTGCATATTCA-GTAGGGATCATGTAGTTGCATATTCAGTA-GG-----G
33892 CTACATCATGTAGTTGCATATTCAGTAGGGGA-CATGTAGTTGCATATTCAGTAGGATCATCTG
1 -----TCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTAGG-------G
* * * * *
33955 CATCATGTAGTTG-ATGTTCAGTA-GAAGTAATGTTGTTGCATATTTAGTAGGG
1 --TCATGTAGTTGCATATTCAGTAGGGA-TCATGTAGTTGCATATTCAGTAGGG
* *
34007 ATCATGTAGTTGCA-ATTCAGTATGGG-TCATATAGTTGCATATTTAGTAGGG
1 -TCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTAGGG
* * * *
34058 TCATCTACATCATGTAGTAGCATATTCAGTATGGATCATGTAGTTGCATATTTAGTTGGCG
1 ---------TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGG-G
* * *
34119 TCATGTAGTTGCGTATTTAGTAGGCG-TCATGTAGTTGCATATTTAGTAGGG
1 TCATGTAGTTGCATATTCAGTAGG-GATCATGTAGTTGCATATTCAGTAGGG
* ** *
34170 TCATCTGCATCATGTAGTTGTATTCAGTAGGGTCATCTGCATAATGTTGTTGCATATTCAGTAGG
1 TCA--TG--T-A-GTTG-CATATTCAGTAGGG--A--T-C---ATGTAGTTGCATATTCAGTAGG
34235 G
51 G
*** *
34236 ATCATGTAGTTTTGTATTCAGTAAGGATCATGTAGTTGCATATTCAGTAGGGG
1 -TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GGG
* *
34289 ACATGTAGTTGCATATTCAGTAGGATCATCTGCATCATGTAGTTGCATATTCAATAGGATCATCT
1 TCATGTAGTTGCATATTCAGTAGG-------G-ATCATGTAGTTGCATATTCAGTAGG-------
34354 G
51 G
* * *
34355 CATCATGTAGTTGCATATTCAGTAGGGATCATGTAGATGCATATTCAATCGAGG
1 --TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAG-GG
* *
34409 TCATGAAGTTGCATATTCAGTAAGGATCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GGG
* * * *
34461 ACATATACTTGCATATTCAGCAGGGTCATTTGCATCATGTAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTAGGG
34520 ATCATGTAGTTGCATATTCAGTAGGGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTTATC
1 -TCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTA-GG-----
34585 TG
51 -G
* *
34587 CATCATGTAGTTGCATATT-AGTAGGGTCATATGCGTAATGTTGTTGCATATTTAGTAGGG
1 --TCATGTAGTTGCATATTCAGTAGGG----AT-C---ATGTAGTTGCATATTCAGTAGGG
* * *
34647 ATCATGTTGTTGCATATTCAGTGGGGTCATCTACACCATGTAGTTGCATATTTAGTAGGG
1 -TCATGTAGTTGCATATTCAGTAGGG--A--T----CATGTAGTTGCATATTCAGTAGGG
* * *
34707 TCATCTGCATAATGTTGTTGCATATTCTGTACGGATCATGTAGTTGCATATTCATTAGGGTCATG
1 TCA--TG--T-A----GTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GG----G
* *
34772 TACACCATGTAGTTGCATATTCAATAGGGATCATGTAGTT-CTGTATTCAGTAGGG
1 T----CATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGC-ATATTCAGTAGGG
* * *
34827 ATCATGTAGTTGCATATTAAGTAAGGG-TCATGTAGCTGCATATTCAGTAGTGA
1 -TCATGTAGTTGCATATTCAGT-AGGGATCATGTAGTTGCATATTCAGTAG-GG
34880 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCATCATGTAGTTGCATATTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTAGGG
* * *
34939 ATCGTGTAGTTGCATATTCAATAGGGGA-CATGTAGTTGCATATTTAGTAGGGTCATCTG
1 -TCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTA-GG------G
* * * * * * *
34998 CATCATGTAGTTGCATGTTGAATAGTGG-TAATGTTGTTGCATGTTCAGTAAGGA
1 --TCATGTAGTTGCATATTCAGTAG-GGATCATGTAGTTGCATATTCAGT-AGGG
* * ** * *
35052 TCATGTAGTTGCA-CTTCAGTACGTTTCATATAGTTGCATATTCAGTGGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
*
35102 TCATGTAGTTGCATATTCAGT-GGGGTCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GGG
* * *
35153 TGATGTAGTTGCATGTTCAGTAGGGATCATGTAGTTGCATGTTCAGTAGGG
1 TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
* *
35204 ATCATGTAGTTGCATAATCAGTAGGATCATCTACATCATGTAGTTGCATATTCAGTAGGG
1 -TCATGTAGTTGCATATTCAGTAGG--------GATCATGTAGTTGCATATTCAGTAGGG
*
35264 TCATCTATGATGTTGCATATTCAGTAGGG-TCAT
1 TCA--TGT-A-GTTGCATATTCAGTAGGGATCAT
35297 ATTCTTCATG
Statistics
Matches: 2421, Mismatches: 271, Indels: 664
0.72 0.08 0.20
Matches are distributed among these distances:
40 3 0.00
41 33 0.01
43 2 0.00
44 32 0.01
45 53 0.02
46 10 0.00
47 5 0.00
48 14 0.01
49 47 0.02
50 47 0.02
51 195 0.08
52 729 0.30
53 48 0.02
54 13 0.01
55 13 0.01
56 18 0.01
57 22 0.01
58 27 0.01
59 109 0.05
60 695 0.29
61 26 0.01
62 77 0.03
63 32 0.01
64 4 0.00
65 5 0.00
66 29 0.01
67 32 0.01
68 96 0.04
69 5 0.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (51 bp):
TCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
Found at i:32458 original size:32 final size:31
Alignment explanation
Indices: 32420--32749 Score: 139
Period size: 26 Copynumber: 11.7 Consensus size: 31
32410 GGTCATCTCC
32420 ATCATGTAGTTGAATATTCAGATTCAGTAGGG
1 ATCATGTAGTTGAATATTCAG-TTCAGTAGGG
* * ****
32452 ATCATGTAGTTG--CATT-ATGGTCA-TCTCC
1 ATCATGTAGTTGAATATTCA-GTTCAGTAGGG
32480 ATCATGTAGTTGAATATTCAGATTCAGTAGGG
1 ATCATGTAGTTGAATATTCAG-TTCAGTAGGG
*
32512 ATCATGTAGTTGCATATTCAG-T-AG--GGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
*
32539 A-CATGTAGTTGCATATTCAG-T-AG--GGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
* * * *
32565 -TCATGTAGTAGCATATTCAGTAGGGTCATCTA--C
1 ATCATGTAGTTGAATATTCAGT----TCA-GTAGGG
*
32598 ATCATGTAGTTGCATATTCAG-T-AG--GGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
*
32625 -TCATGTAGTTG--CA-T-A-TTCAGTAGGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
*
32650 ATCATGTAGTTGCATATTCAG-T-AG--GGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
*
32677 -TCATGTAGTTGCATATTCA----A-TAGGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
*
32702 ATCATGTAGTTGCATATTCAG-T-AG--GGG
1 ATCATGTAGTTGAATATTCAGTTCAGTAGGG
*
32729 AT-ATGTAGTTGCATATTCAGT
1 ATCATGTAGTTGAATATTCAGT
32750 AGGGCCATCT
Statistics
Matches: 241, Mismatches: 21, Indels: 77
0.71 0.06 0.23
Matches are distributed among these distances:
22 2 0.01
23 3 0.01
24 2 0.01
25 6 0.02
26 121 0.50
27 12 0.05
28 16 0.07
29 10 0.04
30 11 0.05
31 5 0.02
32 34 0.14
34 19 0.08
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (31 bp):
ATCATGTAGTTGAATATTCAGTTCAGTAGGG
Found at i:32478 original size:60 final size:60
Alignment explanation
Indices: 32386--32526 Score: 266
Period size: 60 Copynumber: 2.4 Consensus size: 60
32376 TTACATATTT
*
32386 AGTAGGG-TCAGGTAGTTGCATTATGGTCATCTCCATCATGTAGTTGAATATTCAGATTC
1 AGTAGGGATCATGTAGTTGCATTATGGTCATCTCCATCATGTAGTTGAATATTCAGATTC
32445 AGTAGGGATCATGTAGTTGCATTATGGTCATCTCCATCATGTAGTTGAATATTCAGATTC
1 AGTAGGGATCATGTAGTTGCATTATGGTCATCTCCATCATGTAGTTGAATATTCAGATTC
32505 AGTAGGGATCATGTAGTTGCAT
1 AGTAGGGATCATGTAGTTGCAT
32527 ATTCAGTAGG
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
59 7 0.09
60 73 0.91
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (60 bp):
AGTAGGGATCATGTAGTTGCATTATGGTCATCTCCATCATGTAGTTGAATATTCAGATTC
Found at i:32635 original size:26 final size:26
Alignment explanation
Indices: 32599--33461 Score: 410
Period size: 26 Copynumber: 32.7 Consensus size: 26
32589 GTCATCTACA
32599 TCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
*
32625 TCATGTAGTTGCATATTCAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
32651 TCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
32677 TCATGTAGTTGCATATTCAATAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
32703 TCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
32729 AT-ATGTAGTTGCATATTCAGTAGGGCCATCTG
1 -TCATGTAGTTGCATATTCAGTAGGG------G
*
32761 CATCAAGTAGTTGCATATTCAGTAGGGCTATCTG
1 --TCATGTAGTTGCATATTCAGTAGGG------G
* * *
32795 CATCATGTTGTTGCATATTCAGTAAGGA
1 --TCATGTAGTTGCATATTCAGTAGGGG
32823 TCATGTAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
32849 TCATTTAGTTGCATATTCAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
32875 TCATGTAGTTGCATATTTAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
*
32901 TCATGTGGTTGCATATTCAGTA-GGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* * * **
32926 TCAT-CA-CT--ACA-TCATGTAGTTG
1 TCATGTAGTTGCATATTCA-GTAGGGG
* * ** **
32948 -CATATTCAGTAG-GGA-TCATGTAGTTG
1 TCAT-GT-AGTTGCATATTCA-GTAGGGG
* * * **
32974 -CA--TA-TTCCGTAGGGATCATGTAGTTG
1 TCATGTAGTTGCATA---TTCA-GTAGGGG
* * * **
33000 -CATATTCAGTAGGGC-CA-TC--T--GCA
1 TCAT-GT-AGT--TGCATATTCAGTAGGGG
*
33023 TCATGTAGTTGCATATTTAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* * *
33049 TCATGTAGTTGAATATTCTGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
*
33075 TCATGTAGTTGCATATTCAGTAGGAG
1 TCATGTAGTTGCATATTCAGTAGGGG
*
33101 TCATGTAGTTGCATATTCAGT-TGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* ****
33126 TCA--T--CTGCATCATGT-AGTTGAATAT
1 TCATGTAGTTGCAT-AT-TCAG-T-AGGGG
* * ***
33151 TC-TGTAG--GGATCATGT-AGTTGCATAT
1 TCATGTAGTTGCAT-AT-TCAGTAG--GGG
** *
33177 TCAGTGGGGATCATGCA-ATTGCATATTCAGTAGGG
1 TCA-TGTAG-T--TGCATATT-C--AGT-AG--GGG
* * *
33212 TCATGCAATTGCATATTCAGTAAGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
*
33238 TCATGTAGTTGCATATTCAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
33264 TTATGTAGTTGCATATTCAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
33290 TCATGTAGTTGCATATTCGGTA--GA
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
33314 T-GTGTAGTTGCATATTCAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
33339 CCATGTAGTTGCATATTCAGTAAGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* * *
33365 TTATGAAGTTGCATATTCAGTAGAGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
33391 TCATATAGTTGCATATTCAGTAGGGA
1 TCATGTAGTTGCATATTCAGTAGGGG
*
33417 TCATATAGTTGCATATTCAGTAGGGG
1 TCATGTAGTTGCATATTCAGTAGGGG
* *
33443 ACATGTAGTTGCATGTTCA
1 TCATGTAGTTGCATATTCA
33462 CTATTCAGTG
Statistics
Matches: 668, Mismatches: 107, Indels: 124
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.01
21 15 0.02
22 12 0.02
23 24 0.04
24 8 0.01
25 17 0.03
26 495 0.74
27 1 0.00
28 6 0.01
29 3 0.00
30 2 0.00
31 8 0.01
32 5 0.01
33 6 0.01
34 56 0.08
35 5 0.01
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (26 bp):
TCATGTAGTTGCATATTCAGTAGGGG
Found at i:32860 original size:86 final size:79
Alignment explanation
Indices: 32796--35296 Score: 1183
Period size: 86 Copynumber: 29.7 Consensus size: 79
32786 GGCTATCTGC
* * *
32796 ATCATGTTGTTGCATATTCAGTAAGGATCATGTAGTTGCATATTCAGTAGGGGTCATTTAGTTGC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGC
32861 ATATTCAGTA-GGG
66 ATATTCAGTAGGGG
* * *
32874 ATCATGTAGTTGCATATTTAGTAGGGATCATGTGGTTGCATATTCAGTAGGGTCATCACTACATC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG----------GTC
32939 ATGTAGTTGCATATTCAGTA-GGG
56 ATGTAGTTGCATATTCAGTAGGGG
*
32962 ATCATGTAGTTGCATATTCCGTAGGGATCATGTAGTTGCATATTCAGTAGGGCCATCTGCATCAT
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG------G--TCAT
*
33027 GTAGTTGCATATTTAGTAGGGG
58 GTAGTTGCATATTCAGTAGGGG
* * *
33049 -TCATGTAGTTGAATATTCTGTAGGGATCATGTAGTTGCATATTCAGTAGGAGTCATGTAGTTGC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGC
*
33113 ATATTCAGTTGGGTCATCTG
66 ATATTCAGTAGGG------G
* * * *
33133 CATCATGTAGTTGAATATTCTGTAGGGATCATGTAGTTGCATATTCAGT-GGGGATCATGCAATT
1 -ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGG-TCATGTAGTT
33197 GCATATTCAGTA-GGG
64 GCATATTCAGTAGGGG
* * * *
33212 -TCATGCAATTGCATATTCAGTAAGGG-TCATGTAGTTGCATATTCAGTAGGGATTATGTAGTTG
1 ATCATGTAGTTGCATATTCAGT-AGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
33275 CATATTCAGTA-GGG
65 CATATTCAGTAGGGG
* * **
33289 ATCATGTAGTTGCATATTCGGTA--GAT-GTGTAGTTGCATATTCAGTAGGGACCATGTAGTTGC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGC
*
33351 ATATTCAGTAAGGG
66 ATATTCAGTAGGGG
* * * * *
33365 -TTATGAAGTTGCATATTCAGTAGAGG-TCATATAGTTGCATATTCAGTAGGGATCATATAGTTG
1 ATCATGTAGTTGCATATTCAGTAG-GGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
33428 CATATTCAGTAGGGG
65 CATATTCAGTAGGGG
* * * ** ** * *
33443 A-CATGTAGTTGCATGTTCACTA---TTCA-GT-G--GGGTCA-TC--TA--CATCATGTAATGG
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCAT-ATTCAGTAGGGGTCATGTAGTTG
*
33495 CATATTCAGT-TGGG
65 CATATTCAGTAGGGG
* * * *
33509 ATCATGTAGTGGCATATTTAGTTGGGTCATCTGCATCATGTAGTTGCATATTCACTATTCAGTAG
1 ATCATGTAGTTGCATATTCAG-TAGG------G-ATCATGTAGTTGCATATT--C-AGT-AG--G
* * *
33574 GGTCATCTACATCATGTAATGACATATTCAAT-TGGG
52 GGTCA--T--GT-A-GT--TG-CATATTCAGTAGGGG
* * * * *
33610 ATCATGTAGTGGCGTATTTAGTAGGGTCATCTACATCATGTAGTTGCATATTCGGTAGGGATCAT
1 ATCATGTAGTTGCATATTCAGTAGGG--------ATCATGTAGTTGCATATTCAGTAGGGGTCAT
*
33675 GTAGTTGCATATTTAGTAGGGTCATCTG
58 GTAGTTGCATATTCAGTAGGG------G
* *
33703 CATCATGTAATTGCATATTCAGTAGGGTCATCGACATCATGTAGTTGCATATTCAGTA-GTGTCA
1 -ATCATGTAGTTGCATATTCAGTA-GG-----G--ATCATGTAGTTGCATATTCAGTAGGGGTCA
*
33767 --TCG--GCATCATGTC-GT----G
57 TGTAGTTGCAT-AT-TCAGTAGGGG
* *
33783 ATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTACATATGTATATTCAGTA-GGGTCA--T
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAG-----T-TGCATATTCAGTAGGGGTCATGT
* *
33845 CG--GC--A-TCATGTA-GTG
60 AGTTGCATATTCA-GTAGGGG
*
33860 ATCATGTAGTTGCATATTCAGTAGGGTCATCGCTACATCATGTAGTTGCATATTCAGTAGGGGAC
1 ATCATGTAGTTGCATATTCAGTA-GG-----G----ATCATGTAGTTGCATATTCAGTAGGGGTC
*
33925 ATGTAGTTGCATATTCAGTAGGATCATCTGC
56 ATGTAGTTGCATATTCAGTAGG-------GG
* * * * * *
33956 ATCATGTAGTTG-ATGTTCAGTA-GAAGTAATGTTGTTGCATATTTAGTAGGGATCATGTAGTTG
1 ATCATGTAGTTGCATATTCAGTAGGGA-TCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
*
34019 CA-ATTCAGTATGGG
65 CATATTCAGTAGGGG
* * * * *
34033 -TCATATAGTTGCATATTTAGTAGGGTCATCTACATCATGTAGTAGCATATTCAGTATGGATCAT
1 ATCATGTAGTTGCATATTCAGTAGGG--------ATCATGTAGTTGCATATTCAGTAGGGGTCAT
* * *
34097 GTAGTTGCATATTTAGTTGGCG
58 GTAGTTGCATATTCAGTAGGGG
* * *
34119 -TCATGTAGTTGCGTATTTAGTAGGCG-TCATGTAGTTGCATATTTAGTAGGGTCATCTGCATCA
1 ATCATGTAGTTGCATATTCAGTAGG-GATCATGTAGTTGCATATTCAGTAGGG------G--TCA
34182 TGTAGTTG--TATTCAGTAGGGTCATCTG
57 TGTAGTTGCATATTCAGTAGGG------G
* * *** * *
34209 CATAATGTTGTTGCATATTCAGTAGGGATCATGTAGTTTTGTATTCAGTAAGGATCATGTAGTTG
1 -ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
34274 CATATTCAGTAGGGG
65 CATATTCAGTAGGGG
*
34289 A-CATGTAGTTGCATATTCAGTAGGATCATCTGCATCATGTAGTTGCATATTCAATAGGATCATC
1 ATCATGTAGTTGCATATTCAGTAGG-------G-ATCATGTAGTTGCATATTCAGTAGG------
*
34353 TGCATCATGTAGTTGCATATTCAGTA-GGG
52 -G-GTCATGTAGTTGCATATTCAGTAGGGG
* * * * * *
34382 ATCATGTAGATGCATATTCAATCGAGG-TCATGAAGTTGCATATTCAGTAAGGATCATGTAGTTG
1 ATCATGTAGTTGCATATTCAGTAG-GGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
34446 CATATTCAGTAGGGG
65 CATATTCAGTAGGGG
* * * *
34461 A-CATATACTTGCATATTCAGCAGGGTCATTTGCATCATGTAGTTGCATATTCAGTAGGGATCAT
1 ATCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTAGGGGTCAT
34525 GTAGTTGCATATTCAGTAGGGTCATCTG
58 GTAGTTGCATATTCAGTAGGG------G
34553 CATCATGTAGTTGCATATTCAGTAGGGTTATCTGCATCATGTAGTTGCATATT-AGTA-GGGTCA
1 -ATCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTAGGGGTC-
*
34616 TATGCGTAATGTTGTTGCATATTTAGTA-GGG
56 -AT--GT-A----GTTGCATATTCAGTAGGGG
* * *
34647 ATCATGTTGTTGCATATTCAGTGGGGTCATCTACACCATGTAGTTGCATATTTAGTA-GGGTCAT
1 ATCATGTAGTTGCATATTCAGTAGGG--A--T----CATGTAGTTGCATATTCAGTAGGGGTCA-
* *
34711 CTGCATAATGTTGTTGCATATTCTGTA-CGG
57 -TG--T-A----GTTGCATATTCAGTAGGGG
* * *
34741 ATCATGTAGTTGCATATTCATTAGGGTCATGTACACCATGTAGTTGCATATTCAATAGGGATCAT
1 ATCATGTAGTTGCATATTCAGTAGGG--A--T----CATGTAGTTGCATATTCAGTAGGGGTCAT
*
34806 GTAGTT-CTGTATTCAGTA-GGG
58 GTAGTTGC-ATATTCAGTAGGGG
* * * *
34827 ATCATGTAGTTGCATATTAAGTAAGGG-TCATGTAGCTGCATATTCAGTAGTGATCATGTAGTTG
1 ATCATGTAGTTGCATATTCAGT-AGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
34891 CATATTCAGTAGGGTCATCTG
65 CATATTCAGTAGGG------G
* * *
34912 CATCATGTAGTTGCATATTCAGTAGGGATCGTGTAGTTGCATATTCAATAGGGGACATGTAGTTG
1 -ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTG
*
34977 CATATTTAGTAGGGTCATCTG
65 CATATTCAGTAGGG------G
* * * * * * * *
34998 CATCATGTAGTTGCATGTTGAATAGTGG-TAATGTTGTTGCATGTTCAGTAAGGATCATGTAGTT
1 -ATCATGTAGTTGCATATTCAGTAG-GGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTT
* * *
35062 GCA-CTTCAGTA-CGT
64 GCATATTCAGTAGGGG
* * *
35076 TTCATATAGTTGCATATTCAGT-GGGGTCATGTAGTTGCATATTCAGT-GGGGTCATGTAGTTGC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGC
35139 ATATTCAGTAGGGG
66 ATATTCAGTAGGGG
* * * *
35153 -TGATGTAGTTGCATGTTCAGTAGGGATCATGTAGTTGCATGTTCAGTAGGGATCATGTAGTTGC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGC
* **
35217 ATAATCAGTAGGATCATCTAC
66 ATATTCAGTAGG-------GG
35238 ATCATGTAGTTGCATATTCAGTAGGGTCATCTATG-ATGTTGCATATTCAGTA-GGGTCAT
1 ATCATGTAGTTGCATATTCAGTAGGG--ATC-ATGTA-GTTGCATATTCAGTAGGGGTCAT
35297 ATTCTTCATG
Statistics
Matches: 1934, Mismatches: 239, Indels: 490
0.73 0.09 0.18
Matches are distributed among these distances:
66 4 0.00
67 34 0.02
68 1 0.00
69 2 0.00
71 12 0.01
72 3 0.00
73 2 0.00
74 4 0.00
75 83 0.04
76 59 0.03
77 158 0.08
78 316 0.16
79 35 0.02
80 4 0.00
81 13 0.01
82 10 0.01
83 1 0.00
84 38 0.02
85 86 0.04
86 471 0.24
87 25 0.01
88 89 0.05
89 28 0.01
90 7 0.00
91 6 0.00
92 52 0.03
93 56 0.03
94 218 0.11
95 22 0.01
96 15 0.01
97 4 0.00
98 2 0.00
99 1 0.00
100 7 0.00
101 66 0.03
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (79 bp):
ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGGTCATGTAGTTGC
ATATTCAGTAGGGG
Found at i:33521 original size:26 final size:26
Alignment explanation
Indices: 33483--33538 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
33473 GGTCATCTAC
33483 ATCATGTAATGGCATATTCAGTTGGG
1 ATCATGTAATGGCATATTCAGTTGGG
* *
33509 ATCATGTAGTGGCATATTTAGTTGGG
1 ATCATGTAATGGCATATTCAGTTGGG
33535 -TCAT
1 ATCAT
33539 CTGCATCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.38
Consensus pattern (26 bp):
ATCATGTAATGGCATATTCAGTTGGG
Found at i:33552 original size:34 final size:34
Alignment explanation
Indices: 33509--33778 Score: 180
Period size: 34 Copynumber: 8.2 Consensus size: 34
33499 TTCAGTTGGG
* *
33509 ATCATGTAGTGGCATATTTAGTTGGGTCATCTGC
1 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
*
33543 ATCATGTAGTTGCATATTCACTATTCAGTAGGGTCATCTAC
1 ATCATGTAGTTGC--A-T-A-T-TT-AGTAGGGTCATCTGC
* * * *
33584 ATCATGTA-ATGACATATTCA--A---T--T-GGG
1 ATCATGTAGTTG-CATATTTAGTAGGGTCATCTGC
* * *
33610 ATCATGTAGTGGCGTATTTAGTAGGGTCATCTAC
1 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
**
33644 ATCATGTAGTTGCATATTCGGTA-GG------G-
1 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
33670 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
1 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
* *
33704 ATCATGTAATTGCATATTCAGTAGGGTCATC-GAC
1 ATCATGTAGTTGCATATTTAGTAGGGTCATCTG-C
* * *
33738 ATCATGTAGTTGCATATTCAGTAGTGTCATCGGC
1 ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
33772 ATCATGT
1 ATCATGT
33779 CGTGATCATG
Statistics
Matches: 183, Mismatches: 26, Indels: 54
0.70 0.10 0.21
Matches are distributed among these distances:
26 35 0.19
27 4 0.02
28 1 0.01
29 1 0.01
31 1 0.01
32 1 0.01
33 5 0.03
34 99 0.54
35 2 0.01
36 2 0.01
37 2 0.01
38 2 0.01
39 2 0.01
40 4 0.02
41 22 0.12
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (34 bp):
ATCATGTAGTTGCATATTTAGTAGGGTCATCTGC
Found at i:33557 original size:101 final size:101
Alignment explanation
Indices: 33444--33662 Score: 375
Period size: 101 Copynumber: 2.2 Consensus size: 101
33434 CAGTAGGGGA
* * * *
33444 CATGTAGTTGCATGTTCACTATTCAGTGGGGTCATCTACATCATGTAATGGCATATTCAGTTGGG
1 CATGTAGTTGCATATTCACTATTCAGTAGGGTCATCTACATCATGTAATGACATATTCAATTGGG
* *
33509 ATCATGTAGTGGCATATTTAGTTGGGTCATCTGCAT
66 ATCATGTAGTGGCATATTTAGTAGGGTCATCTACAT
33545 CATGTAGTTGCATATTCACTATTCAGTAGGGTCATCTACATCATGTAATGACATATTCAATTGGG
1 CATGTAGTTGCATATTCACTATTCAGTAGGGTCATCTACATCATGTAATGACATATTCAATTGGG
*
33610 ATCATGTAGTGGCGTATTTAGTAGGGTCATCTACAT
66 ATCATGTAGTGGCATATTTAGTAGGGTCATCTACAT
33646 CATGTAGTTGCATATTC
1 CATGTAGTTGCATATTC
33663 GGTAGGGATC
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 111 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (101 bp):
CATGTAGTTGCATATTCACTATTCAGTAGGGTCATCTACATCATGTAATGACATATTCAATTGGG
ATCATGTAGTGGCATATTTAGTAGGGTCATCTACAT
Found at i:33600 original size:41 final size:41
Alignment explanation
Indices: 33523--33603 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
33513 TGTAGTGGCA
* * * *
33523 TATTTAGTTGGGTCATCTGCATCATGTAGTTGCATATTCAC
1 TATTCAGTAGGGTCATCTACATCATGTAGATGCATATTCAC
33564 TATTCAGTAGGGTCATCTACATCATGTA-ATGACATATTCA
1 TATTCAGTAGGGTCATCTACATCATGTAGATG-CATATTCA
33604 ATTGGGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (41 bp):
TATTCAGTAGGGTCATCTACATCATGTAGATGCATATTCAC
Found at i:33662 original size:60 final size:59
Alignment explanation
Indices: 33564--33733 Score: 225
Period size: 60 Copynumber: 2.8 Consensus size: 59
33554 GCATATTCAC
* * * *
33564 TATTCAGTAGGGTCATCTACATCATGTAATGACATATTCAATTGGGATCATGTAGTGGCG
1 TATTTAGTAGGGTCATCTACATCATGTATTG-CATATTCAATAGGGATCATGTAGTGGCA
** *
33624 TATTTAGTAGGGTCATCTACATCATGTAGTTGCATATTCGGTAGGGATCATGTAGTTGCA
1 TATTTAGTAGGGTCATCTACATCATGTA-TTGCATATTCAATAGGGATCATGTAGTGGCA
* *
33684 TATTTAGTAGGGTCATCTGCATCATGTAATTGCATATTCAGTAGGG-TCAT
1 TATTTAGTAGGGTCATCTACATCATGT-ATTGCATATTCAATAGGGATCAT
33734 CGACATCATG
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
59 4 0.04
60 92 0.93
61 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (59 bp):
TATTTAGTAGGGTCATCTACATCATGTATTGCATATTCAATAGGGATCATGTAGTGGCA
Found at i:33693 original size:26 final size:26
Alignment explanation
Indices: 33644--33699 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
33634 GGTCATCTAC
*
33644 ATCATGTAGTTGCATATTCGGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
*
33670 ATCATGTAGTTGCATATTTAGTAGGG
1 ATCATGTAGTTGCATATTCAGTAGGG
33696 -TCAT
1 ATCAT
33700 CTGCATCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.38
Consensus pattern (26 bp):
ATCATGTAGTTGCATATTCAGTAGGG
Found at i:34036 original size:25 final size:25
Alignment explanation
Indices: 33957--34061 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
33947 ATCATCTGCA
* * *
33957 TCATGTAGTTG-ATGTTCAGTAGAAG
1 TCATGTAGTTGCATATTTAGTAG-GG
* *
33982 TAATGTTGTTGCATATTTAGTAGGG
1 TCATGTAGTTGCATATTTAGTAGGG
*
34007 ATCATGTAGTTGCA-ATTCAGTATGGG
1 -TCATGTAGTTGCATATTTAGTA-GGG
*
34033 TCATATAGTTGCATATTTAGTAGGG
1 TCATGTAGTTGCATATTTAGTAGGG
34058 TCAT
1 TCAT
34062 CTACATCATG
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
25 36 0.55
26 30 0.45
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.39
Consensus pattern (25 bp):
TCATGTAGTTGCATATTTAGTAGGG
Found at i:34102 original size:60 final size:60
Alignment explanation
Indices: 34007--35330 Score: 468
Period size: 60 Copynumber: 22.5 Consensus size: 60
33997 TTTAGTAGGG
* *
34007 ATCATGTAGTTGCA-ATTCAGTATGGG-TCATATAGTTGCATATTTAGTAGGGTCATCTAC
1 ATCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* * **
34066 ATCATGTAGTAGCATATTCAGTATGGATCATGTAGTTGCATATT---TA--GT--T-GGC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* * * * *
34118 GTCATGTAGTTGCGTATTTAGTAGGCG-TCATGTAGTTGCATATTTAGTAGGGTCATCTGC
1 ATCATGTAGTTGCATATTCAGTAGG-GATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
*
34178 ATCATGTAGTTG--TATTCAGTAGGGTCATCTGCATAATGTTGTTGCATATTCAGTAGGG-----
1 ATCATGTAGTTGCATATTCAGTAGGG--A--T-C---ATGTAGTTGCATATTCAGTAGGGTCATC
34236 ---
58 TAC
*** * *
34236 ATCATGTAGTTTTGTATTCAGTAAGGATCATGTAGTTGCATATTCAGTAGGG-------G
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* *
34289 A-CATGTAGTTGCATATTCAGTAGGATCATCTGCATCATGTAGTTGCATATTCAATAGGATCATC
1 ATCATGTAGTTGCATATTCAGTAGG-------G-ATCATGTAGTTGCATATTCAGTAGGGTCATC
*
34353 TGC
58 TAC
* * *
34356 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGATGCATATTC---A-----ATCGAG
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* * * * *
34408 GTCATGAAGTTGCATATTCAGTAAGGATCATGTAGTTGCATATTCAGTAGGGGACATATAC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTA-GGGTCATCTAC
* *** ** *
34469 TTGCA--TA-TTCAGCAGGGTCA-TTTGCATCATGTAGTTGCATATTCAGTAGGG--------
1 AT-CATGTAGTT--GCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
*
34520 ATCATGTAGTTGCATATTCAGTAGGGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGTTATC
1 ATCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTAGGGTCATC
*
34585 TGC
58 TAC
* *
34588 ATCATGTAGTTGCATATT-AGTAGGGTCATATGCGTAATGTTGTTGCATATTTAGTAGGG-----
1 ATCATGTAGTTGCATATTCAGTAGGG----AT-C---ATGTAGTTGCATATTCAGTAGGGTCATC
34647 ---
58 TAC
* * *
34647 ATCATGTTGTTGCATATTCAGTGGGGTCATCTACACCATGTAGTTGCATATTTAGTAGGGTCATC
1 ATCATGTAGTTGCATATTCAGTAGGG--A--T----CATGTAGTTGCATATTCAGTAGGGTCATC
*
34712 TGC
58 TAC
* * * * * *
34715 ATAATGTTGTTGCATATTCTGTACGGATCATGTAGTTGCATATTCATTAGGGTCATGTAC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* * *
34775 ACCATGTAGTTGCATATTCAATAGGGATCATGTAGTT-CTGTATTCAGTAGGG--------
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGC-ATATTCAGTAGGGTCATCTAC
* * *
34827 ATCATGTAGTTGCATATTAAGTAAGGG-TCATGTAGCTGCATATTCAGTA--G-----T-G
1 ATCATGTAGTTGCATATTCAGT-AGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
34879 ATCATGTAGTTGCATATTCAGTAGGGTCATCTGCATCATGTAGTTGCATATTCAGTAGGG-----
1 ATCATGTAGTTGCATATTCAGTA-GG------G-ATCATGTAGTTGCATATTCAGTAGGGTCATC
34939 ---
58 TAC
* * * *
34939 ATCGTGTAGTTGCATATTCAATAGGGGA-CATGTAGTTGCATATTTAGTAGGGTCATCTGC
1 ATCATGTAGTTGCATATTCAGTA-GGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* * * * * * * *
34999 ATCATGTAGTTGCATGTTGAATAGTGG-TAATGTTGTTGCATGTTCAGTAAGGATCATGTAGTTG
1 ATCATGTAGTTGCATATTCAGTAG-GGATCATGTAGTTGCATATTCAGT-AGGGTCATCTA----
35063 C
60 C
*
35064 ACTTCA-GTACGTTTCATATAGTTGCATATTCAGT-GGGGTCATGTAGTTGCATATTCAGT-GGG
1 A--TCATGTA-G-----T-----TGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGG
35126 --------
53 TCATCTAC
* * * *
35126 GTCATGTAGTTGCATATTCAGTAGGGGTGATGTAGTTGCATGTTCAGTAGGG--------
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* * *
35178 ATCATGTAGTTGCATGTTCAGTAGGGATCATGTAGTTGCATAATCAGTAGGATCATCTAC
1 ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
* *
35238 ATCATGTAGTTGCATATTCAGTAGGGTCATCTATG-ATGTTGCATATTCAGTAGGGTCATATTC
1 ATCATGTAGTTGCATATTCAGTAGGG--ATC-ATGTA-GTTGCATATTCAGTAGGGTCATCTAC
* *
35301 TTCATGTAGTTGCATATTTAGTAGGG-TCAT
1 ATCATGTAGTTGCATATTCAGTAGGGATCAT
35331 CTGCATCCTG
Statistics
Matches: 993, Mismatches: 120, Indels: 304
0.70 0.08 0.21
Matches are distributed among these distances:
50 15 0.02
51 31 0.03
52 257 0.26
53 12 0.01
54 1 0.00
55 7 0.01
56 1 0.00
57 6 0.01
58 24 0.02
59 43 0.04
60 356 0.36
61 22 0.02
62 8 0.01
63 53 0.05
64 2 0.00
65 2 0.00
66 27 0.03
67 30 0.03
68 63 0.06
72 1 0.00
74 2 0.00
75 2 0.00
76 19 0.02
77 9 0.01
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (60 bp):
ATCATGTAGTTGCATATTCAGTAGGGATCATGTAGTTGCATATTCAGTAGGGTCATCTAC
Found at i:34115 original size:12 final size:12
Alignment explanation
Indices: 34098--34165 Score: 55
Period size: 12 Copynumber: 5.3 Consensus size: 12
34088 ATGGATCATG
*
34098 TAGTTGCATATT
1 TAGTTGCGTATT
*
34110 TAGTTGGCGTCATG
1 TAGTT-GCGT-ATT
34124 TAGTTGCGTATT
1 TAGTTGCGTATT
* *
34136 TAGTAGGCGTCATG
1 TAGT-TGCGT-ATT
*
34150 TAGTTGCATATT
1 TAGTTGCGTATT
34162 TAGT
1 TAGT
34166 AGGGTCATCT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
12 17 0.39
13 14 0.32
14 13 0.30
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (12 bp):
TAGTTGCGTATT
Found at i:34129 original size:14 final size:14
Alignment explanation
Indices: 34093--34155 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 14
34083 TCAGTATGGA
*
34093 TCATGTAGTT-GCA
1 TCATGTAGTTGGCG
*
34106 T-ATTTAGTTGGCG
1 TCATGTAGTTGGCG
34119 TCATGTAGTT-GCG
1 TCATGTAGTTGGCG
* *
34132 T-ATTTAGTAGGCG
1 TCATGTAGTTGGCG
34145 TCATGTAGTTG
1 TCATGTAGTTG
34156 CATATTTAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
12 13 0.33
13 12 0.31
14 14 0.36
ACGTcount: A:0.19, C:0.11, G:0.29, T:0.41
Consensus pattern (14 bp):
TCATGTAGTTGGCG
Found at i:34188 original size:34 final size:34
Alignment explanation
Indices: 34145--34805 Score: 329
Period size: 34 Copynumber: 20.9 Consensus size: 34
34135 TTAGTAGGCG
*
34145 TCATGTAGTTGCATATTTAGTAGGGTCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
34179 TCATGTAGTTG--TATTCAGTAGGGTCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* *
34211 TAATGTTGTTGCATATTCAGTAGGG--ATCATG--
1 TCATGTAGTTGCATATTCAGTAGGGTCATC-TGCA
* *
34242 T-A-GT-TTTG--TATTCAGTAAGG--ATCATG--
1 TCATGTAGTTGCATATTCAGTAGGGTCATC-TGCA
34268 -----TAGTTGCATATTCAGTAGGG------G-A
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
*
34290 -CATGTAGTTGCATATTCAGTAGGATCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* *
34323 TCATGTAGTTGCATATTCAATAGGATCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
34357 TCATGTAGTTGCATATTCAGTA-GG------G-A
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * * *
34383 TCATGTAGATGCATATTCAATCGAGGTCATGAAGTTGCA
1 TCATGTAGTTGCATATTCAGTAG-GGTCAT----CTGCA
* * * ** *
34422 T-AT-TCAGTAAGGATCATGT-AGTTGCAT-ATTCAGTAGGGGA
1 TCATGT-AGT-TGCAT-AT-TCAGTAGGGTCA-TC--T---GCA
* * * *
34462 -CATATACTTGCATATTCAGCAGGGTCATTTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
34495 TCATGTAGTTGCATATTCAGTA-GG------G-A
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
34521 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
*
34555 TCATGTAGTTGCATATTCAGTAGGGTTATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* *
34589 TCATGTAGTTGCATATT-AGTAGGGTCATATGCG
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * *
34622 TAATGTTGTTGCATATTTAGTA-GG------G-A
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * *
34648 TCATGTTGTTGCATATTCAGTGGGGTCATCTACA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* *
34682 CCATGTAGTTGCATATTTAGTAGGGTCATCTGCA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * *
34716 TAATGTTGTTGCATATTC--T---GT-A-C-GGA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* * *
34742 TCATGTAGTTGCATATTCATTAGGGTCATGTACA
1 TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
* *
34776 CCATGTAGTTGCATATTCAATAGGGATCAT
1 TCATGTAGTTGCATATTCAGTAGGG-TCAT
34806 GTAGTTCTGT
Statistics
Matches: 491, Mismatches: 63, Indels: 145
0.70 0.09 0.21
Matches are distributed among these distances:
21 1 0.00
23 1 0.00
24 3 0.01
26 127 0.26
27 8 0.02
28 7 0.01
29 4 0.01
30 1 0.00
31 3 0.01
32 35 0.07
33 39 0.08
34 217 0.44
35 4 0.01
36 1 0.00
37 3 0.01
38 13 0.03
39 11 0.02
40 11 0.02
41 2 0.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (34 bp):
TCATGTAGTTGCATATTCAGTAGGGTCATCTGCA
Found at i:34922 original size:34 final size:30
Alignment explanation
Indices: 33859--35354 Score: 556
Period size: 26 Copynumber: 51.7 Consensus size: 30
33849 ATCATGTAGT
33859 GATCATGTAGTTGCATATTCAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
33891 GCTACATCATGTAGTTGCATATTCAGTAGGG---
1 G----ATCATGTAGTTGCATATTCAGTAGGGATC
*
33922 GA-CATGTAGTTGCATATTCAGTAGGATCATC
1 GATCATGTAGTTGCATATTCAGTAGG--GATC
* *
33953 TGCATCATGTAGTTG-ATGTTCAGTA--GA-A
1 -G-ATCATGTAGTTGCATATTCAGTAGGGATC
* * *
33981 G-TAATGTTGTTGCATATTTAGTA-GG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
34006 GATCATGTAGTTGCA-ATTCAGTATGGG-TC
1 GATCATGTAGTTGCATATTCAGTA-GGGATC
*
34035 -AT-A--TAGTTGCATATTTAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
* * *
34063 TACATCATGTAGTAGCATATTCAGT----ATG
1 --GATCATGTAGTTGCATATTCAGTAGGGATC
* *
34091 GATCATGTAGTTGCATATTTAGT-TGG--C
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
34118 G-TCATGTAGTTGCGTATTTAGTA-GG--C
1 GATCATGTAGTTGCATATTCAGTAGGGATC
*
34144 G-TCATGTAGTTGCATATTTAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
34175 TGCATCATGTAGTTG--TATTCAGTAGGGTCATC
1 -G-ATCATGTAGTTGCATATTCAGTAGGG--ATC
* *
34207 TGCATAATGTTGTTGCATATTCAGTA-GG---
1 -G-ATCATGTAGTTGCATATTCAGTAGGGATC
*** *
34235 GATCATGTAGTTTTGTATTCAGTA---A-G
1 GATCATGTAGTTGCATATTCAGTAGGGATC
34261 GATCATGTAGTTGCATATTCAGTAGGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
*
34288 GA-CATGTAGTTGCATATTCAGTAGGATCATC
1 GATCATGTAGTTGCATATTCAGTAGG--GATC
* *
34319 TGCATCATGTAGTTGCATATTCAATAGGATCATC
1 -G-ATCATGTAGTTGCATATTCAGTAGG--GATC
34353 TGCATCATGTAGTTGCATATTCAGTA-GG---
1 -G-ATCATGTAGTTGCATATTCAGTAGGGATC
* **
34381 GATCATGTAGATGCATATTCA--ATCGA--
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* * *
34407 GGTCATGAAGTTGCATATTCAGTA---A-G
1 GATCATGTAGTTGCATATTCAGTAGGGATC
34433 GATCATGTAGTTGCATATTCAGTAGGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* * * *
34460 GA-CATATACTTGCATATTCAGCAGGGTCATTT
1 GATCATGTAGTTGCATATTCAGTAGGG--A-TC
34492 GCATCATGTAGTTGCATATTCAGTA-GG---
1 G-ATCATGTAGTTGCATATTCAGTAGGGATC
34519 GATCATGTAGTTGCATATTCAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
34551 TGCATCATGTAGTTGCATATTCAGTAGGGTTATC
1 -G-ATCATGTAGTTGCATATTCAGTAGGG--ATC
34585 TGCATCATGTAGTTGCATATT-AGTAGGGTCATATGC
1 -G-ATCATGTAGTTGCATATTCAGTAGGG----AT-C
* * *
34621 G-TAATGTTGTTGCATATTTAGTA-GG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
34646 GATCATGTTGTTGCATATTCAGTGGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
* * *
34678 TACACCATGTAGTTGCATATTTAGTAGGGTCATC
1 --GATCATGTAGTTGCATATTCAGTAGGG--ATC
* * * *
34712 TGCATAATGTTGTTGCATATTCTGTA-CG---
1 -G-ATCATGTAGTTGCATATTCAGTAGGGATC
*
34740 GATCATGTAGTTGCATATTCATTAGGG-TC
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
34769 ATGTACACCATGTAGTTGCATATTCAATA-GG---
1 --G---ATCATGTAGTTGCATATTCAGTAGGGATC
*
34800 GATCATGTAGTT-CTGTATTCAGTA-GG---
1 GATCATGTAGTTGC-ATATTCAGTAGGGATC
* *
34826 GATCATGTAGTTGCATATTAAGTAAGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
*
34853 G-TCATGTAGCTGCATATTCAGTA--G-T-
1 GATCATGTAGTTGCATATTCAGTAGGGATC
34878 GATCATGTAGTTGCATATTCAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
34910 TGCATCATGTAGTTGCATATTCAGTAGGGATC
1 -G-ATCATGTAGTTGCATATTCAGTAGGGATC
*
34942 G----TGTAGTTGCATATTCAATAGGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
*
34965 GA-CATGTAGTTGCATATTTAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
* * *
34996 TGCATCATGTAGTTGCATGTTGAATAGTGG-T-
1 -G-ATCATGTAGTTGCATATTCAGTAG-GGATC
* * *
35027 -A--ATGTTGTTGCATGTTCAGTA---A-G
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
35050 GATCATGTAGTTGCA-CTTCAGTA-CG-T-
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
35076 -TTCATATAGTTGCATATTCAGT-GGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
35101 G-TCATGTAGTTGCATATTCAGT-GGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
35126 G-TCATGTAGTTGCATATTCAGTAGGG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
35152 G-TGATGTAGTTGCATGTTCAGTA-GG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
*
35177 GATCATGTAGTTGCATGTTCAGTA-GG---
1 GATCATGTAGTTGCATATTCAGTAGGGATC
* *
35203 GATCATGTAGTTGCATAATCAGTAGGATCATC
1 GATCATGTAGTTGCATATTCAGTAGG--GATC
*
35235 TACATCATGTAGTTGCATATTCAGTAGGG-TC
1 --GATCATGTAGTTGCATATTCAGTAGGGATC
35266 -ATCTATG-ATGTTGCATATTCAGTAGGGTCATATTC
1 GATC-ATGTA-GTTGCATATTCAGTAGGG----A-TC
* *
35301 -TTCATGTAGTTGCATATTTAGTAGGGTCATC
1 GATCATGTAGTTGCATATTCAGTAGGG--ATC
* *
35332 TGCATCCTGTATTTGCATATTCA
1 -G-ATCATGTAGTTGCATATTCA
35355 ATAAGTGCCA
Statistics
Matches: 1187, Mismatches: 117, Indels: 318
0.73 0.07 0.20
Matches are distributed among these distances:
23 1 0.00
24 3 0.00
25 100 0.08
26 542 0.46
27 27 0.02
28 13 0.01
29 23 0.02
31 11 0.01
32 41 0.03
33 47 0.04
34 341 0.29
35 11 0.01
36 27 0.02
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (30 bp):
GATCATGTAGTTGCATATTCAGTAGGGATC
Found at i:34922 original size:112 final size:109
Alignment explanation
Indices: 34777--35296 Score: 432
Period size: 112 Copynumber: 4.8 Consensus size: 109
34767 TCATGTACAC
* *
34777 CATGTAGTTGCATATTCAATA-GG----GATCATGTAGTT-CTGTATTCAGTAGGGATCATGTAG
1 CATGTAGTTGCATATTCAGTAGGGTACTGATCATGTAGTTGC-ATATTCAGTAGGGATCATGTAG
* * *
34836 TTGCATATTAAGTAAGGGTCATGTAGCTGCATATTCAGTAGTGAT
65 TTGCATATTCAGTAAGGGTCATGTAGTTGCATATTCAGTAGGGAT
*
34881 CATGTAGTTGCATATTCAGTAGGGTCATCTGCATCATGTAGTTGCATATTCAGTAGGGATCGTGT
1 CATGTAGTTGCATATTCAGTAGGGT-A-CTG-ATCATGTAGTTGCATATTCAGTAGGGATCATGT
* * * *
34946 AGTTGCATATTCAATAGGGGACATGTAGTTGCATATTTAGTAGGG-T
63 AGTTGCATATTCAGTAAGGGTCATGTAGTTGCATATTCAGTAGGGAT
* * * ** * * * * * *
34992 CATCT-GCAT-CATGTAGTTGCATGTTGAATAGTGGTAATGTTGTTGCATGTTCAGTAAGGATCA
1 CATGTAG-TTGCA--TA-TT-CA-GTAGGGTACTGATCATGTAGTTGCATATTCAGTAGGGATCA
* * ** * *
35055 TGTAGTTGCA-CTTCAGTACGTTTCATATAGTTGCATATTCAGT-GGGGT
60 TGTAGTTGCATATTCAGTAAGGGTCATGTAGTTGCATATTCAGTAGGGAT
* *
35103 CATGTAGTTGCATATTCAGT-GGG----G-TCATGTAGTTGCATATTCAGTAGGGGTGATGTAGT
1 CATGTAGTTGCATATTCAGTAGGGTACTGATCATGTAGTTGCATATTCAGTAGGGATCATGTAGT
* *
35162 TGCATGTTCAGT-AGGGATCATGTAGTTGCATGTTCAGTAGGGAT
66 TGCATATTCAGTAAGGG-TCATGTAGTTGCATATTCAGTAGGGAT
* * *
35206 CATGTAGTTGCATAATCAGTAGGATCATCTACATCATGTAGTTGCATATTCAGTAGGGTCATCTA
1 CATGTAGTTGCATATTCAGTAGGGT-A-CT-GATCATGTAGTTGCATATTCAGTAGGG--ATC-A
35271 TG-ATGTTGCATATTCAGT-AGGGTCAT
60 TGTA-GTTGCATATTCAGTAAGGGTCAT
35297 ATTCTTCATG
Statistics
Matches: 329, Mismatches: 53, Indels: 58
0.75 0.12 0.13
Matches are distributed among these distances:
101 34 0.10
102 26 0.08
103 23 0.07
104 22 0.07
105 2 0.01
106 1 0.00
107 2 0.01
108 2 0.01
109 2 0.01
110 8 0.02
111 38 0.12
112 131 0.40
113 5 0.02
114 9 0.03
115 24 0.07
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (109 bp):
CATGTAGTTGCATATTCAGTAGGGTACTGATCATGTAGTTGCATATTCAGTAGGGATCATGTAGT
TGCATATTCAGTAAGGGTCATGTAGTTGCATATTCAGTAGGGAT
Found at i:35311 original size:63 final size:63
Alignment explanation
Indices: 35178--35332 Score: 210
Period size: 63 Copynumber: 2.5 Consensus size: 63
35168 TTCAGTAGGG
* *
35178 ATCATGTAGTTGCATGTTCAGTAGGG--ATC-ATGTAGTTGCATAATCAGTAGGATCATCTAC
1 ATCATGTAGTTGCATATTCAGTAGGGTCATCTATGTAGTTGCATAATCAGTAGGATCATATAC
* * *
35238 ATCATGTAGTTGCATATTCAGTAGGGTCATCTATG-ATGTTGCATATTCAGTAGGGTCATATTC
1 ATCATGTAGTTGCATATTCAGTAGGGTCATCTATGTA-GTTGCATAATCAGTAGGATCATATAC
* *
35301 TTCATGTAGTTGCATATTTAGTAGGGTCATCT
1 ATCATGTAGTTGCATATTCAGTAGGGTCATCT
35333 GCATCCTGTA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
60 25 0.30
62 4 0.05
63 55 0.65
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (63 bp):
ATCATGTAGTTGCATATTCAGTAGGGTCATCTATGTAGTTGCATAATCAGTAGGATCATATAC
Found at i:35438 original size:33 final size:33
Alignment explanation
Indices: 35204--35720 Score: 252
Period size: 33 Copynumber: 16.3 Consensus size: 33
35194 TTCAGTAGGG
* * * *
35204 ATCATGTAGTTGCATAATCAGTAGGATCATCTAC
1 ATCATATAGTT-CATATTCAGTAGGGTCATCTGC
*
35238 ATCATGTAGTTGCATATTCAGTAGGGTCATCT--
1 ATCATATAGTT-CATATTCAGTAGGGTCATCTGC
* * *
35270 AT--GAT-GTTGCATATTCAGTAGGGTCATATTC
1 ATCATATAGTT-CATATTCAGTAGGGTCATCTGC
* * *
35301 TTCATGTAGTTGCATATTTAGTAGGGTCATCTGC
1 ATCATATAGTT-CATATTCAGTAGGGTCATCTGC
* * * * * *
35335 ATCCTGTATTTGCATATTCAATAAGTGCCATCTGC
1 ATCATATAGTT-CATATTCAGT-AGGGTCATCTGC
* * * ** * * *
35370 GTCATTTAATTGCATATTTGGTAGGCTCTTTTGC
1 ATCATATAGTT-CATATTCAGTAGGGTCATCTGC
*
35404 ATCATATAGTTCATATTCAGCAGGGTCATCTGC
1 ATCATATAGTTCATATTCAGTAGGGTCATCTGC
* *
35437 ATCATACAG-TCATTTTCAGTA--G-C--CT--
1 ATCATATAGTTCATATTCAGTAGGGTCATCTGC
* * *
35462 -T-ATATAGTTCATATTCAGCAAGGTCATATG-
1 ATCATATAGTTCATATTCAGTAGGGTCATCTGC
* * *
35492 ATTCATTTAGTCCATATTCAGTAAGGTCATCTGC
1 A-TCATATAGTTCATATTCAGTAGGGTCATCTGC
*
35526 ATCATATAGTT-ATATTTAGTAGGGTCA--TG-
1 ATCATATAGTTCATATTCAGTAGGGTCATCTGC
* * * * * *
35555 AT-TTATTAAGTCCATATTCATTAAGGTTATTTGC
1 ATCATA-T-AGTTCATATTCAGTAGGGTCATCTGC
* * * *
35589 ATTATATAG-TGATAATCAGTAGGGCCATCTGC
1 ATCATATAGTTCATATTCAGTAGGGTCATCTGC
*
35621 ATTATATAGCTT-A-ATT-AGTAGGGTCA--T-C
1 ATCATATAG-TTCATATTCAGTAGGGTCATCTGC
* *
35649 ATC---TAGTCCATATTCAGTAGGGTCTTCTGC
1 ATCATATAGTTCATATTCAGTAGGGTCATCTGC
* *
35679 ATCATATAG-TCTATATTCAGCAGGGTCATCAGC
1 ATCATATAGTTC-ATATTCAGTAGGGTCATCTGC
35712 ATCATATAG
1 ATCATATAG
35721 CCTTATTAGT
Statistics
Matches: 369, Mismatches: 78, Indels: 73
0.71 0.15 0.14
Matches are distributed among these distances:
23 5 0.01
24 12 0.03
25 4 0.01
26 4 0.01
27 12 0.03
28 5 0.01
29 30 0.08
30 11 0.03
31 22 0.06
32 54 0.15
33 93 0.25
34 90 0.24
35 27 0.07
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (33 bp):
ATCATATAGTTCATATTCAGTAGGGTCATCTGC
Found at i:35567 original size:63 final size:63
Alignment explanation
Indices: 35489--35612 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
35479 GCAAGGTCAT
* * * *
35489 ATGATTCATTTAGTCCATATTCAGTAAGGTCATCTGCATCATATAGTTATATTTAGTAGGGTC
1 ATGATTCATTAAGTCCATATTCAGTAAGGTCATCTGCATCATATAGTGATAATCAGTAGGGTC
* * * * *
35552 ATGATTTATTAAGTCCATATTCATTAAGGTTATTTGCATTATATAGTGATAATCAGTAGGG
1 ATGATTCATTAAGTCCATATTCAGTAAGGTCATCTGCATCATATAGTGATAATCAGTAGGG
35613 CCATCTGCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (63 bp):
ATGATTCATTAAGTCCATATTCAGTAAGGTCATCTGCATCATATAGTGATAATCAGTAGGGTC
Found at i:36089 original size:79 final size:80
Alignment explanation
Indices: 35996--36156 Score: 306
Period size: 79 Copynumber: 2.0 Consensus size: 80
35986 ATACGTCTTA
*
35996 ATCATTTGAAAAAGATTTATTTACAAGTTGGGGGTAAAACTCTTCCATATGGTTTTCTCC-TTTA
1 ATCATTTGAAAAAGATTTATTTACAAGTTGGGGGTAAAACTCTTCCATATAGTTTTCTCCATTTA
36060 AAAGATTCGAACTCG
66 AAAGATTCGAACTCG
36075 ATCATTTGAAAAAGATTTATTTACAAGTTGGGGGTAAAACTCTTCCATATAGTTTTCTCCATTTA
1 ATCATTTGAAAAAGATTTATTTACAAGTTGGGGGTAAAACTCTTCCATATAGTTTTCTCCATTTA
36140 AAAGATTCGAACTCG
66 AAAGATTCGAACTCG
36155 AT
1 AT
36157 GCCTTGTTTA
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 59 0.74
80 21 0.26
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (80 bp):
ATCATTTGAAAAAGATTTATTTACAAGTTGGGGGTAAAACTCTTCCATATAGTTTTCTCCATTTA
AAAGATTCGAACTCG
Found at i:37694 original size:655 final size:656
Alignment explanation
Indices: 36451--39589 Score: 3911
Period size: 655 Copynumber: 4.8 Consensus size: 656
36441 TTTAGATTTT
* * * * *
36451 TTTTTTC-GAATTAATTTATAATTAAATCGAAACAAGATTCTGATGTTCGTAAAAACAAATCTTT
1 TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* ** *
36515 AAATCGAATGTAACTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTTTCGCCAAAA
66 AAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAAA
* * ** *
36580 ATTATGCAAAACTGAGTCGGGGCTCCGGGTCGCGTTTTTAT------ACCGTTAT-GT-ACACGA
131 ATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTAACACGA
* * *
36637 TTTCA-GCTAAAAATTTGTAAAAATTGACCTGAAAGATTTTTCCTTAATTTTTA-GCCACAATAT
196 TTT-AGGCTGAAAATTTGCAAAAATTGACCTGAAAGATTTTTCCTTAA-TTTTAGGCCACAATAC
* * * * * *
36700 TTGTAAAAAATATATAATTTAACGCCAAAAAGATTGAAGGGCATTTCAGGCTT-TTATATCATTT
259 TCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTT
* * * *
36764 TTCAT-TTTTTTC-GAATTAATTTCTAATTAAATGGAAACAAGATTTTAATGCTCGTAAAAACAA
324 TACCTATTTTTTCGGAATTAATTTCTAATTAAATAGAAACAAGATTCTAATGCTCGTAAAAACAA
* * * *
36827 ATCCTTAAATCCAATGAGGCTGAGATTTGTTTCGATGAATATAGATATTTCA-ATGAGTCTTGTC
389 ATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTC
* * * * * * **
36891 GCCAAAAATCATGCCAGACTAAGTCGTGG-CTCCCGAACGCGTTTTTTATCCAACAACCATGATG
453 GCCAAAAATCATGCAAAACTGAGCCG-GGACTCCGGAACGCG-TTTTTATCCAAAAACTGTGATG
* * * *
36955 ATTAGTACACGATTTCGGCTAAAAATTTGCAAAAATTGAACTGAAATATTTTTCCTTAATTTTTG
516 GTTAGTACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTACCTTAATTTTTG
* *
37020 GCCCCAATACTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGG-GTT-T-TTC-ATAT
581 GCCACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGTGTTCTGTTCAATAT
37081 CGTTTTTCCTA
646 CGTTTTTCCTA
* **
37092 TTTTTTCGGAATTAATTTTCTAAATAAATTGAAACAAGATTCTAATGCTCGTAAAAA-AAATCCT
1 TTTTTTCGGAATTAA-TTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* * *
37156 TAAATCCAATGTGGCTGAGAATTGGTTAGATGTATATAGATATTTCAATGAGTCATGTCGCCAAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAA
37221 AATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGCAC
130 AATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGG-TA--AC
*
37286 ACGATTTAGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTTCCTTAATTTTAGGCCACAAT
192 ACGATTTAGGCTGAAAATTTGCAAAAATTGACCTGAAAGATTTTTCCTTAATTTTAGGCCACAAT
* **
37351 ACTTGTAAAAAATATATAATTCAATACCAAAAAGATTGAAGGG-TTTTCCGGCTTCTAATATCGT
257 ACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGT
* * * **
37415 TTTACCTATTTTTTCGGAATTAATTTATGATTAAATAGAAACAAGATTCTAATACTCGTAAATTC
322 TTTACCTATTTTTTCGGAATTAATTTCTAATTAAATAGAAACAAGATTCTAATGCTCGTAAAAAC
* * * *
37480 AAATTCATAAATCCAATGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGT
387 AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGT
* * * *
37545 CGCCAAAAATCATGCAAAACTTAGCCGGGACTCCGGAACGCGTTTTTATCTAAAAACTGTTAGGG
452 CGCCAAAAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTGATGG
* *
37610 TTAAGTACACGATTTTGGCTGAAAATTTGCAAAAATTGACCCGAAATATTTTACCTTAATTTTTG
517 TT-AGTACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTACCTTAATTTTTG
* * * *
37675 GCCACAATACTCGTAAAAAATAAATAATTCAACGCCAAAAAGATAGAAGGGCTTTTCCGGCTTCT
581 GCCACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAA-GG-TGTT-CTG-TTC-
37740 AATATCGTTTTTCCTA
641 AATATCGTTTTTCCTA
37756 TTTTTTCGGAATTAATTTCT-ATATAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
1 TTTTTTCGGAATTAATTTCTAAT-TAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* * * *
37820 TAAATCCAATGTGGCTAAGATTTGGTTAGATGAACATAGATATTTCAATGAGTCATGTCGCTAAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAA
* * * *
37885 AATCATGCAAAACTTAATCGAGG-CTTC-GAAAGTCGTTTTTATCCAAAAACCGTGA--GT-ACA
130 AATCATGCAAAACTGAGTCG-GGACTCCGGAACG-CGTTTTTATCCAAAAACCGTGATGGTAACA
* * * * ** *
37945 CAATTTCGGTTGAAAATTTGCGAAAATTGATATGAAAGATTTTTCCTTAATTTTTGGCCACAATA
193 CGATTTAGGCTGAAAATTTGCAAAAATTGACCTGAAAGATTTTTCCTTAATTTTAGGCCACAATA
* * *
38010 CTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTTACGGTTTCTAATATCGTT
258 CTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTT
** * *
38075 CTT-CCTATTTTTTTCAAAATTAATTTCTAAATAAATCA-AAACAAGATTCTAATGCTCATAAAA
323 -TTACCTA-TTTTTTCGGAATTAATTTCTAATTAAAT-AGAAACAAGATTCTAATGCTCGTAAAA
*
38138 ACAAATCCTTCAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTT
385 ACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTT
* * ** **
38203 GTCGTCAAAAAT-ATGCAAAACTGAGTCGGGGTTCCGGAACGTATTTTTATCCAAAAACTGTGAT
450 GTCGCCAAAAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTGAT
* * *** *
38267 GGTTAGTACACGATTTCGGCTGAAAATTTGCGAAAATTGACCTG-AATTTTTTTTTTTAATTTTA
515 GGTTAGTACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTACCTTAATTTTT
* *
38331 GGCCACAATACTCGTAAAAAATATATTATTCAACGCC-AAAAGATTGAAGGATTTTCTGGCTTCT
580 GGCCACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGG-TGTTCT-G-TTC-
* *
38395 AATATCGTTTTACTTA
641 AATATCGTTTTTCCTA
* * *
38411 TTTTTACGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATACTCGTAAAAACAAATCCAT
1 TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* * * * *
38476 AAATCCAACGTGGTTGACATTTGGTTAGATGAACATAGATATTTCACA-GAATCTTGTCGCCAAA
66 AAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCA-ATGAGTCTTGTCGCCAAA
* * *
38540 AATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTGTTTATCCAAAAACTGTGATAGGT-ACAC
130 AATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGAT-GGTAACAC
* * * **
38604 GATTTCGGCTGAAAATTTGCAAAAATTGACCTAAAATATTTTTCCTTAATTTTTTTGCCACAATA
194 GATTTAGGCTGAAAATTTGCAAAAATTGACCTGAAAGATTTTTCCTTAA-TTTTAGGCCACAATA
* *
38669 CTCGTGAAAAATAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTT
258 CTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTT
* * * ** *
38734 TTTCCATATTTTTTTTCGGAACTAATTTCTAAATAAAGCGAAACAAGATTCTAATGCTGGTAAAA
323 TTACC-TA--TTTTTTCGGAATTAATTTCTAATTAAATAGAAACAAGATTCTAATGCTCGTAAAA
* * * * * *
38799 ATAAATCCTTAAATCCAATGTGGTTGAGATTTTGTTAGATAAACATAGATATATCACAGGGTCTT
385 ACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTT
** * * * *
38864 GTCGTTAAAAATTATGCAAAACTGAGTCAGGGA-TCCGGAACGTGTTTTTATCCGAAAA-TCGTG
450 GTCGCCAAAAATCATGCAAAACTGAG-CCGGGACTCCGGAACGCGTTTTTATCCAAAAACT-GTG
* * * **
38927 ATGGTTAATACACGATTTCGGCTGAAAATTT-CAAAAATTGACATGAAAGA-TTTATTTTAATTT
513 ATGGTTAGTACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTACCTTAATTT
* * * * *
38990 TTGGCCACAATACTTGTAAAAAA-ATATTATTGAACGCCAAAAATATTGAAGAGCTTTTCTGGCT
578 TTGGCCACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAG-G-TGTTCT-G-T
* *
39054 TCAAAAATCATTTTTCCTA
639 TC-AATATCGTTTTTCCTA
* **
39073 TTTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTTTAATGCTCGTAAAAATGAATCCT
1 -TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
*
39138 TAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAA
* *
39203 AATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCTAAAAACCGTGATGGTTAGTAC
130 AATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGG-TA--AC
* * * * * * *
39268 ACGATTT-GGACTGAAATTTTGCAAAAATTGACCTGAAATATTTTT-TTTAATTCTATGTCATAA
192 ACGATTTAGG-CTGAAAATTTGCAAAAATTGACCTGAAAGATTTTTCCTTAATTTTAGGCCACAA
* *
39331 TACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTGAAAGG-TTTTCCGGCTTCTAATATCG
256 TACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCG
* * * * *
39395 TTTTACCTATTTTTACGGAATTAATTTCTAATTAAGTCGAAACAAGATTCTAATACTCAT-AAAA
321 TTTTACCTATTTTTTCGGAATTAATTTCTAATTAAATAGAAACAAGATTCTAATGCTCGTAAAAA
* * *
39459 -AAATCCTTAAATCCAATGTGGCTGACATTTGGTTAGATGAAAATAGATATTTCACAGAATCTTG
386 CAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTG
*
39523 TCGCCAAAAATCATGCAAAACTGAGCCGGGACTCCGGAACGCATTTTTATCCAAAAACTGTGATG
451 TCGCCAAAAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTGATG
39588 GT
516 GT
39590 AGGCATCTCA
Statistics
Matches: 2182, Mismatches: 250, Indels: 115
0.86 0.10 0.05
Matches are distributed among these distances:
641 7 0.00
642 109 0.05
643 36 0.02
648 7 0.00
649 1 0.00
650 1 0.00
652 15 0.01
653 107 0.05
654 30 0.01
655 412 0.19
656 20 0.01
657 55 0.03
658 297 0.14
659 152 0.07
660 176 0.08
661 176 0.08
662 106 0.05
663 236 0.11
664 189 0.09
665 8 0.00
666 42 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (656 bp):
TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
AAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAAA
ATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTAACACGA
TTTAGGCTGAAAATTTGCAAAAATTGACCTGAAAGATTTTTCCTTAATTTTAGGCCACAATACTC
GTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTTA
CCTATTTTTTCGGAATTAATTTCTAATTAAATAGAAACAAGATTCTAATGCTCGTAAAAACAAAT
CCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCC
AAAAATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTGATGGTTAG
TACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTACCTTAATTTTTGGCCAC
AATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGTGTTCTGTTCAATATCGTTT
TTCCTA
Found at i:38403 original size:988 final size:979
Alignment explanation
Indices: 36458--39583 Score: 4236
Period size: 988 Copynumber: 3.2 Consensus size: 979
36448 TTTTTTTTTC
* * ** ** *
36458 GAATTAATTTATAATTAAATCGAAACAAGATTCTGATGTTCGTAAAAACAAATCTTTAAATCGAA
1 GAATTAATTTATAATTAAATAGAAACAAGATTCTAATACTCGTAAAAACAAATCCATAAATCCAA
** * * * * *
36523 TGTAACTGAGATTTGGTTAGATGAATATAGATATTTCA-ATGAGTCTTTTCGCCAAAAATTATGC
66 TGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACA-GAATCTTGTCGCCAAAAATCATGC
* * ** * *
36587 AAAACTGAGTCGGGGCTCCGGGTCGCGTTTTTAT------ACCGTTA-T-GTACACGATTTCAGC
130 AAAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTTAGTAGTACACGATTTCGGC
* * * * *
36644 TAAAAATTTGTAAAAATTGACCTGAAAGATTTTTCCTTAATTTTTAGCCACAATATTTGTAAAAA
195 TGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTAGCCACAATACTCGTAAAAA
* * * * * * *
36709 ATATATAATTTAACGCCAAAAAGATTGAAGGGCATTTCAGGCTT-TTATATCATTTTTCAT-TTT
260 ATAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTTTCCTATTT
* *
36772 TTTC-GAATTAATTTCTAATTAAATGGAAACAAGATTTTAATGCTCGTAAAAACAAATCCTTAAA
325 TTTCGGAATTAATTTCTAA-TAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATCCTTAAA
* * * * *
36836 TCCAATGAGGCTGAGATTTGTTTCGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAAAATC
389 TCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCAATGAGTCTTGTCGCTAAAAATC
* * * *
36901 ATGCCAGAC-TAAGTCGTGGCTCCCGAACG-CGTTTTTTATCCAACAACCATGATGATTAGTACA
454 ATGCAAAACTTAA-TCGAGGCT-CCGAACGTCG-TTTTTATCCAAAAACC--G-TG---AGTACA
* * *
36964 CGATTTCGGCTAAAAATTTGCAAAAATTGAACTGAAATATTTTTCCTTAATTTTTGGCCCCAATA
510 CGATTTCGGCTGAAAATTTGCAAAAATTGAA-TGAAAGATTTTTCCTTAATTTTTGGCCACAATA
37029 CTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG---TT---TTTC-ATATCGTTTT
574 CTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTTCGGTTTCAATATCGTTTT
**
37087 TCCTA-TTTTTTCGGAATTAATTTTCTAAATAAATTGAAACAAGATTCTAATGCTCGTAAAAAAA
639 TCCTATTTTTTTCGGAATTAA-TTTCTAAATAAATCAAAACAAGATTCTAATGCTCGTAAAAAAA
* * *
37151 ATCCTTAAATCCAATGTGGCTGAGAATTGGTTAGATGTATATAGATATTTCAATGAGTCATGTCG
703 ATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCG
*
37216 CCAAAAATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTT
768 CCAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTT
* * * **
37281 AGCACACGATTTAGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTTCCTTAATTTTAGGCC
833 AGTACACGATTT-GGCTGAAAATTTGCAAAAATTGACCTGAAA-TTTTTTTTTTAATTTTAGGCC
* * **
37346 ACAATACTTGTAAAAAATATATAATTCAATACCAAAAAGATTGAAGGGTTTTCCGGCTTCTAATA
896 ACAATACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTGAA-GGTTTTCCGGCTTCTAATA
*
37411 TCGTTTTACCTATTTTTTCG
960 TCGTTTTACCTATTTTTACG
* ** *
37431 GAATTAATTTATGATTAAATAGAAACAAGATTCTAATACTCGTAAATTCAAATTCATAAATCCAA
1 GAATTAATTTATAATTAAATAGAAACAAGATTCTAATACTCGTAAAAACAAATCCATAAATCCAA
37496 TGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGCA
66 TGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGCA
* * *
37561 AAACTTAGCCGGGACTCCGGAACGCGTTTTTATCTAAAAACTGTTAGGGTTAAGTACACGATTTT
131 AAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTTA--G-T-AGTACACGATTTC
* * *
37626 GGCTGAAAATTTGCAAAAATTGACCCGAAATATTTTACCTTAATTTTTGGCCACAATACTCGTAA
192 GGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTAGCCACAATACTCGTAA
*
37691 AAAATAAATAATTCAACGCCAAAAAGATAGAAGGGCTTTTCCGGCTTCTAATATCGTTTTTCCTA
257 AAAATAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTTTCCTA
*
37756 TTTTTTCGGAATTAATTTCTATATAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
322 TTTTTTCGGAATTAATTTCTA-ATAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* *
37821 AAATCCAATGTGGCTAAGATTTGGTTAGATGAACATAGATATTTCAATGAGTCATGTCGCTAAAA
386 AAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCAATGAGTCTTGTCGCTAAAA
* * *
37886 ATCATGCAAAACTTAATCGAGGCTTCGAAAGTCGTTTTTATCCAAAAACCGTGAGTACACAATTT
451 ATCATGCAAAACTTAATCGAGGCTCCGAACGTCGTTTTTATCCAAAAACCGTGAGTACACGATTT
* *
37951 CGGTTGAAAATTTGCGAAAATTGATATGAAAGATTTTTCCTTAATTTTTGGCCACAATACTCGTA
516 CGGCTGAAAATTTGCAAAAATTGA-ATGAAAGATTTTTCCTTAATTTTTGGCCACAATACTCGTA
*
38016 AAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTTACGGTTTCTAATATCGTTCTTCCT
580 AAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTT-CGGTTTC-AATATCGTTTTTCCT
** *
38081 ATTTTTTTCAAAATTAATTTCTAAATAAATCAAAACAAGATTCTAATGCTCATAAAAACAAATCC
643 ATTTTTTTCGGAATTAATTTCTAAATAAATCAAAACAAGATTCTAATGCTCGTAAAAA-AAATCC
* * *
38146 TTCAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTCGTCA
707 TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCA-ATGAGTCTTGTCGCCA
* ** *
38210 AAAAT-ATGCAAAACTGAGTCGGGGTTCCGGAACGTATTTTTATCCAAAAACTGTGATGGTTAGT
771 AAAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGT
* *
38274 ACACGATTTCGGCTGAAAATTTGCGAAAATTGACCTGAATTTTTTTTTTTAATTTTAGGCCACAA
836 ACACGATTT-GGCTGAAAATTTGCAAAAATTGACCTGAAATTTTTTTTTTAATTTTAGGCCACAA
*
38339 TACTCGTAAAAAATATATTATTCAACGCC-AAAAGATTGAAGGATTTTCTGGCTTCTAATATCGT
900 TACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTGAAGG-TTTTCCGGCTTCTAATATCGT
*
38403 TTTACTTATTTTTACG
964 TTTACCTATTTTTACG
*
38419 GAATTAATTTCTAATTAAATCA-AAACAAGATTCTAATACTCGTAAAAACAAATCCATAAATCCA
1 GAATTAATTTATAATTAAAT-AGAAACAAGATTCTAATACTCGTAAAAACAAATCCATAAATCCA
* *
38483 ACGTGGTTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGC
65 ATGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGC
* *
38548 AAAACTGAGCCGGGACTCCGGAACGCGTGTTTATCCAAAAACTGTGA-TAGGTACACGATTTCGG
130 AAAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTTAGTA-GTACACGATTTCGG
* * *
38612 CTGAAAATTTGCAAAAATTGACCTAAAATATTTTTCCTTAATTTTTTTGCCACAATACTCGTGAA
194 CTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAA-TTTTTAGCCACAATACTCGTAAA
38677 AAATAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTTTCCATA
258 AAATAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTTTCC-TA
* * * *
38742 TTTTTTTTCGGAACTAATTTCTAAATAAAGCGAAACAAGATTCTAATGCTGGTAAAAATAAATCC
322 --TTTTTTCGGAATTAATTTCT-AATAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATCC
* * * * * *
38807 TTAAATCCAATGTGGTTGAGATTTTGTTAGATAAACATAGATATATCACA-GGGTCTTGTCGTTA
384 TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCA-ATGAGTCTTGTCGCTA
* * * * * *
38871 AAAATTATGCAAAACTGAGTC-AGGGATCCGGAACGT-GTTTTTATCCGAAAATCGTGATGGTTA
448 AAAATCATGCAAAACTTAATCGA-GGCTCC-GAACGTCGTTTTTATCCAAAAACCGTGA--G---
38934 ATACACGATTTCGGCTGAAAATTT-CAAAAATTGACATGAAAGATTTATT--TTAATTTTTGGCC
506 -TACACGATTTCGGCTGAAAATTTGCAAAAATTGA-ATGAAAGATTT-TTCCTTAATTTTTGGCC
* * * * * *
38996 ACAATACTTGTAAAAAA-ATATTATTGAACGCCAAAAATATTGAAGAGCTTTTCTGGCTTCAAAA
568 ACAATACTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTTC-GGTTTC-AAT
* * *
39060 ATCATTTTTCCTATTTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTTTAATGCTCGT
631 ATCGTTTTTCCTATTTTTTTCGGAATTAATTTCTAAATAAATCAAAACAAGATTCTAATGCTCGT
* *
39125 AAAAATGAATCCTTAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATTTCAATGAG
696 AAAAA-AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAG
*
39190 TCTTGTCGCCAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCTAAAAACCG
760 TCTTGTCGCCAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCG
* *
39255 TGATGGTTAGTACACGATTTGGACTGAAATTTTGCAAAAATTGACCTGAAATATTTTTTTTAATT
825 TGATGGTTAGTACACGATTTGG-CTGAAAATTTGCAAAAATTGACCTGAAATTTTTTTTTTAATT
* * * *
39320 CTATGTCATAATACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTGAAAGGTTTTCCGGCT
889 TTAGGCCACAATACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTG-AAGGTTTTCCGGCT
39385 TCTAATATCGTTTTACCTATTTTTACG
953 TCTAATATCGTTTTACCTATTTTTACG
* * * * *
39412 GAATTAATTTCTAATTAAGTCGAAACAAGATTCTAATACTCAT-AAAA-AAATCCTTAAATCCAA
1 GAATTAATTTATAATTAAATAGAAACAAGATTCTAATACTCGTAAAAACAAATCCATAAATCCAA
*
39475 TGTGGCTGACATTTGGTTAGATGAAAATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGCA
66 TGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGCA
*
39540 AAACTGAGCCGGGACTCCGGAACGCATTTTTATCCAAAAACTGT
131 AAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGT
39584 GATGGTAGGC
Statistics
Matches: 1913, Mismatches: 183, Indels: 96
0.87 0.08 0.04
Matches are distributed among these distances:
973 138 0.07
974 1 0.00
979 6 0.00
981 105 0.05
982 1 0.00
983 2 0.00
984 56 0.03
985 192 0.10
986 15 0.01
987 30 0.02
988 492 0.26
989 59 0.03
990 144 0.08
991 371 0.19
992 171 0.09
993 103 0.05
994 27 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (979 bp):
GAATTAATTTATAATTAAATAGAAACAAGATTCTAATACTCGTAAAAACAAATCCATAAATCCAA
TGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAAATCATGCA
AAACTGAGCCGGGACTCCGGAACGCGTTTTTATCCAAAAACTGTTAGTAGTACACGATTTCGGCT
GAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTAGCCACAATACTCGTAAAAAA
TAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTTTCCTATTTT
TTCGGAATTAATTTCTAATAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATCCTTAAATC
CAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCAATGAGTCTTGTCGCTAAAAATCAT
GCAAAACTTAATCGAGGCTCCGAACGTCGTTTTTATCCAAAAACCGTGAGTACACGATTTCGGCT
GAAAATTTGCAAAAATTGAATGAAAGATTTTTCCTTAATTTTTGGCCACAATACTCGTAAAAAAT
ATATAATTCAACGCCAAAAATATTGAAGGGCTTTTCGGTTTCAATATCGTTTTTCCTATTTTTTT
CGGAATTAATTTCTAAATAAATCAAAACAAGATTCTAATGCTCGTAAAAAAAATCCTTAAATCCA
ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTGTCGCCAAAAATCATGC
AAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTACACGATTTG
GCTGAAAATTTGCAAAAATTGACCTGAAATTTTTTTTTTAATTTTAGGCCACAATACTCGTAAAA
AATATATTATTCAACGCCAAAAAGATTGAAGGTTTTCCGGCTTCTAATATCGTTTTACCTATTTT
TACG
Found at i:39344 original size:330 final size:330
Alignment explanation
Indices: 36451--39589 Score: 3825
Period size: 330 Copynumber: 9.6 Consensus size: 330
36441 TTTAGATTTT
* * * * *
36451 TTTTTTC-GAATTAATTTATAATTAAATCGAAACAAGATTCTGATGTTCGTAAAAACAAATCTTT
1 TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* ** * *
36515 AAATCGAATGTAACTGAGATTTGGTTAGATGAATATAGATATTTCA-ATGAGTCTTTTCGCCAAA
66 AAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTCGCCAAA
* ** *
36579 AATTATGCAAAACTGAGTCGGGGCTCCGGGTCGCGTTTTTAT------ACCGT--T--AT-GTAC
130 AATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTAC
* * * * *
36633 ACGATTTCAGCTAAAAATTTGTAAAAATTGACCTGAAAGATTTTTCCTTAATTTTTAGCCACAAT
195 ACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACAAT
* * * * * * *
36698 ATTTGTAAAAAATATATAATTTAACGCCAAAAAGATTGAAGGGCATTTCAGGCTT-TTATATCAT
260 ACTCGTAAAAAATAT-T-ATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGT
*
36762 TTTTCAT-
323 TTTTCCTA
** *
36769 TTTTTTC-GAATTAATTTCTAATTAAATGGAAACAAGATTTTAATGCTCGTAAAAACAAATCCTT
1 TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* * * *
36833 AAATCCAATGAGGCTGAGATTTGTTTCGATGAATATAGATATTTCA-ATGAGTCTTGTCGCCAAA
66 AAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTCGCCAAA
* * * * * * * *
36897 AATCATGCCAGACTAAGTCGTGGCTCCCGAACGCGTTTTTTATCCAACAACCATGATGATTAGTA
130 AATCATGCAAAACTGAGTCGGGGCTCCGGAACGCG-TTTTTATCCAAAAACCGTGATGGTTAGTA
* * *
36962 CACGATTTCGGCTAAAAATTTGCAAAAATTGAACTGAAATATTTTTCCTTAATTTTTGGCCCCAA
194 CACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACAA
*
37027 TACTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGG--TTT-----TTC--ATATCG
259 TACTCGTAAAAAATAT-T-ATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCG
37083 TTTTTCCTA
322 TTTTTCCTA
* **
37092 TTTTTTCGGAATTAATTTTCTAAATAAATTGAAACAAGATTCTAATGCTCGTAAAAA-AAATCCT
1 TTTTTTCGGAATTAA-TTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* * * *
37156 TAAATCCAATGTGGCTGAGAATTGGTTAGATGTATATAGATATTTCA-ATGAGTCATGTCGCCAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTCGCCAA
* *
37220 AAATCATGCAAAACTGAGTCGGGACTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGCA
129 AAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTA
* * * *
37285 CACGATTTAGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTTCCTTAATTTTAGGCCACAA
194 CACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACAA
* **
37350 TACTTGTAAAAAATATATAATTCAATACCAAAAAGATTGAAGGG-TTTTCCGGCTTCTAATATCG
259 TACTCGTAAAAAATAT-T-ATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCG
*
37414 TTTTACCTA
322 TTTTTCCTA
* * * ** * *
37423 TTTTTTCGGAATTAATTTATGATTAAAT-AGAAACAAGATTCTAATACTCGTAAATTCAAATTCA
1 TTTTTTCGGAATTAATTTCTAATTAAATCA-AAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* *
37487 TAAATCCAATGTGGCTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCCAAA
* * * * * * *
37552 AATCATGCAAAACTTAGCCGGGACTCCGGAACGCGTTTTTATCTAAAAACTGTTAGGGTTAAGTA
130 AATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTT-AGTA
* * *
37617 CACGATTTTGGCTGAAAATTTGCAAAAATTGACCCGAAATATTTTACCTTAATTTTTGGCCACAA
194 CACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACAA
* *
37682 TACTCGTAAAAAATAAATAATTCAACGCCAAAAAGATAGAAGGGCTTTTCCGGCTTCTAATATCG
259 TACTCGTAAAAAAT--ATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCG
37747 TTTTTCCTA
322 TTTTTCCTA
37756 TTTTTTCGGAATTAATTTCT-ATATAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
1 TTTTTTCGGAATTAATTTCTAAT-TAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* * *
37820 TAAATCCAATGTGGCTAAGATTTGGTTAGATGAACATAGATATTTCA-ATGAGTCATGTCGCTAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTCGCCAA
* * * * *
37884 AAATCATGCAAAACTTAATCGAGGCTTC-GAAAGTCGTTTTTATCCAAAAACC--G-T-G--AGT
129 AAATCATGCAAAACTGAGTCGGGGCTCCGGAACG-CGTTTTTATCCAAAAACCGTGATGGTTAGT
* * * ** *
37942 ACACAATTTCGGTTGAAAATTTGCGAAAATTGATATGAAAGATTTTTCCTTAATTTTTGGCCACA
193 ACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACA
* * *
38007 ATACTCGTAAAAAATATATAATTCAACGCCAAAAATATTGAAGGGCTTTTACGGTTTCTAATATC
258 ATACTCGTAAAAAATAT-T-ATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATC
*
38072 GTTCTTCCTA
321 GTTTTTCCTA
** * *
38082 TTTTTTTCAAAATTAATTTCTAAATAAATCAAAACAAGATTCTAATGCTCATAAAAACAAATCCT
1 -TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* *
38147 TCAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGTCAAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCCAAA
* ** *
38212 AAT-ATGCAAAACTGAGTCGGGGTTCCGGAACGTATTTTTATCCAAAAACTGTGATGGTTAGTAC
130 AATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTAC
* * ** *
38276 ACGATTTCGGCTGAAAATTTGCGAAAATTGACCTG-AATTTTTTTTTTTAATTTTAGGCCACAAT
195 ACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACAAT
* *
38340 ACTCGTAAAAAATATATTATTCAACGCC-AAAAGATTGAA-GGATTTTCTGGCTTCTAATATCGT
260 ACTCGT-AAAAA-ATATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGT
* *
38403 TTTACTTA
323 TTTTCCTA
* * *
38411 TTTTTACGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATACTCGTAAAAACAAATCCAT
1 TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* * * *
38476 AAATCCAACGTGGTTGACATTTGGTTAGATGAACATAGATATTTCACAGAATCTTGTCGCCAAAA
66 AAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCCAAAA
* * * * *
38541 ATCATGCAAAACTGAGCCGGGACTCCGGAACGCGTGTTTATCCAAAAACTGTGATAG---GTACA
131 ATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTACA
* *
38603 CGATTTCGGCTGAAAATTTGCAAAAATTGACCTAAAATATTTTTCCTTAATTTTTTTGCCACAAT
196 CGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAA-TTTTTGGCCACAAT
* *
38668 ACTCGTGAAAAATAAATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGT
260 ACTCGT-AAAAA-ATATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGT
38733 TTTTCCATA
323 TTTTCC-TA
* * * * * *
38742 TTTTTTTTCGGAACTAATTTCTAAATAAAGCGAAACAAGATTCTAATGCTGGTAAAAATAAATCC
1 --TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCC
* * * * * **
38807 TTAAATCCAATGTGGTTGAGATTTTGTTAGATAAACATAGATATATCACAGGGTCTTGTCGTTAA
64 TTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCCAA
* * * * * * *
38872 AAATTATGCAAAACTGAGTCAGGGATCCGGAACGTGTTTTTATCCGAAAATCGTGATGGTTAATA
129 AAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTA
* *
38937 CACGATTTCGGCTGAAAATTT-CAAAAATTGACATGAAAGATTTATT--TTAATTTTTGGCCACA
194 CACGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTT-TTCCTTAATTTTTGGCCACA
* * * * * * * *
38999 ATACTTGTAAAAAAATATTATTGAACGCCAAAAATATTGAAGAGCTTTTCTGGCTTCAAAAATCA
258 ATACTCGT-AAAAAATATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCG
39064 TTTTTCCTA
322 TTTTTCCTA
* **
39073 TTTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTTTAATGCTCGTAAAAATGAATCCT
1 -TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCT
* *
39138 TAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATTTCA-ATGAGTCTTGTCGCCAA
65 TAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAGTCTTGTCGCCAA
*
39202 AAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCTAAAAACCGTGATGGTTAGTA
129 AAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTA
* * * * *
39267 CACGATTT-GGACTGAAATTTTGCAAAAATTGACCTGAAATATTTTT-TTTAATTCTAT-GTCAT
194 CACGATTTCGG-CTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATT-TTTGGCCAC
*
39329 AATACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTGAAAGG-TTTTCCGGCTTCTAATAT
257 AATACTCGT-AAAAA-ATATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATAT
*
39393 CGTTTTACCTA
320 CGTTTTTCCTA
* * * * *
39404 TTTTTACGGAATTAATTTCTAATTAAGTCGAAACAAGATTCTAATACTCAT-AAAA-AAATCCTT
1 TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
* * *
39467 AAATCCAATGTGGCTGACATTTGGTTAGATGAAAATAGATATTTCACAGAATCTTGTCGCCAAAA
66 AAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCCAAAA
* * * *
39532 ATCATGCAAAACTGAGCCGGGACTCCGGAACGCATTTTTATCCAAAAACTGTGATGGT
131 ATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGT
39590 AGGCATCTCA
Statistics
Matches: 2447, Mismatches: 306, Indels: 126
0.85 0.11 0.04
Matches are distributed among these distances:
318 142 0.06
319 7 0.00
322 12 0.00
323 132 0.05
324 107 0.04
325 42 0.02
326 194 0.08
327 136 0.06
328 281 0.11
329 97 0.04
330 404 0.17
331 256 0.10
332 224 0.09
333 362 0.15
334 7 0.00
335 19 0.01
336 25 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (330 bp):
TTTTTTCGGAATTAATTTCTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAACAAATCCTT
AAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCTTGTCGCCAAAA
ATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCGTGATGGTTAGTACA
CGATTTCGGCTGAAAATTTGCAAAAATTGACCTGAAATATTTTTCCTTAATTTTTGGCCACAATA
CTCGTAAAAAATATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATATCGTTTT
TCCTA
Found at i:40331 original size:331 final size:331
Alignment explanation
Indices: 39670--42304 Score: 3551
Period size: 331 Copynumber: 7.9 Consensus size: 331
39660 TACTCGAATC
* * * *
39670 GTACACGATCTCGGCTGAAAATTTGCAAAAATTGATC-TAAAATATTTTTCCTTAATTTTTGGCC
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGA-CATGAAAGATTTTT-CTTAATTTTTGGCC
* * * *
39734 ACAATATTCATAAAAAATAAATAATTCAACGACAAAAAGATTGAAGGGCTTTTCCGGCTTCTAAT
64 ACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAAT
* * *
39799 ATCATTTTTTCTATTTCTTTCGGAATTAATTTCT-ATATAAATCGAAACAAGATTCTAATGATCG
129 ATCGTTTTTCCTATTT-TTTCGGAATTAATTTCTAAT-TAAATCGAAACAAGATTCTAATGCTCG
* *
39863 TAAAAATAAATCCTTAAATCCAATGTGGTTGAGATTTGGTTAGATGAACATAGATATTTCACAGA
192 TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGA
* * * *
39928 GTCTTGTCGTCAAAAATCATGCAAAACTAAGTC-AGGGTTCCGGAACGTGTTTTTACCCAAAAAC
257 GTCTTGTCGCCAAAAATCATGCAAAACTGAGTCGA-GGTTCCGGAACGCGTTTTTATCCAAAAAC
39992 CGTGATGGTTA
321 CGTGATGGTTA
* * *
40003 GTACACGATTTGGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTATT-TTAATATTTGGCCA
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTT-TTCTTAATTTTTGGCCA
* * * * * *
40067 CAATACTCGTAAAAATTATATTATTCAACGTCAAAAAGATTGAAGTGCTTTTCCGGCTTCAAAAA
65 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATA
40132 TCGTTTTTCCTATTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTAA
130 TCGTTTTTCCTATTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTAA
* *
40197 AAACAAATCCTTAAATCCAATGTGGTTTAGATTTGGTTAGATGAACATAGATATTTCACAGAGTC
195 AAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTC
* * * * *
40262 TTGTGGCCAAAAATCAAGCAAAAATGAGTCGAGGTTCCGGAAGGCGTTTTTATCCAAAAACCATG
260 TTGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAACGCGTTTTTATCCAAAAACCGTG
40327 ATGGTTA
325 ATGGTTA
* ** *
40334 ATACACAATTTCAACTGAAAATTTGCAAAAATTGATATGAAAGATTTTTCCTTAATTTTTGGCCA
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTT-CTTAATTTTTGGCCA
* * * * *
40399 CAATACTCGTAAAAAATACATAATTCAACGCCAAAAATATTGAAAGGTTTTTTCGGCTTCTAATA
65 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATA
*
40464 TCATTTTTCCTATTGTTTT-GGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTA
130 TCGTTTTTCCTATT-TTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTA
* * *
40528 AAAACAAATCCTTAAATCCAATTTGGCTGATATTTGGTTAGATGAACATAGATATTTCAAAGAGT
194 AAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGT
* ** *
40593 CAT-TCGCCAAAAATCATGCAAAACTGAGTTAAGGTTCCGGAAGGCGTTTTTATCCAAAAACCGT
259 CTTGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAACGCGTTTTTATCCAAAAACCGT
40657 GATGGTTA
324 GATGGTTA
* * * *
40665 GTACGCAATTTCGACTGAAAATTTGAAAAAATTGATATGAAAGATTTTTCCTTAATTTTTGGCCA
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTT-CTTAATTTTTGGCCA
* *
40730 CAATACTTGTAAAAAATATATAATTCAACGCCAAAAAGTTTGAAGGGCTTTTCCGGCTTCTAATA
65 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATA
* * * *
40795 TCGTTTTTCATATTTTTTTCGGAATTAATTTCTAAATAAATCTAAACAAGATTCTAATACTCGTA
130 TCGTTTTTCCTA-TTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTA
* * * *
40860 AAAACAAATCATTAAATCCAATGTGGTTGAGATGTGGCTGAGATTTCGTTAGATGAATATGGATA
194 AAAACAAATCCTTAAATCC----------A-ATGTGGCTGAGATTTGGTTAGATGAACATAGATA
* * * * * *
40925 TTTCACAGAGTCTTGTCGTCAAAAATTATGCAAAACTGAGTCGGGGCAT-CGGAACGCATTTTAA
248 TTTCACAGAGTCTTGTCGCCAAAAATCATGCAAAACTGAGTCGAGG-TTCCGGAACGCGTTTTTA
*
40989 TCAAAAAACCGTGATGGTTA
312 TCCAAAAACCGTGATGGTTA
* * * **
41009 GTACACGATTTGGGCTGAAAATTTGTAAAAATTGACATGAAAGATTTATT-TTAATAGTTGGCCA
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTT-TTCTTAATTTTTGGCCA
* * * * *
41073 CAATACTCGTAAAAAATATATTATTCAATGCCAAAAAGATTGAGGGGTTTTTTCCAGCTTCTAAT
65 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGG-CTTTTCCGGCTTCTAAT
* * *
41138 ATCG-TTTTCCTATTTTTTCGGAATTAATTTCTGATTAAATTGAAACAATATTCTAATGCTCGTA
129 ATCGTTTTTCCTATTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTA
* *
41202 AAAACAAATCCTTAAATCCAATGTGGCTGAAATTTGGTTAGATGAATATAGATATTTCA-ATGAG
194 AAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACA-GAG
* * * *
41266 TCATGTCGCCAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAACGCGTTTTCATCC-AAAACTC
258 TCTTGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAACGCGTTTTTATCCAAAAAC-C
*
41330 ATGATGGTTA
322 GTGATGGTTA
*
41340 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACCA-GAAATATTTTTCCTTAATTTTTGGCC
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGA-CATGAAAGATTTTT-CTTAATTTTTGGCC
* * * * *
41404 ACAATACT-TTTAAAAATATATTATTCAACGCCAAAAGGATTGAAAGGCTTTTCCGGCTTCTAAT
64 ACAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAAT
* *
41468 ATCG-TTTTCCTATTTTTTTCGGAATTAGTTTCTAATTAAATCGAAACAAGATTCTAATCCTCGT
129 ATCGTTTTTCCTA-TTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGT
* * *
41532 AAAAACAAATCCTTGAATCCAATTTGGCTGAGATTTGGTTAGATGAACATAGATATTTCAAAGAG
193 AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAG
* * * * * * *
41597 TCATGTCGCCAAAAATCAAGCAAAACTGAGTCGAGGTTCCGGAAGGAGTTTTAATCAAAAAACCA
258 TCTTGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAACGCGTTTTTATCCAAAAACCG
41662 TGATGGTTA
323 TGATGGTTA
* * *
41671 GTAAACAATTTCAGCTGAAAATTTGCAAAAATTGATATGAAAGATTTTTCCTTAATTTTT-GCCA
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTT-CTTAATTTTTGGCCA
* *
41735 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGTTTGAAGGGCTTTTCTGGCTTCTAATA
65 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATA
* * *
41800 TTGTTTTTCCTATTTTTTCGAAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCATAA
130 TCGTTTTTCCTATTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTAA
* * * *
41865 AAACAAATCCTTAAATCCAATTTGG-TAGAGATTTGGTTAGATGAATATATATATTTCA-ATGAT
195 AAACAAATCCTTAAATCCAATGTGGCT-GAGATTTGGTTAGATGAACATAGATATTTCACA-GAG
* * *
41928 TCTTGTCGCCAAAAATCATGCAAGACTGAGTCGGGGCTCCGGAACGCGTTTTTATCCAAAAACCG
258 TCTTGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAACGCGTTTTTATCCAAAAACCG
* *
41993 CGATAGTTA
323 TGATGGTTA
* * *
42002 GTACACGATTTCGGCTGAAAATTTGCAAAAATTGACCTAAAAGATTTATT-TTAATTTTTGGCCA
1 GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTT-TTCTTAATTTTTGGCCA
* ** * *
42066 CAATACTCGTAAAAAATATATTATTCAACGCCAAAAAGATTGAAGGGCTTTTCCAACTTCAAAAA
65 CAATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATA
*
42131 TCGTTTTTCCTATTTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATACTCGTA
130 TCGTTTTTCCTA-TTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTA
* * * *
42196 AAAATAAATCCTTAAATCCAATGTGGCAGAGATTTGGTTAGATGAATATAGATATTTCACTGAGT
194 AAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGT
* * * *
42261 CTTGTTGCTAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAAC
259 CTTGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAAC
42305 TGTAGACACC
Statistics
Matches: 2044, Mismatches: 215, Indels: 87
0.87 0.09 0.04
Matches are distributed among these distances:
330 61 0.03
331 1129 0.55
332 520 0.25
333 45 0.02
334 2 0.00
342 65 0.03
343 102 0.05
344 117 0.06
345 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (331 bp):
GTACACAATTTCGGCTGAAAATTTGCAAAAATTGACATGAAAGATTTTTCTTAATTTTTGGCCAC
AATACTCGTAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCCGGCTTCTAATAT
CGTTTTTCCTATTTTTTCGGAATTAATTTCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAA
AACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAACATAGATATTTCACAGAGTCT
TGTCGCCAAAAATCATGCAAAACTGAGTCGAGGTTCCGGAACGCGTTTTTATCCAAAAACCGTGA
TGGTTA
Found at i:45812 original size:35 final size:34
Alignment explanation
Indices: 45773--46414 Score: 765
Period size: 35 Copynumber: 18.7 Consensus size: 34
45763 GTTAATAAGT
* *
45773 AACTTAATTCAGGGCAATTAAATGAGTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
45808 AACTTAATTCAGGGTAATTAAGTAGTTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGTAG-TCAGTAATC
* *
45843 AACTTAATTCAGGGTAATTGAGTGAGTCAATAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
45878 AACTTAATTCAGGGTAATT-A--AGT-AGT--TC
1 AACTTAATTCAGGGTAATTAAGTAGTCAGTAATC
45906 AACTCTAATTCAGGGTAATT-A--AGT-AGT--TC
1 AACT-TAATTCAGGGTAATTAAGTAGTCAGTAATC
* * *
45935 AACTCTAATTCAAGGTAATTAAGTGAGTTAATAAGT-
1 AACT-TAATTCAGGGTAATTAAGT-AGTCAGTAA-TC
* *
45971 AACTTAATTCAGGGTAATTAAGTAGTTCAATGAGT-
1 AACTTAATTCAGGGTAATTAAGTAG-TCAGT-AATC
*
46006 AACTTAATTCAGGGTAATTAAGTGAGTCGGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
* *
46041 AACTTATTTCAGGGTAATTAAGTAATTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
46076 AACTTAATTCAGGGTAATTAAGTAGTTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGTAG-TCAGTAATC
*
46111 AACTTAATTCAGGGTAATTAAGTAATTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
46146 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
*
46181 AACTTAATTCAGGGTAATTAAGTAAGTCAGCAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
* *
46216 AACTTAATTCAGGGTAATTAAGTAATTCAGTAATT
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
* *
46251 AACTTAATTCAGGGCAATTAAGTAATTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
*
46286 AACTTAATTCAGGGTAATTAAGTGATTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
* *
46321 AACTTAATTCAGTGTAATTAAGTGAGTCAGTAATA
1 AACTTAATTCAGGGTAATTAAGT-AGTCAGTAATC
** *
46356 AACTTTAATTTGGGGTAATTAAGTAGTTCAATAAGT-
1 AAC-TTAATTCAGGGTAATTAAGTAG-TCAGTAA-TC
46392 AACTTAATTCAGGGTAATTAAGT
1 AACTTAATTCAGGGTAATTAAGT
46415 TTAGTAAGCA
Statistics
Matches: 549, Mismatches: 38, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.01
29 43 0.08
30 3 0.01
31 3 0.01
33 3 0.01
34 10 0.02
35 443 0.81
36 36 0.07
37 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (34 bp):
AACTTAATTCAGGGTAATTAAGTAGTCAGTAATC
Found at i:45917 original size:29 final size:29
Alignment explanation
Indices: 45876--46000 Score: 162
Period size: 29 Copynumber: 4.1 Consensus size: 29
45866 GAGTCAATAA
45876 TCAACT-TAATTCAGGGTAATTAAGTAGT
1 TCAACTCTAATTCAGGGTAATTAAGTAGT
45904 TCAACTCTAATTCAGGGTAATTAAGTAGT
1 TCAACTCTAATTCAGGGTAATTAAGTAGT
*
45933 TCAACTCTAATTCAAGGTAATTAAGTGAGT
1 TCAACTCTAATTCAGGGTAATTAAGT-AGT
* *
45963 TAATAAGTAACTTAATTCAGGGTAATTAAGTAGT
1 T--CAACT--C-TAATTCAGGGTAATTAAGTAGT
45997 TCAA
1 TCAA
46001 TGAGTAACTT
Statistics
Matches: 85, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
28 6 0.07
29 47 0.55
30 4 0.05
32 5 0.06
34 5 0.06
35 18 0.21
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (29 bp):
TCAACTCTAATTCAGGGTAATTAAGTAGT
Found at i:50161 original size:3 final size:3
Alignment explanation
Indices: 50150--50214 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
50140 TATCTTAATT
* * *
50150 TTA TT- TTA TTA TTA -CA TAA TTA TTA TAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50196 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
50215 GACTACAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 3 0.05
3 52 0.95
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:50556 original size:74 final size:74
Alignment explanation
Indices: 50435--50591 Score: 269
Period size: 74 Copynumber: 2.1 Consensus size: 74
50425 TTGTCTTTTC
* *
50435 ACACTTTTCGGATGAGTAAAAAGCCCCTCTATGAGCTTCCCACATTCCTTTTCCTTCTATCCTTT
1 ACACTTTTCGGATGACTAAAAAGCCCCTCTATGAGCTTCCCACATTCCTTTTCCTTCTACCCTTT
50500 TTCGTAATT
66 TTCGTAATT
* *
50509 ACACTTTTCGGATGACTAAAAAGCCCCTCTATGAGTTTCCCCCATTCCTTTTCCTTCTACCCTTT
1 ACACTTTTCGGATGACTAAAAAGCCCCTCTATGAGCTTCCCACATTCCTTTTCCTTCTACCCTTT
50574 TTCGTAATT
66 TTCGTAATT
*
50583 ACACATTTC
1 ACACTTTTC
50592 CCTTCCTTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.22, C:0.30, G:0.10, T:0.39
Consensus pattern (74 bp):
ACACTTTTCGGATGACTAAAAAGCCCCTCTATGAGCTTCCCACATTCCTTTTCCTTCTACCCTTT
TTCGTAATT
Found at i:51906 original size:2 final size:2
Alignment explanation
Indices: 51899--51924 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51889 CTCCGTATCC
51899 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
51925 TACTATCTGA
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:54746 original size:4 final size:4
Alignment explanation
Indices: 54727--54766 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
54717 AAAACTTTTA
* *
54727 AAAG AAAA AAAA AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
54767 GCGAACGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:55271 original size:76 final size:76
Alignment explanation
Indices: 55166--55318 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
55156 TTCAATTATT
*
55166 TTAAATTTAAATTAAATTAGTACTAGTGTTAGTATTTTTTTAACAGAAACATCCCTTTTCTATTC
1 TTAAATTTAAATTAAATTAGTACTAGTGTTAGTATTTTTTTAACAGAAACATCCCATTTCTATTC
55231 TCTATTTTTAA
66 TCTATTTTTAA
*
55242 TTAAA-TTAAATTAAATTAAGTACTGGTGTTAGTATTTTTTTAACAGAAACATCCCATTTCTATT
1 TTAAATTTAAATTAAATT-AGTACTAGTGTTAGTATTTTTTTAACAGAAACATCCCATTTCTATT
55306 CTCTATTTTTAA
65 CTCTATTTTTAA
55318 T
1 T
55319 AATTTAGGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 12 0.16
76 62 0.84
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (76 bp):
TTAAATTTAAATTAAATTAGTACTAGTGTTAGTATTTTTTTAACAGAAACATCCCATTTCTATTC
TCTATTTTTAA
Found at i:56385 original size:15 final size:15
Alignment explanation
Indices: 56365--56395 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56355 GCTCTCCTAA
56365 AAATAAAAATTTTCC
1 AAATAAAAATTTTCC
56380 AAATAAAAATTTTCC
1 AAATAAAAATTTTCC
56395 A
1 A
56396 TCTGATGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAAAAATTTTCC
Found at i:57299 original size:42 final size:42
Alignment explanation
Indices: 57253--57337 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
57243 TCAATTTAAC
57253 ATATATAATAGTAATATACAGATATTAATCCAAATCTAAATA
1 ATATATAATAGTAATATACAGATATTAATCCAAATCTAAATA
57295 ATATATAATAGTAATATACAGATATTAATCCAAATCTAAATA
1 ATATATAATAGTAATATACAGATATTAATCCAAATCTAAATA
57337 A
1 A
57338 AATGAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (42 bp):
ATATATAATAGTAATATACAGATATTAATCCAAATCTAAATA
Found at i:57354 original size:42 final size:42
Alignment explanation
Indices: 57264--57357 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
57254 TATATAATAG
* * * *
57264 TAATATACAGATATTAATCCAAATCTAAATAATATATAATAG
1 TAATATACAGATATTAATCCAAATCTAAATAAAATAAAAAAC
57306 TAATATACAGATATTAATCCAAATCTAAATAAAATGAAAAAAC
1 TAATATACAGATATTAATCCAAATCTAAATAAAAT-AAAAAAC
57349 TATATATAC
1 TA-ATATAC
57358 TCTATACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 34 0.74
43 6 0.13
44 6 0.13
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (42 bp):
TAATATACAGATATTAATCCAAATCTAAATAAAATAAAAAAC
Found at i:57547 original size:18 final size:17
Alignment explanation
Indices: 57524--57584 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 17
57514 CTTAGTAATA
57524 ATATTATTATTACATTAT
1 ATATTATTATTA-ATTAT
57542 ATATTATTATT-ATTAT
1 ATATTATTATTAATTAT
57558 ATA-TATATATATATATATAT
1 ATATTAT-TAT-TA-AT-TAT
57578 ATATTAT
1 ATATTAT
57585 ATGTAATCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.08
16 11 0.30
17 1 0.03
18 11 0.30
19 2 0.05
20 6 0.16
21 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTATTATTAATTAT
Found at i:57560 original size:2 final size:2
Alignment explanation
Indices: 57539--57586 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
57529 ATTATTACAT
57539 TA TA TA T- TA T- TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57577 TA TA T- TA TA T
1 TA TA TA TA TA T
57587 GTAATCGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:70498 original size:16 final size:16
Alignment explanation
Indices: 70474--70527 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
70464 GCTTAAGTCA
*
70474 GGTCGGGTTGAATTTG
1 GGTCAGGTTGAATTTG
*
70490 GGTCAGGTTG-ATTCG
1 GGTCAGGTTGAATTTG
*
70505 GGTTCGGGTTGAATTTG
1 GG-TCAGGTTGAATTTG
70522 GGTCAG
1 GGTCAG
70528 ATTAATTCGG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 6 0.19
16 19 0.61
17 6 0.19
ACGTcount: A:0.13, C:0.09, G:0.43, T:0.35
Consensus pattern (16 bp):
GGTCAGGTTGAATTTG
Found at i:70512 original size:32 final size:32
Alignment explanation
Indices: 70476--70556 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
70466 TTAAGTCAGG
* *
70476 TCGGGTTGAATTTGGGTCAGGTTGATTCGGGT
1 TCGGGTTGAATTTGGGTCAGATTAATTCGGGT
70508 TCGGGTTGAATTTGGGTCAGATTAATTCGGGT
1 TCGGGTTGAATTTGGGTCAGATTAATTCGGGT
* *
70540 TCGGGTTCAGTTTGGGT
1 TCGGGTTGAATTTGGGT
70557 TTTGGCCAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.14, C:0.10, G:0.38, T:0.38
Consensus pattern (32 bp):
TCGGGTTGAATTTGGGTCAGATTAATTCGGGT
Found at i:70539 original size:15 final size:15
Alignment explanation
Indices: 70460--70539 Score: 52
Period size: 16 Copynumber: 5.1 Consensus size: 15
70450 GTCATCAGGT
* *
70460 TCAGGCTTAAGTCAGG
1 TCAGG-TTAATTCGGG
* *
70476 TCGGGTTGAATTTGGG
1 TCAGGTT-AATTCGGG
*
70492 TCAGGTTGATTCGGG
1 TCAGGTTAATTCGGG
* *
70507 TTCGGGTTGAATTTGGG
1 -TCAGGTT-AATTCGGG
*
70524 TCAGATTAATTCGGG
1 TCAGGTTAATTCGGG
70539 T
1 T
70540 TCGGGTTCAG
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
15 16 0.33
16 26 0.54
17 6 0.12
ACGTcount: A:0.17, C:0.11, G:0.36, T:0.35
Consensus pattern (15 bp):
TCAGGTTAATTCGGG
Found at i:70767 original size:16 final size:16
Alignment explanation
Indices: 70706--70795 Score: 63
Period size: 16 Copynumber: 5.6 Consensus size: 16
70696 TTTGGATTCC
* *
70706 GGTTTGGGTTTTTTTG
1 GGTTCGGGTTTTTTCG
** *
70722 GGTTCTGAATTTTTTTG
1 GGTTC-GGGTTTTTTCG
* * *
70739 GGTTTGAGCTTTTTCG
1 GGTTCGGGTTTTTTCG
70755 GGTTCGGGTTTTTTCG
1 GGTTCGGGTTTTTTCG
* ***
70771 GGTTCAGGTTTGGGCG
1 GGTTCGGGTTTTTTCG
70787 GGTTCGGGT
1 GGTTCGGGT
70796 ATTTGACTTT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
16 45 0.78
17 13 0.22
ACGTcount: A:0.04, C:0.09, G:0.38, T:0.49
Consensus pattern (16 bp):
GGTTCGGGTTTTTTCG
Found at i:71501 original size:17 final size:17
Alignment explanation
Indices: 71451--71494 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
71441 GATTTGTAAA
71451 GTTGTTACACCTGATAG
1 GTTGTTACACCTGATAG
71468 GTTGTTACACCTGATAG
1 GTTGTTACACCTGATAG
*
71485 TTTGTTACAC
1 GTTGTTACAC
71495 TAGATAGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (17 bp):
GTTGTTACACCTGATAG
Found at i:72069 original size:2 final size:2
Alignment explanation
Indices: 72064--72092 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
72054 ACAATGTGTG
72064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72093 GACATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89070 original size:6 final size:6
Alignment explanation
Indices: 89054--89108 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
89044 CTAAGCAAAG
89054 TAAAT- TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC
1 TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC TAAATC
89101 TAAATC TA
1 TAAATC TA
89109 TGGAAATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATC
Found at i:92045 original size:16 final size:16
Alignment explanation
Indices: 92020--92051 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92010 AGGAATAGAC
92020 AATCAATCAAAGCAAT
1 AATCAATCAAAGCAAT
*
92036 AATCATTCAAAGCAAT
1 AATCAATCAAAGCAAT
92052 GCAAGGAAAA
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:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (16 bp):
AATCAATCAAAGCAAT
Found at i:94871 original size:18 final size:18
Alignment explanation
Indices: 94850--94897 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
94840 TTTCGACACA
*
94850 AATTTTTTTTTTCTAAGC
1 AATTTTTTTTTTCGAAGC
* *
94868 AATTTTTTTTTTCGACGG
1 AATTTTTTTTTTCGAAGC
94886 AATTTTTTTTTT
1 AATTTTTTTTTT
94898 TTTTTAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (18 bp):
AATTTTTTTTTTCGAAGC
Found at i:95212 original size:6 final size:6
Alignment explanation
Indices: 95196--95226 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
95186 CAAAACAAAG
95196 TAAAT- TAAATC TAAATC TAAATC TAAATC TA
1 TAAATC TAAATC TAAATC TAAATC TAAATC TA
95227 TGGCAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATC
Done.