Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2670214
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:1725816 original size:24 final size:23
Alignment explanation
Indices: 1725789--1725924 Score: 95
Period size: 24 Copynumber: 5.8 Consensus size: 23
1725779 TTCATCCCTA
1725789 TATAATTTATATTAATA-AACTATT
1 TATAATTTATATTAATATAA--ATT
*
1725813 TATAATTAATATTAATATAAATT
1 TATAATTTATATTAATATAAATT
*
1725836 TAT-ATATTATAATTAATATTAA--
1 TATAAT-TTAT-ATTAATATAAATT
*
1725858 TATAATTAATATTAATATTAAATT
1 TATAATTTATATTAATA-TAAATT
* *
1725882 ATATTAATATA-ATATAATAT-AGTT
1 -TA-TAATTTATAT-TAATATAAATT
*
1725906 TATAATTTGTAATTAATAT
1 TATAATTTAT-ATTAATAT
1725925 TAATATAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
21 7 0.08
22 16 0.18
23 19 0.21
24 31 0.34
25 7 0.08
26 10 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
TATAATTTATATTAATATAAATT
Found at i:1725828 original size:6 final size:6
Alignment explanation
Indices: 1725817--1725901 Score: 80
Period size: 6 Copynumber: 15.3 Consensus size: 6
1725807 ACTATTTATA
*
1725817 ATTAAT ATTAAT ATAAAT -TTATAT ATT-AT AATTAAT ATTAAT A-T-A-
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
1725862 ATTAAT ATTAAT ATTAA- ATT-AT ATTAAT A-TAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT AT
1725902 AGTTTATAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 20
0.75 0.02 0.22
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 22 0.33
6 37 0.55
7 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Found at i:1725864 original size:45 final size:47
Alignment explanation
Indices: 1725813--1725901 Score: 139
Period size: 45 Copynumber: 1.9 Consensus size: 47
1725803 ATAAACTATT
*
1725813 TATAATTAATATTAATA-TAAATT-TATATATTATAAT-TAATATTAA
1 TATAATTAATATTAATATTAAATTATAT-TAATATAATATAATATTAA
1725858 TATAATTAATATTAATATTAAATTATATTAATATAATATAATAT
1 TATAATTAATATTAATATTAAATTATATTAATATAATATAATAT
1725902 AGTTTATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
45 17 0.43
46 14 0.35
47 9 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (47 bp):
TATAATTAATATTAATATTAAATTATATTAATATAATATAATATTAA
Found at i:1725866 original size:39 final size:38
Alignment explanation
Indices: 1725823--1725932 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
1725813 TATAATTAAT
1725823 ATTAATATAAATTTATATATTATAATTAATATTAATATA
1 ATTAATAT-AATTTATATATTATAATTAATATTAATATA
1725862 ATT-A-AT-A-TTA-ATATTA-AATT-ATATTAATATA
1 ATTAATATAATTTATATATTATAATTAATATTAATATA
* *
1725893 ATATAATATAGTTTATA-ATTTGTAATTAATATTAATATA
1 AT-TAATATAATTTATATA-TTATAATTAATATTAATATA
1725932 A
1 A
1725933 AATATAGTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
31 13 0.22
32 5 0.08
33 7 0.12
34 5 0.08
35 1 0.02
36 4 0.07
37 5 0.08
38 5 0.08
39 15 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (38 bp):
ATTAATATAATTTATATATTATAATTAATATTAATATA
Found at i:1725877 original size:51 final size:52
Alignment explanation
Indices: 1725789--1725963 Score: 157
Period size: 51 Copynumber: 3.4 Consensus size: 52
1725779 TTCATCCCTA
* *
1725789 TATAATTTATATTAATAAACTATTTATAATTAATATTAATATAAATTTATATAT
1 TATAATTAATATTAATATA--ATTTATAATTAATATTAATATAAATTTATATAT
* * * *
1725843 TATAATTAATATTAATATAATTAAT-ATTAATATTAA-ATTATATTAATATAA
1 TATAATTAATATTAATATAATTTATAATTAATATTAATA-TAAATTTATATAT
* * *
1725894 TATAA-T-ATAGTT--TATAATTTGTAATTAATATTAATATAAA-ATATAGTCT
1 TATAATTAATA-TTAATATAATTTATAATTAATATTAATATAAATTTATA-TAT
*
1725943 ATAAAATTAATATTAATATAA
1 -TATAATTAATATTAATATAA
1725964 ACTATATTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
48 11 0.11
49 18 0.19
50 9 0.09
51 29 0.30
52 8 0.08
53 5 0.05
54 17 0.18
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (52 bp):
TATAATTAATATTAATATAATTTATAATTAATATTAATATAAATTTATATAT
Found at i:1725889 original size:31 final size:31
Alignment explanation
Indices: 1725816--1726061 Score: 90
Period size: 35 Copynumber: 7.9 Consensus size: 31
1725806 AACTATTTAT
* *
1725816 AATTA-ATATTAATATAAATTTATA-TATTAT-
1 AATTATATA-TAATAT-AATTAATATTAATATA
1725846 AATTA-ATATTAATATAATTAATATTAATATTA
1 AATTATATA-TAATATAATTAATATTAATA-TA
1725878 AATTATAT-T-A-AT-A-TAATA-TAATATA
1 AATTATATATAATATAATTAATATTAATATA
** * *
1725903 GTTTATA-AT-TTGTAATTAATATTAATATA
1 AATTATATATAATATAATTAATATTAATATA
* * *
1725932 AAATATAGTCT-ATAAAATTAATATTAATATA
1 AATTATA-TATAATATAATTAATATTAATATA
* * * *
1725963 AACTATATTTTATA-AATTATATAGTATAGTTTATA
1 AATTATATATAATATAATTA-ATA-T-TA--ATATA
*
1725998 AACTATAGT-TAATATAATTAATATTAATTAGTA
1 AATTATA-TATAATATAATTAATATTAA-TA-TA
* * * *
1726031 TATGGTTTATAGACTATAATTAATATTAATA
1 AAT--TATATATAATATAATTAATATTAATA
1726062 CGATATACTA
Statistics
Matches: 169, Mismatches: 23, Indels: 44
0.72 0.10 0.19
Matches are distributed among these distances:
25 8 0.05
26 6 0.04
27 6 0.04
28 6 0.04
29 20 0.12
30 27 0.16
31 32 0.19
32 8 0.05
33 9 0.05
34 4 0.02
35 37 0.22
36 6 0.04
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (31 bp):
AATTATATATAATATAATTAATATTAATATA
Found at i:1725956 original size:70 final size:71
Alignment explanation
Indices: 1725815--1725963 Score: 175
Period size: 70 Copynumber: 2.1 Consensus size: 71
1725805 AAACTATTTA
*
1725815 TAAT-TAATATTAATATAAATTTATATATTATAATTAATATTAATATAATTAATATTAATATTAA
1 TAATATAATATTAATATAAATTTATATATTATAATTAATATTAATATAA-TAATATTAATATAAA
1725879 ATTATAT
65 ATTATAT
* * *
1725886 TAATATAATA-TAATAT-AGTTTATA-ATTTGTAATTAATATTAATATAA-AATA-TAGTCTATA
1 TAATATAATATTAATATAAATTTATATA-TTATAATTAATATTAATATAATAATATTA--ATATA
1725946 AAATTAATAT
63 AAATT-ATAT
1725956 TAATATAA
1 TAATATAA
1725964 ACTATATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
67 2 0.03
68 4 0.06
69 9 0.13
70 39 0.57
71 10 0.14
72 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (71 bp):
TAATATAATATTAATATAAATTTATATATTATAATTAATATTAATATAATAATATTAATATAAAA
TTATAT
Found at i:1725968 original size:24 final size:25
Alignment explanation
Indices: 1725923--1725969 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1725913 TGTAATTAAT
**
1725923 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
1725948 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
1725970 TTTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:1726155 original size:36 final size:36
Alignment explanation
Indices: 1726115--1726193 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
1726105 TAATGTAAAC
* *
1726115 TATAGTTTATAAATTATCTACTACATTAATACAAAT
1 TATAGTTTATAAACTATATACTACATTAATACAAAT
* *
1726151 TATAGTTTATAAACTATATACTATATTAATATAAAT
1 TATAGTTTATAAACTATATACTACATTAATACAAAT
1726187 TATAGTT
1 TATAGTT
1726194 AAGATAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (36 bp):
TATAGTTTATAAACTATATACTACATTAATACAAAT
Found at i:1726190 original size:15 final size:15
Alignment explanation
Indices: 1726172--1726222 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1726162 AACTATATAC
1726172 TATATTAATATAAAT
1 TATATTAATATAAAT
*
1726187 TATAGTTAAGAT-AAT
1 TATA-TTAATATAAAT
* *
1726202 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
1726218 TATAT
1 TATAT
1726223 AGTACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:1726244 original size:20 final size:21
Alignment explanation
Indices: 1726204--1726245 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
1726194 AAGATAATTA
1726204 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
1726226 ACATTAATATAAA-ATATAGT
1 ACATTAATATAAACATATAGT
1726246 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:1726323 original size:22 final size:22
Alignment explanation
Indices: 1726281--1726384 Score: 71
Period size: 20 Copynumber: 5.1 Consensus size: 22
1726271 ATTTATAGTT
* * *
1726281 TACATATA-AATAGATTGTATA
1 TACATATACTATAGGTTATATA
1726302 TACATATACTATAGG-T-TATA
1 TACATATACTATAGGTTATATA
*
1726322 T--ATATA-TATAGTTTATATA
1 TACATATACTATAGGTTATATA
* * *
1726341 TA-TTATAC-ATAGTTTATACA
1 TACATATACTATAGGTTATATA
* *
1726361 TACATGTACTATAAGTTATATA
1 TACATATACTATAGGTTATATA
1726383 TA
1 TA
1726385 TAGTTTACAT
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
17 5 0.08
18 6 0.09
19 5 0.08
20 22 0.33
21 13 0.20
22 15 0.23
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (22 bp):
TACATATACTATAGGTTATATA
Found at i:1726325 original size:37 final size:38
Alignment explanation
Indices: 1726274--1726358 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
1726264 AGGTTACATT
*
1726274 TATAGTTTACATATA-A-ATAGATTGTATATACA-TATAC
1 TATAGTTTATATATATATATAG-TT-TATATACATTATAC
* *
1726311 TATAGGTTATATATATATATAGTTTATATATATTATAC
1 TATAGTTTATATATATATATAGTTTATATACATTATAC
1726349 -ATAGTTTATA
1 TATAGTTTATA
1726359 CATACATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 29 0.71
38 8 0.20
39 4 0.10
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (38 bp):
TATAGTTTATATATATATATAGTTTATATACATTATAC
Found at i:1726338 original size:11 final size:11
Alignment explanation
Indices: 1726324--1726391 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
1726314 AGGTTATATA
1726324 TATATATAGTT
1 TATATATAGTT
1726335 TATATATA--T
1 TATATATAGTT
*
1726344 TATACATAGTT
1 TATATATAGTT
* * *
1726355 TATACATACATG
1 TATATATA-GTT
1726367 TACTATA-AGTT
1 TA-TATATAGTT
1726378 ATATATATAGTT
1 -TATATATAGTT
1726390 TA
1 TA
1726392 CATGTATACA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 8 0.18
11 24 0.53
12 10 0.22
13 3 0.07
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (11 bp):
TATATATAGTT
Found at i:1726338 original size:15 final size:17
Alignment explanation
Indices: 1726300--1726347 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1726290 ATAGATTGTA
*
1726300 TATACATATACTATAGGT
1 TATATATATA-TATAGGT
*
1726318 TATATATATATATAGTT
1 TATATATATATATAGGT
1726335 TATATATAT-TATA
1 TATATATATATATA
1726348 CATAGTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.14
17 15 0.54
18 9 0.32
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (17 bp):
TATATATATATATAGGT
Found at i:1726556 original size:7 final size:7
Alignment explanation
Indices: 1726533--1726578 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
1726523 AGTTTATATA
1726533 GTTTAGG
1 GTTTAGG
*
1726540 GTGTAGG
1 GTTTAGG
1726547 GTTTAGG
1 GTTTAGG
*
1726554 GTTTATG
1 GTTTAGG
* *
1726561 TTTTAAG
1 GTTTAGG
1726568 GTTTAGG
1 GTTTAGG
1726575 GTTT
1 GTTT
1726579 CTATAAACTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:1726620 original size:15 final size:16
Alignment explanation
Indices: 1726602--1726631 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1726592 ACTTTATTAC
1726602 TTTATATATA-TATAG
1 TTTATATATACTATAG
1726617 TTTATATATACTATA
1 TTTATATATACTATA
1726632 CATAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTATATATACTATAG
Found at i:1726636 original size:20 final size:20
Alignment explanation
Indices: 1726604--1726647 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1726594 TTTATTACTT
*
1726604 TATA-TATATATAGTTTATA
1 TATACTATACATAGTTTATA
1726623 TATACTATACATAGTTTATA
1 TATACTATACATAGTTTATA
*
1726643 CATAC
1 TATAC
1726648 ATGTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACTATACATAGTTTATA
Found at i:1727039 original size:13 final size:13
Alignment explanation
Indices: 1727009--1727206 Score: 89
Period size: 13 Copynumber: 15.3 Consensus size: 13
1726999 CTATATACTT
1727009 TATATAGTTTATACA
1 TATATAGTTTAT--A
1727024 TATATAGTTTATA
1 TATATAGTTTATA
*
1727037 TATATA-TATACTA
1 TATATAGTTTA-TA
* * *
1727050 TAT-TAATATAAA
1 TATATAGTTTATA
1727062 T-TATAGTTTATAAA
1 TATATAGTTTAT--A
*
1727076 CTATATA-CTT-T-
1 -TATATAGTTTATA
1727087 T-TATAGTTTATACA
1 TATATAGTTTAT--A
1727101 TATATAGTTTATA
1 TATATAGTTTATA
* *
1727114 TACATAATTTATA
1 TATATAGTTTATA
*
1727127 TATATAGGTCATATA
1 TATATA-GT-TTATA
* *
1727142 AACATAGTTTATA
1 TATATAGTTTATA
*
1727155 TATATA-CTTATA
1 TATATAGTTTATA
1727167 -ATA-A-TTATATA
1 TATATAGTT-TATA
*
1727178 GTTTATAG--TATA
1 -TATATAGTTTATA
1727190 TATATAGTTTATA
1 TATATAGTTTATA
1727203 TATA
1 TATA
1727207 AACTTATATT
Statistics
Matches: 140, Mismatches: 21, Indels: 46
0.68 0.10 0.22
Matches are distributed among these distances:
9 4 0.03
10 5 0.04
11 15 0.11
12 21 0.15
13 51 0.36
14 7 0.05
15 33 0.24
16 4 0.03
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:1727047 original size:77 final size:77
Alignment explanation
Indices: 1726943--1727115 Score: 285
Period size: 77 Copynumber: 2.2 Consensus size: 77
1726933 ATCTATAGAT
* *
1726943 TACATATATTAG-TTATACATACATATACTATATTAATATAATTTATAATTTATAAACTATATAC
1 TACATATA-TAGTTTATATATACATATACTATATTAATATAAATTATAATTTATAAACTATATAC
1727007 TTTATATAGTTTA
65 TTTATATAGTTTA
* *
1727020 TACATATATAGTTTATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACT
1 TACATATATAGTTTATATATACATATACTATATTAATATAAATTATAATTTATAAACTATATACT
*
1727085 TTTTATAGTTTA
66 TTATATAGTTTA
1727097 TACATATATAGTTTATATA
1 TACATATATAGTTTATATA
1727116 CATAATTTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 3 0.03
77 87 0.97
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (77 bp):
TACATATATAGTTTATATATACATATACTATATTAATATAAATTATAATTTATAAACTATATACT
TTATATAGTTTA
Found at i:1727170 original size:28 final size:27
Alignment explanation
Indices: 1727089--1727191 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 27
1727079 TATACTTTTT
*
1727089 ATAGTTTATACATATATAGTT-TATATAC
1 ATAGTTTAT--ATATATAGTTATATAAAC
* *
1727117 ATAATTTATATATATAGGTCATATAAAC
1 ATAGTTTATATATATA-GTTATATAAAC
* *
1727145 ATAGTTTATATATATACTTATAATAATTAT
1 ATAGTTTATATATATAGTTAT-ATAA--AC
1727175 ATAGTTTATAGTATATA
1 ATAGTTTATA-TATATA
1727192 TATAGTTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 7 0.11
27 5 0.08
28 33 0.53
30 11 0.18
31 6 0.10
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (27 bp):
ATAGTTTATATATATAGTTATATAAAC
Found at i:1727206 original size:15 final size:15
Alignment explanation
Indices: 1727009--1727206 Score: 90
Period size: 15 Copynumber: 13.1 Consensus size: 15
1726999 CTATATACTT
*
1727009 TATATAGTTTATACA
1 TATATAGTTTATATA
1727024 TATATAGTTTATATA
1 TATATAGTTTATATA
*
1727039 TATATA-TACTATAT-
1 TATATAGT-TTATATA
** *
1727053 TAATATAAATTATAGTT
1 T-ATATAGTTTATA-TA
* * * *
1727070 TATAAACTATATACTT
1 TATATAGTTTATA-TA
* *
1727086 TTTATAGTTTATACA
1 TATATAGTTTATATA
1727101 TATATAGTTTATATA
1 TATATAGTTTATATA
*
1727116 CATA-A--TT-TATA
1 TATATAGTTTATATA
* *
1727127 TATATAGGTCATATA
1 TATATAGTTTATATA
* *
1727142 AACATAG-TT-TATA
1 TATATAGTTTATATA
*
1727155 TATATA-CTTATAATAA
1 TATATAGTTTAT-AT-A
1727171 TTATATAGTTTATAGTATA
1 -TATATAG-TT-TA-TATA
1727190 TATATAGTTTATATA
1 TATATAGTTTATATA
1727205 TA
1 TA
1727207 AACTTATATT
Statistics
Matches: 139, Mismatches: 26, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
11 7 0.05
12 3 0.02
13 10 0.07
14 6 0.04
15 67 0.48
16 23 0.17
17 9 0.06
18 7 0.05
19 2 0.01
20 4 0.03
21 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:1727451 original size:11 final size:11
Alignment explanation
Indices: 1727434--1727469 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1727424 TAGGTTATTA
1727434 ATAAACTACAT
1 ATAAACTACAT
*
1727445 TTAAACTACAT
1 ATAAACTACAT
*
1727456 ATAAACTATAT
1 ATAAACTACAT
1727467 ATA
1 ATA
1727470 TTTATATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAAACTACAT
Found at i:1737100 original size:31 final size:31
Alignment explanation
Indices: 1737065--1737125 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
1737055 TGTATCATTG
*
1737065 TAAAATTTTAT-TTATATAA-ATTTTATATTTT
1 TAAAA-TTTATGTTAT-TAATATATTATATTTT
1737096 TAAAATTTATGTTATTAATATATTATATTT
1 TAAAATTTATGTTATTAATATATTATATTT
1737126 ATCTCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TAAAATTTATGTTATTAATATATTATATTTT
Found at i:1737101 original size:16 final size:15
Alignment explanation
Indices: 1737065--1737125 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
1737055 TGTATCATTG
1737065 TAAAATTT-TATTTAT
1 TAAAATTTATATTT-T
*
1737080 ATAAATTTTATATTTT
1 -TAAAATTTATATTTT
* *
1737096 TAAAATTTATGTTAT
1 TAAAATTTATATTTT
*
1737111 TAATATATTATATTT
1 TAAAAT-TTATATTT
1737126 ATCTCAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 17 0.47
16 14 0.39
17 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
TAAAATTTATATTTT
Found at i:1737553 original size:16 final size:15
Alignment explanation
Indices: 1737532--1737561 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1737522 AGCGAGTGAA
1737532 TAAATAAATGGTTTTT
1 TAAATAAAT-GTTTTT
1737548 TAAATAAATGTTTT
1 TAAATAAATGTTTT
1737562 GGAGTCGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAATAAATGTTTTT
Found at i:1739871 original size:3 final size:3
Alignment explanation
Indices: 1739863--1739956 Score: 181
Period size: 3 Copynumber: 31.7 Consensus size: 3
1739853 AATGGGTATG
1739863 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1739911 T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1739957 GTGATGCGCA
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 88 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1741805 original size:60 final size:59
Alignment explanation
Indices: 1741688--1741806 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 59
1741678 TTCGATTATA
* * * * *
1741688 AGAGGTTATATTGTTGAGTTTCTCAACTATTAAATGTTACAAAATTATCCTCCGACTAT
1 AGAGGTTATATTATTGAGTTTCTCAACTATTAAAAGTTACAAAATGATCATACGACTAT
* * *
1741747 AGAGCGTTATTTTATTGAGTCTTC-CGACTATTAAAAGTTACAAAATGATCATATGACTAT
1 AGAG-GTTATATTATTGAGT-TTCTCAACTATTAAAAGTTACAAAATGATCATACGACTAT
1741807 TTATATGTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.08
60 43 0.86
61 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (59 bp):
AGAGGTTATATTATTGAGTTTCTCAACTATTAAAAGTTACAAAATGATCATACGACTAT
Found at i:1742455 original size:2 final size:2
Alignment explanation
Indices: 1742443--1742489 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
1742433 TTGGGGAGGG
* * *
1742443 GA GA CA GA GA GA GA CA GA GA GA GA CA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1742485 GA GA G
1 GA GA G
1742490 GGAGGTGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.06, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1742489 original size:10 final size:10
Alignment explanation
Indices: 1742443--1742486 Score: 79
Period size: 10 Copynumber: 4.4 Consensus size: 10
1742433 TTGGGGAGGG
1742443 GAGACAGAGA
1 GAGACAGAGA
1742453 GAGACAGAGA
1 GAGACAGAGA
1742463 GAGACAGAGA
1 GAGACAGAGA
*
1742473 GAGAGAGAGA
1 GAGACAGAGA
1742483 GAGA
1 GAGA
1742487 GAGGGAGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.50, C:0.07, G:0.43, T:0.00
Consensus pattern (10 bp):
GAGACAGAGA
Found at i:1745306 original size:23 final size:21
Alignment explanation
Indices: 1745268--1745328 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
1745258 GATTGTATAA
*
1745268 TTAATTTTTTTATTAAAATAGTG
1 TTAA-TTTTTT-TTAAAATAATG
*
1745291 TTCATATTTTTTTTAAATTAATG
1 TT-A-ATTTTTTTTAAAATAATG
1745314 TTAATTTTATTTTAA
1 TTAATTTT-TTTTAA
1745329 TATTTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
23 13 0.39
24 7 0.21
25 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTAATTTTTTTTAAAATAATG
Found at i:1751873 original size:21 final size:22
Alignment explanation
Indices: 1751849--1751889 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1751839 TTTCCTCTGG
1751849 TTTTATAAAAG-TTTTCTTTTC
1 TTTTATAAAAGTTTTTCTTTTC
* *
1751870 TTTTTTCAAAGTTTTTCTTT
1 TTTTATAAAAGTTTTTCTTT
1751890 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTATAAAAGTTTTTCTTTTC
Found at i:1752545 original size:17 final size:18
Alignment explanation
Indices: 1752523--1752566 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1752513 AATTTATTTA
*
1752523 TTTATTTTA-TCTTATCT
1 TTTATTTTATTCTCATCT
*
1752540 TTTATTTTATTCTCATTT
1 TTTATTTTATTCTCATCT
1752558 TTTATTTTA
1 TTTATTTTA
1752567 AAATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTATTCTCATCT
Found at i:1752562 original size:18 final size:17
Alignment explanation
Indices: 1752518--1752566 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
1752508 TTTAAAATTT
*
1752518 ATTTATTTATTTTATCTT
1 ATTT-TTTATTTTATCTC
*
1752536 ATCTTTTATTTTATTCTC
1 ATTTTTTATTTTA-TCTC
1752554 ATTTTTTATTTTA
1 ATTTTTTATTTTA
1752567 AAATAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTATTTTATCTC
Found at i:1755620 original size:5 final size:5
Alignment explanation
Indices: 1755607--1755693 Score: 59
Period size: 5 Copynumber: 17.0 Consensus size: 5
1755597 GAGGCAACCC
* *** **
1755607 ATTTC ATTTT ATTTT -TTTT ATTTTT AGCAT ATTTT ATTCC ATTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT A-TTTT ATTTT
* **
1755658 ATTTT ATTCTA AGCTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATTTT
1755694 TCTTTGAACA
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
4 4 0.07
5 47 0.77
6 10 0.16
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:1755660 original size:21 final size:21
Alignment explanation
Indices: 1755636--1755686 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1755626 ATTTTTAGCA
***
1755636 TATTTTATTCCATTTTTATTT
1 TATTTTATTCCAAGCTTATTT
*
1755657 TATTTTATTCTAAGCTTATTT
1 TATTTTATTCCAAGCTTATTT
1755678 TATTTTATT
1 TATTTTATT
1755687 TTATTTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTTATTCCAAGCTTATTT
Found at i:1755665 original size:26 final size:26
Alignment explanation
Indices: 1755636--1755693 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
1755626 ATTTTTAGCA
*
1755636 TATTTTATTCCAT-TTTTATTTTATTT
1 TATTTTA-ACCATATTTTATTTTATTT
* * *
1755662 TATTCTAAGCTTATTTTATTTTATTT
1 TATTTTAACCATATTTTATTTTATTT
1755688 TATTTT
1 TATTTT
1755694 TCTTTGAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.71
Consensus pattern (26 bp):
TATTTTAACCATATTTTATTTTATTT
Found at i:1758450 original size:19 final size:17
Alignment explanation
Indices: 1758426--1758468 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1758416 ATATTCTTTA
1758426 TACTATTATTTCATTATTT
1 TACTATT-TTT-ATTATTT
*
1758445 TACTATTTTTGTTATTT
1 TACTATTTTTATTATTT
1758462 TA-TATTT
1 TACTATTT
1758469 GTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 8 0.35
18 3 0.13
19 7 0.30
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (17 bp):
TACTATTTTTATTATTT
Found at i:1759464 original size:20 final size:21
Alignment explanation
Indices: 1759434--1759472 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1759424 AGTTTAAGAA
1759434 TTATCTTTAGGAATTATCTCT
1 TTATCTTTAGGAATTATCTCT
1759455 TTAT-TTTAGGAATTATCT
1 TTATCTTTAGGAATTATCT
1759473 TTTCCTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
TTATCTTTAGGAATTATCTCT
Found at i:1759586 original size:21 final size:22
Alignment explanation
Indices: 1759562--1759602 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1759552 TTTACTCTGG
1759562 TTTTATAAAAG-TTTTCTTTCC
1 TTTTATAAAAGTTTTTCTTTCC
* *
1759583 TTTTTTCAAAGTTTTTCTTT
1 TTTTATAAAAGTTTTTCTTT
1759603 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTTATAAAAGTTTTTCTTTCC
Found at i:1760259 original size:18 final size:18
Alignment explanation
Indices: 1760236--1760277 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
1760226 TATTTATTTA
1760236 TTTATTTTA-TCCTTATCT
1 TTTATTTTATTCC-TATCT
1760254 TTTATTTTATTCCTATCT
1 TTTATTTTATTCCTATCT
1760272 TTTATT
1 TTTATT
1760278 CTAAAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTTATTCCTATCT
Found at i:1761311 original size:19 final size:19
Alignment explanation
Indices: 1761279--1761315 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1761269 ATGACCAACA
* *
1761279 AAATCGCAATGCGATCTCT
1 AAATCACAACGCGATCTCT
1761298 AAATCACAACGCGATCTC
1 AAATCACAACGCGATCTC
1761316 CAGTATCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCACAACGCGATCTCT
Found at i:1761374 original size:60 final size:60
Alignment explanation
Indices: 1761304--1761426 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 60
1761294 CTCTAAATCA
1761304 CAACGCGATCTCCAGTATCACAAATCAATTTCCAGATTCGCAACGCGATTTTGACTATCG
1 CAACGCGATCTCCAGTATCACAAATCAATTTCCAGATTCGCAACGCGATTTTGACTATCG
* * *
1761364 CAACGCGATCTCCAGTATCGCAAATCAGTTTCTAGATTCGCAACGCGATTTTGACTATCG
1 CAACGCGATCTCCAGTATCACAAATCAATTTCCAGATTCGCAACGCGATTTTGACTATCG
1761424 CAA
1 CAA
1761427 TGTGAATATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (60 bp):
CAACGCGATCTCCAGTATCACAAATCAATTTCCAGATTCGCAACGCGATTTTGACTATCG
Found at i:1761383 original size:20 final size:20
Alignment explanation
Indices: 1761281--1761386 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
1761271 GACCAACAAA
* * *
1761281 ATCGCAATGCGATCTCTA-A
1 ATCGCAACGCGATCTCCAGT
*
1761300 ATCACAACGCGATCTCCAGT
1 ATCGCAACGCGATCTCCAGT
* ** * *
1761320 ATCACAAATCAATTTCCAG-
1 ATCGCAACGCGATCTCCAGT
* ** *
1761339 ATTCGCAACGCGATTTTGACT
1 A-TCGCAACGCGATCTCCAGT
1761360 ATCGCAACGCGATCTCCAGT
1 ATCGCAACGCGATCTCCAGT
1761380 ATCGCAA
1 ATCGCAA
1761387 ATCAGTTTCT
Statistics
Matches: 65, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
19 16 0.25
20 48 0.74
21 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATCTCCAGT
Found at i:1761424 original size:20 final size:19
Alignment explanation
Indices: 1761401--1761489 Score: 52
Period size: 20 Copynumber: 4.5 Consensus size: 19
1761391 GTTTCTAGAT
1761401 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGA-TA
* * * * *
1761421 TCGCAATGTGAATATGTAAA
1 TCGCAACGCGATTTTG-ATA
* * * *
1761441 TCGCAATGCGAATATGTAAA
1 TCGCAACGCGATTTTG-ATA
*
1761461 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTTTGA-TA
1761481 TCGCAACGC
1 TCGCAACGC
1761490 TATAATACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (19 bp):
TCGCAACGCGATTTTGATA
Found at i:1761444 original size:60 final size:60
Alignment explanation
Indices: 1761304--1761489 Score: 189
Period size: 60 Copynumber: 3.1 Consensus size: 60
1761294 CTCTAAATCA
* * * *
1761304 CAACGCGATCTCCAGTATCACAAATCAATTTCCAGATTCGCAACGCGATTTTGACTATCG
1 CAACGCGATATCCAGAATCGCAAATCAATTTCTAGATTCGCAACGCGATTTTGACTATCG
* * *
1761364 CAACGCGATCTCCAGTATCGCAAATCAGTTTCTAGATTCGCAACGCGATTTTGACTATCG
1 CAACGCGATATCCAGAATCGCAAATCAATTTCTAGATTCGCAACGCGATTTTGACTATCG
* * ** * * * *
1761424 CAATGTGAATATGTA-AATCGC-AATGCGAATATGTA-AATCGCAACGCGATTCTGACTATCG
1 CAACGCG-ATATCCAGAATCGCAAAT-C-AATTTCTAGATTCGCAACGCGATTTTGACTATCG
1761484 CAACGC
1 CAACGC
1761490 TATAATACAA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 3 0.03
60 95 0.89
61 9 0.08
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (60 bp):
CAACGCGATATCCAGAATCGCAAATCAATTTCTAGATTCGCAACGCGATTTTGACTATCG
Found at i:1761510 original size:41 final size:41
Alignment explanation
Indices: 1761458--1761559 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
1761448 GCGAATATGT
* *
1761458 AAATCGCAACGCGATTCTGACTATCGCAACGCTATAATACA
1 AAATCGCAACGCGATTCTGACTACCGCAACGCGATAATACA
*
1761499 AAATCGTAACGCGATTCTGACTACCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTACCGCAACGCGATAATACA
*
1761540 AAATCGCAACACGATTCTGA
1 AAATCGCAACGCGATTCTGA
1761560 ATAGTAATAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTACCGCAACGCGATAATACA
Found at i:1761549 original size:21 final size:21
Alignment explanation
Indices: 1761480--1761554 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
1761470 GATTCTGACT
*
1761480 ATCGCAACGCTATAATACAAA
1 ATCGCAACGCGATAATACAAA
* ** *
1761501 ATCGTAACGCGATTCTGAC--T
1 ATCGCAACGCGATAAT-ACAAA
*
1761521 ACCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
*
1761542 ATCGCAACACGAT
1 ATCGCAACGCGAT
1761555 TCTGAATAGT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 2 0.05
20 12 0.31
21 23 0.59
22 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.15, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:1761705 original size:21 final size:21
Alignment explanation
Indices: 1761615--1761712 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
1761605 GCGAATATGT
*
1761615 AAATCACAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
1761636 AAATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
* **
1761657 AAATCACAACGCGATTCTGAC-
1 AAATCGCAACGCGATAAT-ACA
*
1761678 -TATCGCAACGCGATAATACA
1 AAATCGCAACGCGATAATACA
* *
1761698 TAATCGCAATGCGAT
1 AAATCGCAACGCGAT
1761713 TTTCCAAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 13 0.20
21 47 0.73
22 2 0.03
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.18
Consensus pattern (21 bp):
AAATCGCAACGCGATAATACA
Found at i:1761872 original size:5 final size:6
Alignment explanation
Indices: 1761822--1761869 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
1761812 GACACGTATT
*
1761822 ACCACG ACCACG ACCACG ACCACG ACCACG ATC-CG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1761867 ACC
1 ACC
1761870 CGAGACGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 14 0.35
6 26 0.65
ACGTcount: A:0.29, C:0.52, G:0.17, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:1762122 original size:19 final size:19
Alignment explanation
Indices: 1762098--1762206 Score: 110
Period size: 19 Copynumber: 5.4 Consensus size: 19
1762088 TTATTTTGGA
1762098 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
1762117 TTTTTCACTATCGCAATAACAC
1 TTTTTCACTATCGC---AACAC
*
1762139 GTTTTTCAAACTCTCGCAACAC
1 -TTTTTC--ACTATCGCAACAC
* *
1762161 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
* *
1762180 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
1762199 ATTTTTCA
1 -TTTTTCA
1762207 AAATGGCGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
19 45 0.58
20 5 0.06
21 4 0.05
22 10 0.13
23 6 0.08
25 7 0.09
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:1767604 original size:23 final size:23
Alignment explanation
Indices: 1767543--1767630 Score: 103
Period size: 23 Copynumber: 3.9 Consensus size: 23
1767533 CAACTCGTAA
1767543 TTTGCACCGAAGTGCCACATAA-
1 TTTGCACCGAAGTGCCACATAAG
*
1767565 -TTGTC-TCGAA-TGACCACATAAG
1 TTTG-CACCGAAGTG-CCACATAAG
* *
1767587 TTTGCACCGAAGTTCCACATAGG
1 TTTGCACCGAAGTGCCACATAAG
1767610 TTTGCACCGAAGTGCCACATA
1 TTTGCACCGAAGTGCCACATA
1767631 TTTATCCCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
20 2 0.04
21 15 0.27
22 2 0.04
23 35 0.64
24 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAAG
Found at i:1768345 original size:42 final size:42
Alignment explanation
Indices: 1768276--1768377 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
1768266 TTCTTAATAA
* * *
1768276 GGGTATCGATACTACCCTTACAGTATCGATACCCAT-CTCAAC
1 GGGTATCGATACTACCCTCACAATATCGATACCC-TCCTAAAC
* *
1768318 TGGTATAGATACTACCCTCACAATATCGATACCCTCCTAAAC
1 GGGTATCGATACTACCCTCACAATATCGATACCCTCCTAAAC
*
1768360 GGGTATCGATACAACCCT
1 GGGTATCGATACTACCCT
1768378 TAGAAAATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (42 bp):
GGGTATCGATACTACCCTCACAATATCGATACCCTCCTAAAC
Found at i:1770829 original size:117 final size:118
Alignment explanation
Indices: 1770608--1770821 Score: 256
Period size: 117 Copynumber: 1.8 Consensus size: 118
1770598 ATCTTATTTT
*
1770608 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAA
1 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
* *
1770673 TAAAATCGGAAAACTTTGAAAAAGAAATTTTCAAATTAAACAAACTTCTTCTA
66 TAAAATCGGAAAACTTGGAAAAAGAAAATTTCAAATTAAACAAACTTCTTCTA
* * * * *
1770726 GAAA-CTAAAATGGATTTTGAAAA-ACAAAATGAAAT-TTCGAAGAAGAATTTAGAGCTTTCAAA
1 GAAAGCTAAAAAGGACTTGGAAAATA-AAAATGAAATGTT-GAAAAAGAAGTTAGAGCTTTCAAA
* ** * *
1770788 GATAAAATTTG-AAAGTATGGAAAAGGAAAATTTC
64 AATAAAATCGGAAAACT-TGGAAAAAGAAAATTTC
1770822 GATTTAAAAG
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
116 7 0.09
117 69 0.86
118 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.25
Consensus pattern (118 bp):
GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
TAAAATCGGAAAACTTGGAAAAAGAAAATTTCAAATTAAACAAACTTCTTCTA
Found at i:1771391 original size:20 final size:21
Alignment explanation
Indices: 1771358--1771397 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1771348 TTTTAACGTA
1771358 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
1771378 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
1771398 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:1771405 original size:22 final size:20
Alignment explanation
Indices: 1771357--1771401 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1771347 ATTTTAACGT
1771357 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
1771377 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
1771398 AATT
1 AATT
1771402 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:1783770 original size:23 final size:23
Alignment explanation
Indices: 1783713--1783796 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
1783703 TCGTAATTTG
*
1783713 CACCGAAATGCTACATAA--TTA
1 CACCGAAATGCCACATAAGTTTA
1783734 TCA-CG-AATGACCACATAAGTTTA
1 -CACCGAAATG-CCACATAAGTTTA
* *
1783757 CACCGAAATGCCACATAGGTTTG
1 CACCGAAATGCCACATAAGTTTA
* * *
1783780 TACTGAAGTGCCACATA
1 CACCGAAATGCCACATA
1783797 TTTATCCCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.08
21 9 0.18
22 4 0.08
23 30 0.59
24 4 0.08
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (23 bp):
CACCGAAATGCCACATAAGTTTA
Found at i:1784400 original size:19 final size:20
Alignment explanation
Indices: 1784352--1784403 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
1784342 CTACCCCTAA
1784352 GTACCGATACTTCCCTTCAAGG
1 GTACCGATAC--CCCTTCAAGG
* *
1784374 GTATCGATACCTCTTCAA-G
1 GTACCGATACCCCTTCAAGG
1784393 GTACCGATACC
1 GTACCGATACC
1784404 GAAATAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 7 0.26
22 9 0.33
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (20 bp):
GTACCGATACCCCTTCAAGG
Found at i:1790497 original size:17 final size:17
Alignment explanation
Indices: 1790471--1790503 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1790461 AATTTAGTTA
1790471 TCAAACTATGACTCTTAT
1 TCAAACTATGA-TCTTAT
1790489 TCAAA-TATGATCTTA
1 TCAAACTATGATCTTA
1790504 ATTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (17 bp):
TCAAACTATGATCTTAT
Found at i:1808519 original size:12 final size:12
Alignment explanation
Indices: 1808498--1808537 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
1808488 ACGATGAAAC
*
1808498 AAAACAAAAAGTA
1 AAAATAAAAA-TA
1808511 AAAATAAAAATA
1 AAAATAAAAATA
1808523 AAAATAAAATATA
1 AAAATAAAA-ATA
1808536 AA
1 AA
1808538 GGAATCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:1808520 original size:7 final size:6
Alignment explanation
Indices: 1808498--1808537 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
1808488 ACGATGAAAC
*
1808498 AAAACA AAAAGTA AAAATA AAAATA AAAATA AAATATA AA
1 AAAATA AAAA-TA AAAATA AAAATA AAAATA AAA-ATA AA
1808538 GGAATCGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:1812690 original size:54 final size:55
Alignment explanation
Indices: 1812595--1812718 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 55
1812585 CCCCATAGGA
** *
1812595 GGAACCGATT-CCCCCTAAATGGTTTTGACCCCGAGATTTCCAGAATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTTGACCCCGAGAATTCCAGAATGCTCGGAG
* * * *
1812649 GGAATCGATTCCCCCCTAAACAGTTTTG-CTCTGAGAATTCCAGTATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTTGACCCCGAGAATTCCAGAATGCTCGGAG
*
1812703 GGAACCGATCCCCCCC
1 GGAACCGATTCCCCCC
1812719 AAGGGGGTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 45 0.75
55 15 0.25
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (55 bp):
GGAACCGATTCCCCCCTAAACAGTTTTGACCCCGAGAATTCCAGAATGCTCGGAG
Found at i:1818537 original size:23 final size:20
Alignment explanation
Indices: 1818486--1818545 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 20
1818476 TTTTGGTGCA
*
1818486 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
1818505 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
1818526 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
1818546 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.28
20 6 0.17
21 3 0.08
22 1 0.03
23 16 0.44
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:1820504 original size:9 final size:8
Alignment explanation
Indices: 1820482--1820532 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
1820472 TGTTTCAACA
1820482 TTTTGGAT
1 TTTTGGAT
1820490 ATTTTGGAT
1 -TTTTGGAT
1820499 TGTTT-GAT
1 T-TTTGGAT
1820507 TTTGTGGAT
1 TTT-TGGAT
*
1820516 TGTTGGA-
1 TTTTGGAT
1820523 TTTTGGAT
1 TTTTGGAT
1820531 TT
1 TT
1820533 ATGAATGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:1820516 original size:17 final size:17
Alignment explanation
Indices: 1820484--1820527 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1820474 TTTCAACATT
1820484 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
1820501 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
1820518 TTGGATTTTG
1 TTGGATTTTG
1820528 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:1821303 original size:75 final size:76
Alignment explanation
Indices: 1821132--1821338 Score: 301
Period size: 76 Copynumber: 2.8 Consensus size: 76
1821122 CAAAGCCAAA
* * **
1821132 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGTT
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1821197 TTGACCCCGAG
66 TTGACCCCGAG
*
1821208 ATTTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
*
1821273 TTG-CTCCGAG
66 TTGACCCCGAG
* * * * *
1821283 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCT
1 AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCT
1821339 TGTACAACGG
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 18 0.15
75 38 0.32
76 63 0.53
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGACCCCGAG
Found at i:1826547 original size:20 final size:21
Alignment explanation
Indices: 1826518--1826568 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1826508 TCAGAAGACC
* *
1826518 AATATTGATATTGAT-TGAAG
1 AATATCGATACTGATGTGAAG
1826538 AATATCGATACTGATGTGAAG
1 AATATCGATACTGATGTGAAG
*
1826559 -GTATCGATAC
1 AATATCGATAC
1826569 CAAGAGGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (21 bp):
AATATCGATACTGATGTGAAG
Found at i:1827056 original size:21 final size:21
Alignment explanation
Indices: 1827032--1827071 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1827022 ATTTTCACAG
1827032 TATTATT-TGATTCTATATGTA
1 TATTATTGTG-TTCTATATGTA
1827053 TATTATTGTGTTCTATATG
1 TATTATTGTGTTCTATATG
1827072 AAAATAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTATTGTGTTCTATATGTA
Found at i:1827274 original size:23 final size:23
Alignment explanation
Indices: 1827248--1827303 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1827238 GTCGAGGGTT
* *
1827248 CTATATGGTCATTCGGGACAAAC
1 CTATGTGGTCATTCGAGACAAAC
1827271 CTATGTGGTCATTCGAGACAAAC
1 CTATGTGGTCATTCGAGACAAAC
*
1827294 TTATGTGGTC
1 CTATGTGGTC
1827304 CTTCTGGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCATTCGAGACAAAC
Found at i:1842669 original size:46 final size:40
Alignment explanation
Indices: 1842570--1842672 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
1842560 TCGTTTATTT
*
1842570 ATTAAATGAACGAACATGAACAAGATTTTGTGTTCGTTTA
1 ATTAAATGAACGAACATGAACAAGATTTTGTCTTCGTTTA
*
1842610 ATTAAATGAACGAATATGAACAAGATTTTGTACTT-GTTTA
1 ATTAAATGAACGAACATGAACAAGATTTTGT-CTTCGTTTA
*
1842650 ATTAAATGGAA-GAACACGAACAA
1 ATTAAAT-GAACGAACATGAACAA
1842673 AAGGCTCGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (40 bp):
ATTAAATGAACGAACATGAACAAGATTTTGTCTTCGTTTA
Found at i:1842738 original size:14 final size:14
Alignment explanation
Indices: 1842716--1842755 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
1842706 TCGATTATAT
*
1842716 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
1842730 GTTCATTTATGTTC
1 GTTCATTTATGTTC
1842744 GTTCATTTATGT
1 GTTCATTTATGT
1842756 CCATTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:1842745 original size:24 final size:24
Alignment explanation
Indices: 1842702--1842768 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
1842692 ACGTTCGTGA
*
1842702 ACGTTCGATTATATGTTCGTTTATGTT
1 ACGTTC-ATT-TATGTTCGTTCAT-TT
1842729 -CGTTCATTTATGTTCGTTCATTT
1 ACGTTCATTTATGTTCGTTCATTT
* *
1842752 ATGTCCATTTATGTTCG
1 ACGTTCATTTATGTTCG
1842769 AACAGAGGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 2 0.06
24 26 0.72
25 3 0.08
26 5 0.14
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.52
Consensus pattern (24 bp):
ACGTTCATTTATGTTCGTTCATTT
Found at i:1850189 original size:19 final size:20
Alignment explanation
Indices: 1850148--1850190 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1850138 TTTATTTTAA
*
1850148 TTAAATTTGATTTTCTACCT
1 TTAAAATTGATTTTCTACCT
1850168 TTAAAATTGATTTTCT-CCT
1 TTAAAATTGATTTTCTACCT
1850187 TTAA
1 TTAA
1850191 TCTTTCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAAAATTGATTTTCTACCT
Found at i:1854808 original size:2 final size:2
Alignment explanation
Indices: 1854801--1854831 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1854791 TATAAAATTT
1854801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1854832 CCTAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1856756 original size:135 final size:133
Alignment explanation
Indices: 1856495--1856850 Score: 399
Period size: 135 Copynumber: 2.6 Consensus size: 133
1856485 TTAAATTAAT
* * * *
1856495 TTTAATCAATATTGCAATTCGAATAATTAAAGTGGAACCTCAAGCAAAAGCAAGGACCAAATGAA
1 TTTAATCAATATTG--ATTCAAATAA-TAAATTGGAACCTC-AGCAAAAGCGAGGACCAAATAAA
*
1856560 AAATTCTCCTAAATTAAGGACTAAAGTTGAAATTAGGCCTAAGATAGAGGCTCTAATATTAATCC
62 AAATTCTCCT-AATTAAGGACTAAAGTTGAAATTAGGCCTAAGATAGAGACTCTAATATTAATCC
*
1856625 TAATCAAC
126 AAATCAAC
* * *
1856633 TTTAATCAATTATTGATTCTAATAACTAAATTGGAACCTCAGCAAAAGCGATGACCAAATTAAAA
1 TTTAATCAA-TATTGATTCAAATAA-TAAATTGGAACCTCAGCAAAAGCGAGGACCAAATAAAAA
* * * *
1856698 ATTCACCTAATTTAGGATTAAA-TATGAAATTAGGCCTAAGATGGAGACTCTAATATTAATCCAA
64 ATTCTCCTAATTAAGGACTAAAGT-TGAAATTAGGCCTAAGATAGAGACTCTAATATTAATCCAA
* *
1856762 ATTAAG
128 ATCAAC
* * * * *
1856768 TTTAATCAAATATGGACTATCAAATAATTAATTCGGAACCTTGAGCATAAGTGAGGACCAAATAA
1 TTTAATC-AATATTGA-T-TCAAATAATAAATT-GGAACC-TCAGCAAAAGCGAGGACCAAATAA
1856833 AAAATTCTCCTAAATTAA
61 AAAATTCTCCT-AATTAA
1856851 AAGTTTAGGG
Statistics
Matches: 186, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
134 1 0.01
135 65 0.35
136 37 0.20
137 35 0.19
138 38 0.20
139 10 0.05
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (133 bp):
TTTAATCAATATTGATTCAAATAATAAATTGGAACCTCAGCAAAAGCGAGGACCAAATAAAAAAT
TCTCCTAATTAAGGACTAAAGTTGAAATTAGGCCTAAGATAGAGACTCTAATATTAATCCAAATC
AAC
Found at i:1857223 original size:27 final size:29
Alignment explanation
Indices: 1857190--1857253 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
1857180 ATAAACAATT
**
1857190 AATAATTTTAAGCAG-AAATTAAAATAAC
1 AATAATTTTAAAAAGAAAATTAAAATAAC
1857218 AA-AATTTTAAAAAGAAAAATTAAAATAAC
1 AATAATTTTAAAAAG-AAAATTAAAATAAC
1857247 AATAATT
1 AATAATT
1857254 AAACAATCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 10 0.32
28 2 0.06
29 15 0.48
30 4 0.13
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (29 bp):
AATAATTTTAAAAAGAAAATTAAAATAAC
Found at i:1857253 original size:15 final size:14
Alignment explanation
Indices: 1857205--1857256 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
1857195 TTTTAAGCAG
1857205 AAATTAAAATAACA
1 AAATTAAAATAACA
1857219 AAATTTTAAAA-AGA-A
1 AAA--TTAAAATA-ACA
1857234 AAATTAAAATAACA
1 AAATTAAAATAACA
1857248 ATAATTAAA
1 A-AATTAAA
1857257 CAATCGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 7 0.22
14 6 0.19
15 12 0.38
16 7 0.22
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (14 bp):
AAATTAAAATAACA
Found at i:1860355 original size:3 final size:3
Alignment explanation
Indices: 1860284--1860339 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
1860274 CACCTTACAG
1860284 TAT TAT TAT TAT TAT TAT TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1860330 TAT TAT TAT T
1 TAT TAT TAT T
1860340 TTAAAAAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1864400 original size:19 final size:20
Alignment explanation
Indices: 1864378--1864422 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1864368 CCTTTCCGTT
1864378 TTTTTTGTAT-TTATTATAC
1 TTTTTTGTATCTTATTATAC
*
1864397 TTTTTAGTATCTTATTATAC
1 TTTTTTGTATCTTATTATAC
1864417 TTTTTT
1 TTTTTT
1864423 ATATAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTTGTATCTTATTATAC
Found at i:1864400 original size:20 final size:21
Alignment explanation
Indices: 1864377--1864423 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
1864367 TCCTTTCCGT
*
1864377 TTTTTTTGTAT-TTATTATAC
1 TTTTTTAGTATCTTATTATAC
1864397 -TTTTTAGTATCTTATTATAC
1 TTTTTTAGTATCTTATTATAC
1864417 TTTTTTA
1 TTTTTTA
1864424 TATAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTTTAGTATCTTATTATAC
Found at i:1864726 original size:26 final size:24
Alignment explanation
Indices: 1864695--1864763 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 24
1864685 TTATTTCATT
1864695 TTATTTTGTGATCTT-TTTATTTGTA
1 TTATTTT-TGAT-TTATTTATTTGTA
*
1864720 TTGATTTATTGATTTATTTATTTTTA
1 TT-ATTT-TTGATTTATTTATTTGTA
*
1864746 TTATTTTTTATTTCATTT
1 TTATTTTTGATTT-ATTT
1864764 TCTGTATCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
24 6 0.16
25 12 0.32
26 19 0.50
27 1 0.03
ACGTcount: A:0.19, C:0.03, G:0.07, T:0.71
Consensus pattern (24 bp):
TTATTTTTGATTTATTTATTTGTA
Found at i:1877070 original size:21 final size:21
Alignment explanation
Indices: 1877044--1877083 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1877034 CAGAACCCCA
*
1877044 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1877065 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1877084 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1884732 original size:21 final size:21
Alignment explanation
Indices: 1884707--1884746 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1884697 CTAAGTTGAA
* *
1884707 AAAAAAAGAAAAAGGAAAAGG
1 AAAAAAACAAAAAAGAAAAGG
1884728 AAAAAAACAAAAAAGAAAA
1 AAAAAAACAAAAAAGAAAA
1884747 ACGTTTATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAAAAGAAAAGG
Found at i:1884804 original size:7 final size:7
Alignment explanation
Indices: 1884787--1884833 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
1884777 CTAAATTGAA
1884787 AAAAAATG
1 AAAAAA-G
*
1884795 AAAAGAG
1 AAAAAAG
1884802 AAAAAAG
1 AAAAAAG
*
1884809 AGAAATAG
1 A-AAAAAG
1884817 -AAAAAG
1 AAAAAAG
1884823 AAAAAAG
1 AAAAAAG
1884830 AAAA
1 AAAA
1884834 GAAAAATAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 5 0.15
7 18 0.55
8 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:1884820 original size:14 final size:13
Alignment explanation
Indices: 1884788--1884839 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 13
1884778 TAAATTGAAA
*
1884788 AAAAATGAAAAGAG
1 AAAAA-GAAAAAAG
*
1884802 AAAAAAGAGAAATAG
1 -AAAAAGA-AAAAAG
1884817 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
1884830 -AAAAGAAAAA
1 AAAAAGAAAAA
1884840 TAAGGTGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 10 0.29
13 5 0.15
14 9 0.26
15 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:1884824 original size:21 final size:21
Alignment explanation
Indices: 1884790--1884838 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1884780 AATTGAAAAA
1884790 AAATGAAAAGAGAAAAAAGAG
1 AAATGAAAAGAGAAAAAAGAG
1884811 AAATAGAAAA-AGAAAAAAGA-
1 AAAT-GAAAAGAGAAAAAAGAG
1884831 AAA-GAAAA
1 AAATGAAAA
1884839 ATAAGGTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.19
20 3 0.11
21 14 0.52
22 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (21 bp):
AAATGAAAAGAGAAAAAAGAG
Found at i:1886145 original size:106 final size:103
Alignment explanation
Indices: 1885953--1886540 Score: 718
Period size: 106 Copynumber: 5.8 Consensus size: 103
1885943 GACGAAGGGG
*
1885953 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
**
1886018 TCAACTTCATGGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT--A-AAACAA
* *
1886059 CTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
* * *
1886124 TCAACTTCACAGAGAATGGGCGACTGACTGT----CAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTAAAACAA
* * * * *
1886158 CTTCCCAATTTTATAGCCAAATTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
*
1886223 TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT--A-AAACAA
* ** *
1886264 CTTCACAATTTCAGAAACAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
*
1886329 TCAACTTCACAGCGAATGGGCGGCTGACTGT----CAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTAAAACAA
* * * * *
1886363 CTTCTCAATTTCAGAGCCAATTTCAACTTCCCAGCGAAGGATATTAGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
* *
1886428 TCAACTTCAC-GACGAAGGGGCTGCTGATTGTTAATAA-AA
66 TCAACTTCACAG-CGAAGGGGCGGCTGACTG-TAA-AACAA
* * * * *
1886467 -TT-TC-A-TTCAGAGTCAATTTCGACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
1886528 TCAACTTCACAGC
66 TCAACTTCACAGC
1886541 CGACTGTCCA
Statistics
Matches: 426, Mismatches: 41, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
98 1 0.00
99 177 0.42
100 62 0.15
101 2 0.00
102 2 0.00
103 2 0.00
104 2 0.00
106 178 0.42
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (103 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
TCAACTTCACAGCGAAGGGGCGGCTGACTGTAAAACAA
Found at i:1886207 original size:205 final size:205
Alignment explanation
Indices: 1885953--1886539 Score: 880
Period size: 205 Copynumber: 2.9 Consensus size: 205
1885943 GACGAAGGGG
*
1885953 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
* * * *
1886018 TCAACTTCATGGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCCCAATTTTAGAGCCAATTTC
66 TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCACAATTTCAGAGACAATTTC
*
1886083 AACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGAGAATGGGCGAC
131 AACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGAGAATGGGCGAC
1886148 TGACTGTCAA
196 TGACTGTCAA
* * *
1886158 CTTCCCAATTTTATAGCCAAATTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
*
1886223 TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCACAATTTCAGAAACAATTTC
66 TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCACAATTTCAGAGACAATTTC
* * *
1886288 AACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGAATGGGCGGC
131 AACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGAGAATGGGCGAC
1886353 TGACTGTCAA
196 TGACTGTCAA
* * * * *
1886363 CTTCTCAATTTCAGAGCCAATTTCAACTTCCCAGCGAAGGATATTAGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
* * * * * * *
1886428 TCAACTTCACGACGAAGGGGCTGCTGATTGTTAA-TAA-AA-TT-TC-A-TTCAGAGTCAATTTC
66 TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCACAATTTCAGAGACAATTTC
* * *
1886487 GACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAG
131 AACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAG
1886540 CCGACTGTCC
Statistics
Matches: 349, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
199 62 0.18
200 1 0.00
201 1 0.00
202 2 0.01
203 2 0.01
204 2 0.01
205 279 0.80
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (205 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCACAATTTCAGAGACAATTTC
AACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGAGAATGGGCGAC
TGACTGTCAA
Found at i:1886212 original size:99 final size:99
Alignment explanation
Indices: 1885953--1886540 Score: 680
Period size: 99 Copynumber: 5.8 Consensus size: 99
1885943 GACGAAGGGG
*
1885953 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
**
1886018 TCAACTTCATGGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT-------CAA
* *
1886059 CTTCCCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
* * *
1886124 TCAACTTCACAGAGAATGGGCGACTGACTGTCAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAA
* * * * *
1886158 CTTCCCAATTTTATAGCCAAATTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
*
1886223 TCAACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT-------CAA
* ** *
1886264 CTTCACAATTTCAGAAACAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
*
1886329 TCAACTTCACAGCGAATGGGCGGCTGACTGTCAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAA
* * * * *
1886363 CTTCTCAATTTCAGAGCCAATTTCAACTTCCCAGCGAAGGATATTAGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
* * *
1886428 TCAACTTCAC-GACGAAGGGGCTGCTGATTGTTAA
66 TCAACTTCACAG-CGAAGGGGCGGCTGACTGTCAA
** * * * *
1886462 --T-AAAATTTCATTCAGAGTCAATTTCGACTTCACAACGAAGGATATTAGACTCGAGACAACAC
1 CTTCCCAA--T--TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACAC
1886524 AAGCTCAACTTCACAGC
62 AAGCTCAACTTCACAGC
1886541 CGACTGTCCA
Statistics
Matches: 425, Mismatches: 44, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
96 2 0.00
97 1 0.00
98 2 0.00
99 180 0.42
100 61 0.14
101 1 0.00
106 178 0.42
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (99 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGC
TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAA
Found at i:1888112 original size:19 final size:20
Alignment explanation
Indices: 1888084--1888127 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1888074 TCATTTCCAT
*
1888084 TTTTTTGTAT-TTATTATAC
1 TTTTTAGTATCTTATTATAC
1888103 TTTTTAGTATCTTATTATAC
1 TTTTTAGTATCTTATTATAC
1888123 TTTTT
1 TTTTT
1888128 TATATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTAGTATCTTATTATAC
Found at i:1889291 original size:52 final size:51
Alignment explanation
Indices: 1889234--1889359 Score: 189
Period size: 51 Copynumber: 2.5 Consensus size: 51
1889224 TATTTTTTTT
* * * *
1889234 AAATTATATCAAATGTTATATTTTAGATTCGTTTTGATCATATGTCTTTAAA
1 AAATTATACCAAATATTATATGTGA-ATTCGTTTTGATCATATGTCTTTAAA
*
1889286 AAATTATACCTAATATTATATGTGAATTCGTTTTGATCATATGTCTTTAAA
1 AAATTATACCAAATATTATATGTGAATTCGTTTTGATCATATGTCTTTAAA
*
1889337 AAATTATACCTAATATTATATGT
1 AAATTATACCAAATATTATATGT
1889360 AGGGATGGCA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 49 0.71
52 20 0.29
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (51 bp):
AAATTATACCAAATATTATATGTGAATTCGTTTTGATCATATGTCTTTAAA
Found at i:1889324 original size:51 final size:51
Alignment explanation
Indices: 1889260--1889359 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
1889250 TATATTTTAG
1889260 ATTCGTTTTGATCATATGTCTTTAAAAAATTATACCTAATATTATATGTGA
1 ATTCGTTTTGATCATATGTCTTTAAAAAATTATACCTAATATTATATGTGA
1889311 ATTCGTTTTGATCATATGTCTTTAAAAAATTATACCTAATATTATATGT
1 ATTCGTTTTGATCATATGTCTTTAAAAAATTATACCTAATATTATATGT
1889360 AGGGATGGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (51 bp):
ATTCGTTTTGATCATATGTCTTTAAAAAATTATACCTAATATTATATGTGA
Found at i:1889868 original size:13 final size:13
Alignment explanation
Indices: 1889850--1889876 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1889840 TTCTAACAAT
1889850 TGAAAAGATCAGA
1 TGAAAAGATCAGA
1889863 TGAAAAGATCAGA
1 TGAAAAGATCAGA
1889876 T
1 T
1889877 AAGTCTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.22, T:0.19
Consensus pattern (13 bp):
TGAAAAGATCAGA
Found at i:1890315 original size:15 final size:15
Alignment explanation
Indices: 1890295--1890327 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1890285 TTAGTTAGGT
*
1890295 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
1890310 GGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
1890325 GGG
1 GGG
1890328 TAATATCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.70, T:0.09
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:1896782 original size:21 final size:22
Alignment explanation
Indices: 1896740--1896786 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1896730 TTGCTTCTCC
* *
1896740 TTTTTCCTTGTATCTTTTTACA
1 TTTTTCCTTATATCTTTCTACA
*
1896762 TTTTTTCTTATATC-TTCTACA
1 TTTTTCCTTATATCTTTCTACA
1896783 TTTT
1 TTTT
1896787 AAATATTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTCCTTATATCTTTCTACA
Found at i:1899520 original size:21 final size:21
Alignment explanation
Indices: 1899492--1899540 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
1899482 AATTAAACTT
*
1899492 TAAT-TTTTATTGAATAAAAA
1 TAATATTTTATTAAATAAAAA
* *
1899512 TAATATTTTTTTAAATAAATA
1 TAATATTTTATTAAATAAAAA
*
1899533 TATTATTT
1 TAATATTT
1899541 CAGGTCGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TAATATTTTATTAAATAAAAA
Found at i:1900960 original size:143 final size:143
Alignment explanation
Indices: 1900777--1901055 Score: 513
Period size: 143 Copynumber: 2.0 Consensus size: 143
1900767 TATCTTATTT
1900777 TTATCTAAGTTGACATTTCAAGACCATCCTTAGTAATGCGTTATTTGTATTGAATTTTAATTACA
1 TTATCTAAGTTGACATTTCAAGACCATCCTTAGTAATGCGTTATTTGTATTGAATTTTAATTACA
* * *
1900842 TTTTAATGATATCTGCTGACACCATCATTACTTTCAAACATTGACTCCACGACATTATATTTCCA
66 TTTTAATGATATCTGCTGACACCATCATTAATTTCAAACACTGACTCCACGACATAATATTTCCA
*
1900907 GCACTAGTTCGAC
131 ACACTAGTTCGAC
*
1900920 TTATCTAAGTTGACATTTCAAGACCATCCTTAGTATTGCGTTATTTGTATTGAATTTTAATTACA
1 TTATCTAAGTTGACATTTCAAGACCATCCTTAGTAATGCGTTATTTGTATTGAATTTTAATTACA
1900985 TTTTAATGATATCTGCTGACACCATCATTAATTTCAAACACTGACTCCACGACATAATATTTCCA
66 TTTTAATGATATCTGCTGACACCATCATTAATTTCAAACACTGACTCCACGACATAATATTTCCA
1901050 ACACTA
131 ACACTA
1901056 ATTCAACGTC
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
143 131 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (143 bp):
TTATCTAAGTTGACATTTCAAGACCATCCTTAGTAATGCGTTATTTGTATTGAATTTTAATTACA
TTTTAATGATATCTGCTGACACCATCATTAATTTCAAACACTGACTCCACGACATAATATTTCCA
ACACTAGTTCGAC
Found at i:1904482 original size:4 final size:4
Alignment explanation
Indices: 1904473--1904506 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
1904463 ATAGAAAGAT
*
1904473 GGAG GGAG GGAG GGAG GGAG GAAG GGAG GGAG GG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GG
1904507 GAAGAGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:1910137 original size:25 final size:25
Alignment explanation
Indices: 1910109--1910169 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
1910099 AAAAGCTTTG
*
1910109 ATTTTATTTTTAATATTTAAATCAA
1 ATTTCATTTTTAATATTTAAATCAA
1910134 ATTTCATTTTTAATATTTAAATCAA
1 ATTTCATTTTTAATATTTAAATCAA
1910159 ATTTCATTTTT
1 ATTTCATTTTT
1910170 TAAATCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTCATTTTTAATATTTAAATCAA
Found at i:1917950 original size:27 final size:30
Alignment explanation
Indices: 1917912--1917982 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 30
1917902 TTCAAATTTT
*
1917912 CGAATTAATTCGGTTAA-CTGATC-G-AAC
1 CGAATTAGTTCGGTTAATCTGATCGGTAAC
* *
1917939 CGAATTAGTTCGGTTAATTTGATCGGTTAC
1 CGAATTAGTTCGGTTAATCTGATCGGTAAC
1917969 CGAATTAGTTCGGT
1 CGAATTAGTTCGGT
1917983 CGGTTAATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.42
28 5 0.13
29 1 0.03
30 16 0.42
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (30 bp):
CGAATTAGTTCGGTTAATCTGATCGGTAAC
Found at i:1918315 original size:183 final size:183
Alignment explanation
Indices: 1918066--1918454 Score: 640
Period size: 183 Copynumber: 2.1 Consensus size: 183
1918056 TTAAAATTTT
*
1918066 AAATATTAAATATATTATATATAACATATGCTCAGCCCAAACCATTTAAAACTCAATTAATAATT
1 AAATATTAAATATATTATATATAACATATGCTCAGCCCAAACCATTTAAAACCCAATTAATAATT
*
1918131 TAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAATTATATAAAATTTTTA
66 TAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTATA
*
1918195 TTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTATTT-AATTAAA
131 TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTATTTGAATTAAA
*
1918247 AAATATTAAATATATTATATATAACATATGGGCTCAGTCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATAT--GCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
1918312 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAAATTATATAAAATT
64 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT--AAAAAATTATATAAAATT
* *
1918377 TATATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTATA
127 TATATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTATTTGAATTAAA
*
1918434 AAATATTTAAAT-TTTTATATA
1 AAATA-TTAAATATATTATATA
1918455 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
181 29 0.15
183 76 0.39
186 63 0.33
187 19 0.10
188 6 0.03
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGCTCAGCCCAAACCATTTAAAACCCAATTAATAATT
TAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTATA
TTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTATTTGAATTAAA
Found at i:1919168 original size:16 final size:16
Alignment explanation
Indices: 1919147--1919181 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1919137 ATTCATCCTT
1919147 CCTCACATTTGCAAAC
1 CCTCACATTTGCAAAC
1919163 CCTCACATTTGCAAAC
1 CCTCACATTTGCAAAC
1919179 CCT
1 CCT
1919182 ATCCACCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.26
Consensus pattern (16 bp):
CCTCACATTTGCAAAC
Found at i:1919725 original size:18 final size:18
Alignment explanation
Indices: 1919704--1919740 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1919694 AAAAAAAAGT
*
1919704 AAATTGATAAAATTTAAG
1 AAATAGATAAAATTTAAG
*
1919722 AAATAGATAGAATTTAAG
1 AAATAGATAAAATTTAAG
1919740 A
1 A
1919741 TTAAGTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.30
Consensus pattern (18 bp):
AAATAGATAAAATTTAAG
Found at i:1921145 original size:22 final size:22
Alignment explanation
Indices: 1921115--1921166 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1921105 TAAATGTCTA
*
1921115 GAAGGACCAGTCCATAGATTCC
1 GAAGAACCAGTCCATAGATTCC
1921137 GAAGAACCAGTCCATAGATTCC
1 GAAGAACCAGTCCATAGATTCC
1921159 GAAGAACC
1 GAAGAACC
1921167 TAGGTAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (22 bp):
GAAGAACCAGTCCATAGATTCC
Found at i:1921182 original size:31 final size:31
Alignment explanation
Indices: 1921144--1921299 Score: 206
Period size: 31 Copynumber: 5.0 Consensus size: 31
1921134 TCCGAAGAAC
* * *
1921144 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
1921175 CAGTCCATATGTCCCGATGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
1921206 CAATCTATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
1921237 CAATCTATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1921268 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1921299 C
1 C
1921300 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1928819 original size:3 final size:3
Alignment explanation
Indices: 1928811--1928835 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1928801 GCCATCTTTC
1928811 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1928836 GTAGTAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1929455 original size:19 final size:21
Alignment explanation
Indices: 1929421--1929461 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1929411 CTATAAACTT
1929421 TTGATAAAAATTAAGA-TAAA
1 TTGATAAAAATTAAGATTAAA
*
1929441 TTGAT-AAATTTAAGATTAAA
1 TTGATAAAAATTAAGATTAAA
1929461 T
1 T
1929462 CATATATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
TTGATAAAAATTAAGATTAAA
Found at i:1938324 original size:39 final size:39
Alignment explanation
Indices: 1938280--1938354 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1938270 GGTCTAGAAT
*
1938280 TTACAATAAAAAATGTTAT-AATAAAAGTAACATTTTCGA
1 TTACAATAAAAAATATTATAAAT-AAAGTAACATTTTCGA
* * *
1938319 TTACAATCAAAATTATTATAAATAATGTAACATTTT
1 TTACAATAAAAAATATTATAAATAAAGTAACATTTT
1938355 AATTGTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 28 0.90
40 3 0.10
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (39 bp):
TTACAATAAAAAATATTATAAATAAAGTAACATTTTCGA
Found at i:1946955 original size:33 final size:33
Alignment explanation
Indices: 1946918--1946994 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
1946908 TTATATATTT
* *
1946918 TTGAATTTTTTTTGAC-TTTATATTCTTTTTGTA
1 TTGAATTTTTATTCACTTTTA-ATTCTTTTTGTA
*
1946951 TTGAA-TTTTATTCACTTTTAATTCTTTTTTTA
1 TTGAATTTTTATTCACTTTTAATTCTTTTTGTA
*
1946983 TTGCATTTTTAT
1 TTGAATTTTTAT
1946995 ACTTTAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 23 0.61
33 15 0.39
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.66
Consensus pattern (33 bp):
TTGAATTTTTATTCACTTTTAATTCTTTTTGTA
Found at i:1946999 original size:22 final size:22
Alignment explanation
Indices: 1946956--1946999 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1946946 TTGTATTGAA
*
1946956 TTTTATTCACTTTTAATTCTTT
1 TTTTATTCACTTTTAATACTTT
*
1946978 TTTTATTGCA-TTTTTATACTTT
1 TTTTATT-CACTTTTAATACTTT
1947000 AAATTACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTATTCACTTTTAATACTTT
Found at i:1947069 original size:21 final size:21
Alignment explanation
Indices: 1947044--1947100 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
1947034 CACTTTTTAA
1947044 AAAAATCAATAAAAA-TGTAAT
1 AAAAATCAATAAAAAGTG-AAT
** *
1947065 AAAAAAGAATTAAAAGTGAAT
1 AAAAATCAATAAAAAGTGAAT
* *
1947086 AAAATTTAATAAAAA
1 AAAAATCAATAAAAA
1947101 CGTCAACTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAATCAATAAAAAGTGAAT
Found at i:1947088 original size:10 final size:10
Alignment explanation
Indices: 1947044--1947100 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
1947034 CACTTTTTAA
*
1947044 AAAAATCAAT
1 AAAAATGAAT
1947054 AAAAATGTAAT
1 AAAAATG-AAT
*
1947065 AAAAAAGAATT
1 AAAAATGAA-T
*
1947076 AAAAGTGAAT
1 AAAAATGAAT
* *
1947086 AAAATTTAAT
1 AAAAATGAAT
1947096 AAAAA
1 AAAAA
1947101 CGTCAACTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:1947157 original size:20 final size:20
Alignment explanation
Indices: 1947134--1947172 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1947124 TGTGTGATAT
*
1947134 TATTTTTTAACTATTAATAA
1 TATTTATTAACTATTAATAA
* *
1947154 TATTTATTGACTTTTAATA
1 TATTTATTAACTATTAATA
1947173 TTAGTTGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTTATTAACTATTAATAA
Found at i:1948861 original size:14 final size:13
Alignment explanation
Indices: 1948843--1948892 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
1948833 AGGATGGATG
*
1948843 TAAAATTTTATAT
1 TAAAAATTTATAT
* *
1948856 TAAAAATATAAATT
1 TAAAAATTTATA-T
*
1948870 TAAAAAATTATAT
1 TAAAAATTTATAT
1948883 TAAAAATTTA
1 TAAAAATTTA
1948893 AGAGATTCGA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAAAATTTATAT
Found at i:1951366 original size:2 final size:2
Alignment explanation
Indices: 1951359--1951387 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1951349 GAAGGTTCAC
1951359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1951388 ATTAGTCTAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1959065 original size:103 final size:103
Alignment explanation
Indices: 1958840--1959057 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
1958830 GTCGAGGGTC
*
1958840 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1958905 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
1958943 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTTTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1959008 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1959046 TATGTGGTCCTT
1 TATGTGGTCCTT
1959058 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1959124 original size:23 final size:23
Alignment explanation
Indices: 1959098--1959141 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1959088 ATTCTACGCG
1959098 GCACTCCAGTGCAATTATATGTA
1 GCACTCCAGTGCAATTATATGTA
* *
1959121 GCACTTCGGTGCAATTATATG
1 GCACTCCAGTGCAATTATATG
1959142 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (23 bp):
GCACTCCAGTGCAATTATATGTA
Found at i:1964883 original size:103 final size:103
Alignment explanation
Indices: 1964658--1964875 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
1964648 GTCGAGGGTC
1964658 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1964723 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1964761 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1964826 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1964864 TATGTGGTCCTT
1 TATGTGGTCCTT
1964876 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1965277 original size:4 final size:4
Alignment explanation
Indices: 1965270--1965300 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1965260 TAATGACATA
1965270 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
1965301 ATATATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:1966219 original size:80 final size:81
Alignment explanation
Indices: 1966123--1966331 Score: 273
Period size: 80 Copynumber: 2.6 Consensus size: 81
1966113 AGTTTCCAAT
1966123 TTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAA-TCTGCAACACAAAAGTCAAATTCG
1 TTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAATTC-GCAACACAAAAGTCAAATTCG
** *
1966187 CAATGC-GAATTTGTAAA
65 CAACACTGAATTT-CAAA
* * **
1966204 -TCGCAACA-AAGAAGTCAAATTCACAACGCGATAGCCAAATTCGCAACGTAAAAGTCAAATTCG
1 TTCGCAACACAA-AAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCG
1966267 CAACACTGAATTTCAAA
65 CAACACTGAATTTCAAA
* * *
1966284 TTCGCAACATAAAAGTCAAATTCGCAACGCGAAACTCAAATTCGCAAC
1 TTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAAC
1966332 GCGAAATACA
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.02
80 60 0.54
81 48 0.43
82 2 0.02
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.20
Consensus pattern (81 bp):
TTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGC
AACACTGAATTTCAAA
Done.