Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_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: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 18
Found at i:1623529 original size:52 final size:52
Alignment explanation
Indices: 1623401--1623560 Score: 145
Period size: 50 Copynumber: 3.0 Consensus size: 52
1623391 TAAAAAAAGA
* *
1623401 ATAATATATATATATATTAGAATATTAATAA-A-AAAACAAATAAATAAATATAAT
1 ATAATATATATA-ATA-TA-AATAATAATAATATAATA-AAATAAATAAATATAAT
* *
1623455 AT-ATATA-ATAATAT-AATAAATAATAATATAATAAAATATATATATATAAT
1 ATAATATATATAATATAAAT-AATAATAATATAATAAAATAAATAAATATAAT
1623505 ATAATATATATAATATAAATAATAA-ATATATAAATAAAAACTAAAT-AATAATAAT
1 ATAATATATATAATATAAATAATAATA-ATAT-AAT-AAAA-TAAATAAAT-ATAAT
1623560 A
1 A
1623561 ATGACAAGTA
Statistics
Matches: 89, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
48 3 0.03
49 7 0.08
50 19 0.21
51 12 0.13
52 19 0.21
53 11 0.12
54 8 0.09
55 10 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (52 bp):
ATAATATATATAATATAAATAATAATAATATAATAAAATAAATAAATATAAT
Found at i:1623614 original size:15 final size:15
Alignment explanation
Indices: 1623438--1623613 Score: 71
Period size: 15 Copynumber: 11.2 Consensus size: 15
1623428 ATAAAAAAAC
1623438 AAATAAATAAATATAA
1 AAATAAAT-AATATAA
*
1623454 TATATATAATAATATAA
1 -AAATA-AATAATATAA
1623471 TAAAT-AATAATATAATA
1 -AAATAAATAATAT-A-A
*
1623488 AAATATATATATATAA
1 AAATAAATA-ATATAA
1623504 TATAATATATATAATATAA
1 -A-AATA-A-ATAATATAA
1623523 ATAATAAAT-ATATAA
1 A-AATAAATAATATAA
1623538 ATAA-AAACTAA-ATAA
1 A-AATAAA-TAATATAA
* * *
1623553 TAAT-AATAAT-GAC
1 AAATAAATAATATAA
* * *
1623566 AAGTAAA-AAGCAGAA
1 AAATAAATAA-TATAA
*
1623581 AGAAAAAATAATATAA
1 A-AATAAATAATATAA
1623597 AAATAAATAA-ATAA
1 AAATAAATAATATAA
1623611 AAA
1 AAA
1623614 AAGAATACAA
Statistics
Matches: 125, Mismatches: 16, Indels: 39
0.69 0.09 0.22
Matches are distributed among these distances:
13 8 0.06
14 16 0.13
15 34 0.27
16 17 0.14
17 24 0.19
18 17 0.14
19 6 0.05
20 3 0.02
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (15 bp):
AAATAAATAATATAA
Found at i:1623620 original size:15 final size:15
Alignment explanation
Indices: 1623583--1623620 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1623573 AAGCAGAAAG
1623583 AAAAAATAATATAAA
1 AAAAAATAATATAAA
*
1623598 AATAAATAA-ATAAA
1 AAAAAATAATATAAA
1623612 AAAAGAATA
1 AAAA-AATA
1623621 CAATTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAAATAATATAAA
Found at i:1626457 original size:55 final size:55
Alignment explanation
Indices: 1626406--1626520 Score: 185
Period size: 55 Copynumber: 2.1 Consensus size: 55
1626396 TTTCTTTGTT
*
1626406 TTTCTATTTAGGACGCCCTTTCGGGTTTTCACCCTAAACGTTTTTTCTCTTTTCC
1 TTTCTATTTAGGACACCCTTTCGGGTTTTCACCCTAAACGTTTTTTCTCTTTTCC
* * * *
1626461 TTTCTATTTAGGGCACCCTTTCGGGTTTTCACCCTAAATGTTTTTTCTTTTTTCT
1 TTTCTATTTAGGACACCCTTTCGGGTTTTCACCCTAAACGTTTTTTCTCTTTTCC
1626516 TTTCT
1 TTTCT
1626521 TTTTCTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.51
Consensus pattern (55 bp):
TTTCTATTTAGGACACCCTTTCGGGTTTTCACCCTAAACGTTTTTTCTCTTTTCC
Found at i:1636764 original size:9 final size:9
Alignment explanation
Indices: 1636750--1637097 Score: 100
Period size: 9 Copynumber: 37.4 Consensus size: 9
1636740 AAATGTAATA
1636750 AAAATAAAG
1 AAAATAAAG
1636759 AAAATAAA-
1 AAAATAAAG
1636767 ATAAA-AAA-
1 A-AAATAAAG
* *
1636775 CAAATAAAAT
1 AAAAT-AAAG
1636785 AAAATAAAG
1 AAAATAAAG
*
1636794 AAGAT-AAG
1 AAAATAAAG
1636802 ATAATATAAAG
1 A-AA-ATAAAG
* *
1636813 AAAGTAAAA
1 AAAATAAAG
1636822 AAAGATAAAG
1 AAA-ATAAAG
1636832 AAAAATAAA-
1 -AAAATAAAG
1636841 AAAGATAAAG
1 AAA-ATAAAG
* *
1636851 TAAAGAAAAAA
1 -AAA-ATAAAG
*
1636862 AAAAGAAA-
1 AAAATAAAG
1636870 AAAATTAAAG
1 AAAA-TAAAG
*
1636880 AAAA-AAGAT
1 AAAATAA-AG
1636889 AAAATAAAG
1 AAAATAAAG
1636898 -AAATAAAG
1 AAAATAAAG
* *
1636906 AAATAAAAAT
1 AAA-ATAAAG
1636916 AAAATAAAG
1 AAAATAAAG
*
1636925 ATAA-AAA-
1 AAAATAAAG
*
1636932 ATAATAAAG
1 AAAATAAAG
*
1636941 ATAATAATAG
1 AAAATAA-AG
*
1636951 TAAAGATAATAT
1 -AAA-ATAA-AG
*
1636963 ATATAATATA-
1 A-A-AATAAAG
* *
1636973 TAAATAAAT
1 AAAATAAAG
*
1636982 AAAA-ATAG
1 AAAATAAAG
* *
1636990 -GAAGAAA-
1 AAAATAAAG
*
1636997 AAAATAAAA
1 AAAATAAAG
1637006 ATAAATAAA-
1 A-AAATAAAG
*
1637015 TAAATAAAG
1 AAAATAAAG
1637024 AAAATATAAAG
1 -AAA-ATAAAG
1637035 AAAATAAA-
1 AAAATAAAG
*
1637043 AATGAATGAAAT
1 AA--AAT-AAAG
1637055 AAAGATAAAG
1 AAA-ATAAAG
1637065 AAAATAAA-
1 AAAATAAAG
*
1637073 AATAATAAAA
1 AA-AATAAAG
1637083 ATAAGATAAAG
1 A-AA-ATAAAG
1637094 AAAA
1 AAAA
1637098 AATAAAAAAG
Statistics
Matches: 261, Mismatches: 36, Indels: 84
0.69 0.09 0.22
Matches are distributed among these distances:
7 9 0.03
8 56 0.21
9 85 0.33
10 61 0.23
11 37 0.14
12 12 0.05
13 1 0.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (9 bp):
AAAATAAAG
Found at i:1636772 original size:19 final size:19
Alignment explanation
Indices: 1636750--1637073 Score: 137
Period size: 19 Copynumber: 16.9 Consensus size: 19
1636740 AAATGTAATA
1636750 AAAATAAAGAAAATAAAAT
1 AAAATAAAGAAAATAAAAT
*
1636769 -AAA-AAA-CAAATAAAAT
1 AAAATAAAGAAAATAAAAT
* *
1636785 AAAATAAAGAAGATAAGAT
1 AAAATAAAGAAAATAAAAT
* *
1636804 AATATAAAGAAAGTAAAA-
1 AAAATAAAGAAAATAAAAT
1636822 AAAGATAAAGAAAAATAAAA-
1 AAA-ATAAAG-AAAATAAAAT
* * *
1636842 AAGATAAAGTAAA-GAAA-
1 AAAATAAAGAAAATAAAAT
*
1636859 AAAA-AAAGAAAA-AAATT
1 AAAATAAAGAAAATAAAAT
*
1636876 AAAGA-AAA-AAGATAAAAT
1 AAA-ATAAAGAAAATAAAAT
1636894 AAAGAAATAAAG-AAATAAAAAT
1 --A-AAATAAAGAAAAT-AAAAT
*
1636916 AAAATAAAGATAA-AAAAT
1 AAAATAAAGAAAATAAAAT
* *
1636934 --AATAAAGATAATAATAGT
1 AAAATAAAGAAAATAA-AAT
* * *
1636952 AAAGATAATA-TATATAATAT
1 AAA-ATAA-AGAAAATAAAAT
* *
1636972 ATAAATAAATAAAAATAGGAAGAAA
1 A-AAATAAA-GAAAAT---AA-AAT
*
1636997 AAAATAAAAATAAAT-AAAT
1 AAAATAAAGA-AAATAAAAT
*
1637016 -AAATAAAGAAAATATAAAG
1 AAAATAAAGAAAATA-AAAT
*
1637035 AAAATAAA-AATGAATGAAAT
1 AAAATAAAGAA--AATAAAAT
1637055 AAAGATAAAGAAAATAAAA
1 AAA-ATAAAGAAAATAAAA
1637074 ATAATAAAAA
Statistics
Matches: 232, Mismatches: 37, Indels: 71
0.68 0.11 0.21
Matches are distributed among these distances:
16 29 0.12
17 24 0.10
18 34 0.15
19 49 0.21
20 42 0.18
21 29 0.12
22 8 0.03
23 2 0.01
24 13 0.06
25 2 0.01
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (19 bp):
AAAATAAAGAAAATAAAAT
Found at i:1636835 original size:13 final size:12
Alignment explanation
Indices: 1636819--1637103 Score: 86
Period size: 13 Copynumber: 22.9 Consensus size: 12
1636809 AAAGAAAGTA
1636819 AAAAAAGATAAAG
1 AAAAAA-ATAAAG
*
1636832 AAAAATAAAAAAG
1 AAAAA-AATAAAG
* *
1636845 -ATAAAGTAAAG
1 AAAAAAATAAAG
1636856 AAAAAAA-AAAG
1 AAAAAAATAAAG
1636867 AAAAAAATTAAAG
1 AAAAAAA-TAAAG
1636880 AAAAAAGATAAA-
1 AAAAAA-ATAAAG
1636892 ATAAAGAAATAAAG
1 A-AAA-AAATAAAG
1636906 AAATAAAAATAAA-
1 -AA-AAAAATAAAG
* *
1636919 ATAAAGAT-AA-
1 AAAAAAATAAAG
*
1636929 AAAATAATAAAG
1 AAAAAAATAAAG
*
1636941 ATAATAATAGTAAAG
1 A-AA-AA-AATAAAG
* * *
1636956 ATAATATATATAAT
1 A-AAAAAATA-AAG
* * *
1636970 ATATAAATAAAT
1 AAAAAAATAAAG
* **
1636982 AAAAATAGGAAG
1 AAAAAAATAAAG
*
1636994 AAAAAAATAAAA
1 AAAAAAATAAAG
*
1637006 ATAAATAAATAAATA
1 A-AAA-AAATAAA-G
1637021 AAGAAAATATAAAG
1 AA-AAAA-ATAAAG
*
1637035 AAAATAAA-AATG
1 AAAA-AAATAAAG
**
1637047 AATGAAATAAAG
1 AAAAAAATAAAG
* * *
1637059 ATAAAGA-AAAT
1 AAAAAAATAAAG
1637070 AAAAATAATAAA-
1 AAAAA-AATAAAG
* *
1637082 AATAAGATAAAG
1 AAAAAAATAAAG
1637094 -AAAAAATAAA
1 AAAAAAATAAA
1637104 AAAGGAAATA
Statistics
Matches: 201, Mismatches: 45, Indels: 54
0.67 0.15 0.18
Matches are distributed among these distances:
10 7 0.03
11 46 0.23
12 44 0.22
13 51 0.25
14 31 0.15
15 22 0.11
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (12 bp):
AAAAAAATAAAG
Found at i:1637008 original size:30 final size:29
Alignment explanation
Indices: 1636978--1637105 Score: 88
Period size: 30 Copynumber: 4.3 Consensus size: 29
1636968 ATATATAAAT
1636978 AAATAAAAATAGGAAGAAA-AAAATAAAAA
1 AAATAAAAATA-GAAGAAATAAAATAAAAA
* *
1637007 TAAATAAATAAATA-AAG-AA-AATATAAAGA
1 -AAAT-AA-AAATAGAAGAAATAAAATAAAAA
*
1637036 AAATAAAAAT-GAATGAAATAAAGATAAAGA
1 AAATAAAAATAGAA-GAAATAAA-ATAAAAA
* *
1637066 AAATAAAAATA-ATAAAAATAAGATAAAGAAA
1 AAATAAAAATAGA-AGAAATAAAAT-AA-AAA
1637097 AAATAAAAA
1 AAATAAAAA
1637106 AGGAAATAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
26 6 0.07
27 3 0.04
28 6 0.07
29 14 0.17
30 33 0.41
31 14 0.17
32 5 0.06
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (29 bp):
AAATAAAAATAGAAGAAATAAAATAAAAA
Found at i:1637072 original size:39 final size:37
Alignment explanation
Indices: 1636751--1637092 Score: 151
Period size: 38 Copynumber: 9.0 Consensus size: 37
1636741 AATGTAATAA
*
1636751 AAATAAAGAAAATA-AAATAAAA-AACAAATAAA-ATA-
1 AAATAAAGAAAATATAAA-AAAATAA-AAATAAATAAAT
* * *
1636786 AAATAAAGAAGATA-AGATAATATAAAGAAAGTAAA-AAA-
1 AAATAAAGAAAATATA-AAAAAAT-AA-AAA-TAAATAAAT
* * *
1636824 AGATAAAGAAAA-ATAAAAAAGAT-AAAGTAAAGAAA-
1 AAATAAAGAAAATATAAAAAA-ATAAAAATAAATAAAT
* * * * *
1636859 AAAAAAAGAAAAAAATTAAAGAAA-AAAGATAAAATAAAG
1 AAATAAAG-AAAATA-TAAAAAAATAAAAAT-AAATAAAT
* *
1636898 AAATAAAG-AAATAAAAATAAAATAAAGATAAA-AAAT
1 AAATAAAGAAAATATAAA-AAAATAAAAATAAATAAAT
* *
1636934 -AATAAAGATAATAATAGTAAAGATAATATATATAATATATAAAT
1 AAATAAAG--AA-AATA-TAAA-A-AA-ATA-AAAATAAATAAAT
*
1636978 AAATAAA-AATAGGA-AGAAAAAAATAAAAATAAATAAAT
1 AAATAAAGAA-A--ATATAAAAAAATAAAAATAAATAAAT
*
1637016 AAATAAAGAAAATATAAAGAAAATAAAAATGAATGAAAT
1 AAATAAAGAAAATATAAA-AAAATAAAAATAAAT-AAAT
*
1637055 AAAGATAAAGAAAATA-AAAATAATAAAAATAAGATAAA
1 -AA-ATAAAGAAAATATAAAAAAATAAAAATAA-ATAAA
1637093 GAAAAAATAA
Statistics
Matches: 240, Mismatches: 33, Indels: 64
0.71 0.10 0.19
Matches are distributed among these distances:
34 4 0.02
35 35 0.15
36 13 0.05
37 28 0.12
38 71 0.30
39 34 0.14
40 13 0.05
41 15 0.06
42 10 0.04
43 6 0.03
44 5 0.02
45 6 0.03
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (37 bp):
AAATAAAGAAAATATAAAAAAATAAAAATAAATAAAT
Found at i:1637078 original size:118 final size:118
Alignment explanation
Indices: 1636890--1637110 Score: 259
Period size: 118 Copynumber: 1.9 Consensus size: 118
1636880 AAAAAAGATA
* * * *
1636890 AAATAAAGAAATAAAGAAATAAAAATAAAATAAAGATAAAAAATAATAAAGATAATAATAGTAAA
1 AAATAAAGAAATAAAGAAATAAAAAGAAAATAAAAATAAAAAATAATAAAGATAATAAAAATAAA
* * * * * *
1636955 GATAATATATATAATATATA-AATAAATAAAAATAGGAAGAAAAAAATAAAAAT
66 AATAATAAAAATAAGATAAAGAAAAAATAAAAA-AGGAAGAAAAAAATAAAAAT
* * * **
1637008 AAATAAATAAATAAAGAAAATATAAAGAAAATAAAAATGAATGA-AATAAAGATAA-AGAAAATA
1 AAATAAAGAAATAAAG-AAATAAAAAGAAAATAAAAATAAAAAATAATAAAGATAATA-AAAATA
1637071 AAAATAATAAAAATAAGATAAAGAAAAAATAAAAAAGGAA
64 AAAATAATAAAAATAAGATAAAGAAAAAATAAAAAAGGAA
1637111 ATAATAGTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
117 1 0.01
118 52 0.61
119 32 0.38
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.19
Consensus pattern (118 bp):
AAATAAAGAAATAAAGAAATAAAAAGAAAATAAAAATAAAAAATAATAAAGATAATAAAAATAAA
AATAATAAAAATAAGATAAAGAAAAAATAAAAAAGGAAGAAAAAAATAAAAAT
Found at i:1637097 original size:24 final size:22
Alignment explanation
Indices: 1636861--1637126 Score: 89
Period size: 24 Copynumber: 11.4 Consensus size: 22
1636851 TAAAGAAAAA
* *
1636861 AAAAAGAAAAAAATTAAAGAAA-
1 AAAAATAAAAAAA-TAAATAAAG
* *
1636883 AAAGATAAAATAAAGAAATAAAG
1 AAAAATAAAA-AAATAAATAAAG
1636906 AAATAA-AAATAAAATAAAGATAAA-
1 AAA-AATAAA-AAAAT-AA-ATAAAG
*
1636930 AAATAATAAAGATAATAATAGTAAAG
1 AAA-AATAAA-AAAATAA-A-TAAAG
* * *
1636956 ATAATATATATAATATATAAATAAAT
1 A-AA-A-ATA-AAAAAATAAATAAAG
** * *
1636982 AAAAATAGGAAGA-AAA-AAAT
1 AAAAATAAAAAAATAAATAAAG
*
1637002 AAAAATAAATAAATAAATAAAG
1 AAAAATAAAAAAATAAATAAAG
*
1637024 AAAATATAAAGAAAATAAA-AATG
1 AAAA-ATAAA-AAAATAAATAAAG
* * *
1637047 AATGAAAT--AAAGATAAAGAAAAT
1 AA--AAATAAAAAAATAAA-TAAAG
1637070 AAAAATAATAAAAATAAGATAAAG
1 AAAAATAA-AAAAATAA-ATAAAG
**
1637094 AAAAAATAAAAAAGGAAATAATAG
1 -AAAAATAAAAAAATAAATAA-AG
1637118 TAAAAATAA
1 -AAAAATAA
1637127 TATATATATA
Statistics
Matches: 185, Mismatches: 33, Indels: 50
0.69 0.12 0.19
Matches are distributed among these distances:
20 13 0.07
21 17 0.09
22 24 0.13
23 33 0.18
24 49 0.26
25 29 0.16
26 6 0.03
27 5 0.03
28 7 0.04
29 2 0.01
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (22 bp):
AAAAATAAAAAAATAAATAAAG
Found at i:1637173 original size:2 final size:2
Alignment explanation
Indices: 1637166--1637193 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1637156 AGGAATAATA
1637166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1637194 TAGAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1643723 original size:5 final size:5
Alignment explanation
Indices: 1643713--1643742 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1643703 TGTTATTTTA
*
1643713 AAATT AAATT AATTT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
1643743 TTCTCATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AAATT
Found at i:1643946 original size:15 final size:15
Alignment explanation
Indices: 1643926--1643978 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
1643916 TTATCTAATC
1643926 AATAATATACAAATA
1 AATAATATACAAATA
1643941 AATAATATTACAAATA
1 AATAATA-TACAAATA
*
1643957 AAAAAT-TA-AAA-A
1 AATAATATACAAATA
1643969 AATGAATATA
1 AAT-AATATA
1643979 TTCTTTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 3 0.09
13 6 0.18
14 4 0.12
15 7 0.21
16 13 0.39
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (15 bp):
AATAATATACAAATA
Found at i:1643954 original size:16 final size:16
Alignment explanation
Indices: 1643926--1643977 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
1643916 TTATCTAATC
1643926 AATAATA-TACAAATA
1 AATAATATTACAAATA
1643941 AATAATATTACAAATA
1 AATAATATTACAAATA
1643957 AA-AA-ATTA-AAA-A
1 AATAATATTACAAATA
1643969 AATGAATAT
1 AAT-AATAT
1643978 ATTCTTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.09
13 3 0.09
14 6 0.18
15 11 0.33
16 10 0.30
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAATATTACAAATA
Found at i:1657843 original size:40 final size:42
Alignment explanation
Indices: 1657711--1657845 Score: 157
Period size: 42 Copynumber: 3.3 Consensus size: 42
1657701 TTCACTTCAA
* ** * *
1657711 TAGTGATAAAAATTATTGTCGTCACAAATCACCAACCAAGAC
1 TAGTGACAAAAACAATTATCGTCACAAATCACCAACTAAGAC
* * * *
1657753 TAGTGACAAAAACAATTATCATTACAAATCACCAATTAATAC
1 TAGTGACAAAAACAATTATCGTCACAAATCACCAACTAAGAC
*
1657795 TAGCGACAAAAACAA-T-TCGTCACAAATCACCAACTAAGAC
1 TAGTGACAAAAACAATTATCGTCACAAATCACCAACTAAGAC
*
1657835 TGGTGACAAAA
1 TAGTGACAAAA
1657846 TATTTTCATC
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 29 0.38
41 1 0.01
42 47 0.61
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.21
Consensus pattern (42 bp):
TAGTGACAAAAACAATTATCGTCACAAATCACCAACTAAGAC
Found at i:1657858 original size:40 final size:39
Alignment explanation
Indices: 1657732--1657859 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
1657722 ATTATTGTCG
* *
1657732 TCACAAATCACCAACCAAGACTAGTGACAAAAACAATTATCA
1 TCACAAATCACCAACTAAGACTAGTGAC--AAA-AATTTTCA
* * * * ** *
1657774 TTACAAATCACCAATTAATACTAGCGACAAAAACAATTCG
1 TCACAAATCACCAACTAAGACTAGTGACAAAAA-TTTTCA
*
1657814 TCACAAATCACCAACTAAGACTGGTGACAAAATATTTTCA
1 TCACAAATCACCAACTAAGACTAGTGACAAAA-ATTTTCA
1657854 TCACAA
1 TCACAA
1657860 TTATGAATAA
Statistics
Matches: 67, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
39 2 0.03
40 41 0.61
41 1 0.01
42 23 0.34
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (39 bp):
TCACAAATCACCAACTAAGACTAGTGACAAAAATTTTCA
Found at i:1659809 original size:21 final size:21
Alignment explanation
Indices: 1659783--1659831 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1659773 GTCGAGGGTT
* *
1659783 TTATGTGGTCTTTCGGGATAA
1 TTATGTGGTCCTTCGGGACAA
1659804 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
*
1659825 ATATGTG
1 TTATGTG
1659832 ACACTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:1660353 original size:21 final size:21
Alignment explanation
Indices: 1660335--1660390 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1660325 CCTATATTTT
1660335 GGTATTTATGTAAATTATTAA
1 GGTATTTATGTAAATTATTAA
*
1660356 GTTATTTATGTAAATTATTAA
1 GGTATTTATGTAAATTATTAA
*
1660377 GGTTTTTATGTAAA
1 GGTATTTATGTAAA
1660391 AATGGTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (21 bp):
GGTATTTATGTAAATTATTAA
Found at i:1666819 original size:23 final size:23
Alignment explanation
Indices: 1666796--1666883 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 23
1666786 TATATATGGT
*
1666796 ACTACGGTGCATTTCTACGCGGT
1 ACTACGGTGCATTTCTACGCGGC
*
1666819 ACTAAGGTGCATTTCTACGCGGC
1 ACTACGGTGCATTTCTACGCGGC
* * * * *
1666842 ACTTCGGTACAATTCTATGTGGC
1 ACTACGGTGCATTTCTACGCGGC
* *
1666865 ACTTCGGTGCATTTATACG
1 ACTACGGTGCATTTCTACG
1666884 AGCTGTGGTG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
ACTACGGTGCATTTCTACGCGGC
Found at i:1668785 original size:23 final size:23
Alignment explanation
Indices: 1668730--1668785 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
1668720 TGGCACTATA
1668730 CATTTCTACGTGGCACTTCGGTG
1 CATTTCTACGTGGCACTTCGGTG
* * *
1668753 TAATTCTACGTGGTACTTCGGTG
1 CATTTCTACGTGGCACTTCGGTG
*
1668776 CATTTATACG
1 CATTTCTACG
1668786 AGCTGTGGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (23 bp):
CATTTCTACGTGGCACTTCGGTG
Found at i:1679556 original size:19 final size:19
Alignment explanation
Indices: 1679534--1679578 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1679524 TTAGTGATAC
1679534 CCAGTTCGGTCTGACTGGA
1 CCAGTTCGGTCTGACTGGA
* *
1679553 CCAGTTTGGTCTGATTGGA
1 CCAGTTCGGTCTGACTGGA
1679572 CCAGTTC
1 CCAGTTC
1679579 CAGAAGACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (19 bp):
CCAGTTCGGTCTGACTGGA
Found at i:1680846 original size:282 final size:284
Alignment explanation
Indices: 1680340--1680907 Score: 1081
Period size: 282 Copynumber: 2.0 Consensus size: 284
1680330 ACCTACAAGT
1680340 TCTGAAAACTTGCAATTTGGTCCCAAATTTCATTAAATTGATTCTTTTAAATTTTAATTTATTAA
1 TCTGAAAACTTGCAATTTGGTCCCAAATTTCATTAAATTGATTCTTTTAAATTTTAATTTATTAA
1680405 TTTATTATTATTAAAAAAAATATGGGTTTTTGACAGTTTAGGTCATCATGGAGATATCCCTTTCA
66 TTTATTATTATT-AAAAAAATATGGGTTTTTGACAGTTTAGGTCATCATGGAGATATCCCTTTCA
1680470 TTTCGGTTTGCTTCAGTCATAATATAATAACTATAAGTCTTGAAATTGTTTAAAATTATTTATGT
130 TTTCGGTTTGCTTCAGTCATAATATAATAACTATAAGTCTTGAAATTGTTTAAAATTATTTATGT
1680535 CTCATCCCAATAGATCAATTCATAGTTTATCCTAA-TTTTTTTATTTAAATATCAATATTAAATA
195 CTCATCCCAATAGATCAATTCATAGTTTATCCTAATTTTTTTTATTTAAATATCAATATT-AATA
1680599 TTTTT-TAATAAAACTTTTTTTTGAA
259 TTTTTGTAATAAAACTTTTTTTTGAA
1680624 TCTGAAAACTTGCAATTTGGTCCCAAATTTCATTAAATTGATTCTTTTAAATTTTAATTTATTAA
1 TCTGAAAACTTGCAATTTGGTCCCAAATTTCATTAAATTGATTCTTTTAAATTTTAATTTATTAA
1680689 TTTATTATTATT-AAAAAATATGGGTTTTTGACAGTTTAGGTCATCATGGAGATATCCCTTTCAT
66 TTTATTATTATTAAAAAAATATGGGTTTTTGACAGTTTAGGTCATCATGGAGATATCCCTTTCAT
1680753 TTCGGTTTGCTTCAGTCATAATATAATAACTATAAGTCTTGAAATTGTTT-AAATTATTTAATGT
131 TTCGGTTTGCTTCAGTCATAATATAATAACTATAAGTCTTGAAATTGTTTAAAATTATTT-ATGT
1680817 CTCATCCCAATAGATCAATTCATAGTTTATCCTAATTTTTTTTATTTAAATATCAATATTAATAT
195 CTCATCCCAATAGATCAATTCATAGTTTATCCTAATTTTTTTTATTTAAATATCAATATTAATAT
1680882 TTTTGTAATAAAACTTTTTTTTGAA
260 TTTTGTAATAAAACTTTTTTTTGAA
1680907 T
1 T
1680908 TAAAAAGGAA
Statistics
Matches: 281, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
281 9 0.03
282 150 0.53
283 45 0.16
284 77 0.27
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.46
Consensus pattern (284 bp):
TCTGAAAACTTGCAATTTGGTCCCAAATTTCATTAAATTGATTCTTTTAAATTTTAATTTATTAA
TTTATTATTATTAAAAAAATATGGGTTTTTGACAGTTTAGGTCATCATGGAGATATCCCTTTCAT
TTCGGTTTGCTTCAGTCATAATATAATAACTATAAGTCTTGAAATTGTTTAAAATTATTTATGTC
TCATCCCAATAGATCAATTCATAGTTTATCCTAATTTTTTTTATTTAAATATCAATATTAATATT
TTTGTAATAAAACTTTTTTTTGAA
Found at i:1683139 original size:34 final size:36
Alignment explanation
Indices: 1683078--1683149 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 36
1683068 TATCATTACG
*
1683078 AATGAATTTATACTTATTAGTCATCCAC-ATAAAGA
1 AATGAATTTATACTTATCAGTCATCCACTATAAAGA
1683113 AATGAATTTATACTT-TCAGTCATCCACTTATAAAGA
1 AATGAATTTATACTTATCAGTCATCCAC-TATAAAGA
1683149 A
1 A
1683150 GTAGCACGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 11 0.32
35 15 0.44
36 8 0.24
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (36 bp):
AATGAATTTATACTTATCAGTCATCCACTATAAAGA
Found at i:1683812 original size:19 final size:19
Alignment explanation
Indices: 1683785--1683846 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
1683775 ATTTTTTAAC
*
1683785 AATTATTATTTATTAATTT
1 AATTTTTATTTATTAATTT
*
1683804 AATTTTTA-TT-TTATACTT
1 AATTTTTATTTATTA-ATTT
*
1683822 AATTATTTAATTTATTTATTT
1 AATT-TTT-ATTTATTAATTT
1683843 AATT
1 AATT
1683847 ACTGATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 10 0.29
20 1 0.03
21 9 0.26
22 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
AATTTTTATTTATTAATTT
Found at i:1685969 original size:2 final size:2
Alignment explanation
Indices: 1685962--1686013 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
1685952 AAATAAAAAC
1685962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1686003 AT AT AT AT AT A
1 AT AT AT AT AT A
1686014 CAGGATTAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1687935 original size:54 final size:55
Alignment explanation
Indices: 1687651--1688014 Score: 438
Period size: 55 Copynumber: 6.7 Consensus size: 55
1687641 TTCAACCAGT
* * * **
1687651 GGTTCGCTCCCTCTTGC-TTCAGAGAG--TAGAACTCGAACAATCTTCTGCTTACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAA-TATCTTCTGCAAACG
* *
1687704 GGTTCGCTCCCTCTTTTTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAACA
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAACG
* * * *
1687759 GGTTCGCTCCCTCTTTCTTT-AGGTAGTATGGAACTCGAACAATCTTCTGAAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAA-TATCTTCTGCAAACG
* *
1687814 GGTTCGCTCCCTATTTCTTT-AGGGAGTATAGAACTCGAATAATCTTTTGCAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAAT-ATCTTCTGCAAACG
*
1687869 GGTTCACTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATAT-TTCTGCAAACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAACG
* * * * * **
1687923 GGTTCACTCCCTCTTTCTTTCA-GGAGTACATAACTCGAATATATTCTTCCTACG
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAACG
* *
1687977 GGTTCACTCCCTCTTTCTTT-AGGGAGTATGGAACTCGA
1 GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGA
1688015 TCAATCTTCA
Statistics
Matches: 273, Mismatches: 30, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
53 34 0.12
54 98 0.36
55 110 0.40
56 31 0.11
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (55 bp):
GGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAACG
Found at i:1688049 original size:218 final size:217
Alignment explanation
Indices: 1687651--1688061 Score: 524
Period size: 218 Copynumber: 1.9 Consensus size: 217
1687641 TTCAACCAGT
* ** *
1687651 GGTTCGCTCCCTCTTGCTTCAGAGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTCGCTCCCT
1 GGTTCACTCCCTCTTGCTTCAGAGAGTAGAACTCGAACAATCTTCTGCAAACGGGTTCACTCCCT
* * * *
1687716 CTTTTTTTCAGGGAGTATAGAACTCGAATATCTTCTGCAAACAGGTTCGCTCCCTCTTTCTTTAG
66 CTTTCTTTCAGGGAGTACAGAACTCGAATATATTCTGCAAACAGGTTCACTCCCTCTTTCTTTAG
* * *
1687781 GTAGTATGGAACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTATTTCTTTAGGGAGTATAGA
131 GGAGTATGGAACTCGAACAATCTTC-GAAAACGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGA
1687846 ACTCGAATAATCTTTTGCAAACG
195 ACTCGAATAATCTTTTGCAAACG
* * *
1687869 GGTTCACTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAA-TAT-TTCTGCAAACGGGTTCACTC
1 GGTTCACTCCCTCTTGC-TTCAGAGAG--TAGAACTCGAACAATCTTCTGCAAACGGGTTCACTC
* * ** *
1687932 CCTCTTTCTTTCA-GGAGTACATAACTCGAATATATTCTTCCTACGGGTTCACTCCCTCTTTCTT
63 CCTCTTTCTTTCAGGGAGTACAGAACTCGAATATATTCTGCAAACAGGTTCACTCCCTCTTTCTT
* * * * *
1687996 TAGGGAGTATGGAACTCGATCAATCTTC-AATAATTGTGTTTGCTCCTTATTTCTTCAGAGAGTA
128 TAGGGAGTATGGAACTCGAACAATCTTCGAA-AA-CGGGTTCGCTCCCTATTTCTTCAGAGAGTA
1688060 TA
191 TA
1688062 AGACTCAAAC
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
216 2 0.01
217 2 0.01
218 110 0.67
219 37 0.23
220 2 0.01
221 11 0.07
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (217 bp):
GGTTCACTCCCTCTTGCTTCAGAGAGTAGAACTCGAACAATCTTCTGCAAACGGGTTCACTCCCT
CTTTCTTTCAGGGAGTACAGAACTCGAATATATTCTGCAAACAGGTTCACTCCCTCTTTCTTTAG
GGAGTATGGAACTCGAACAATCTTCGAAAACGGGTTCGCTCCCTATTTCTTCAGAGAGTATAGAA
CTCGAATAATCTTTTGCAAACG
Found at i:1688059 original size:55 final size:55
Alignment explanation
Indices: 1688016--1688351 Score: 453
Period size: 55 Copynumber: 6.1 Consensus size: 55
1688006 GGAACTCGAT
* ** * *
1688016 CAATCTTCAATAATTGTGTTTGCTCCTTATTTCTTCAGAGAGTATAAGACTCAAA
1 CAATCTTCAACAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAA
* * *
1688071 CAATCTTCAACAATCATGTATGCT-CCTATTCCTTCAGAGAGTATAAGACTCGAA
1 CAATCTTCAACAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAA
* * * * *
1688125 TAATCTTCAGCAATCGTGTCTGCCCCCTATTT-TTCAGAGAGTATAAGGCTCAAA
1 CAATCTTCAACAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAA
* *
1688179 CAATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAA
1 CAATCTTCAACAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAA
1688234 CAATCTTCAACAATCATGTCTGCTCCCTA-TTCTTTCAGAGAGTATAAGACTCAAA
1 CAATCTTCAACAATCATGTCTGCTCCCTATTTC-TTCAGAGAGTATAAGACTCAAA
** * * * *
1688289 CAATCTTCAACAATTGTGTCTGCCCCCTATCTCTTCAGAGAGTATAAGGCTCGAA
1 CAATCTTCAACAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAA
1688344 CAATCTTC
1 CAATCTTC
1688352 TTTTGCTTCA
Statistics
Matches: 247, Mismatches: 30, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
54 96 0.39
55 149 0.60
56 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (55 bp):
CAATCTTCAACAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAA
Found at i:1688124 original size:163 final size:162
Alignment explanation
Indices: 1688016--1688351 Score: 494
Period size: 163 Copynumber: 2.0 Consensus size: 162
1688006 GGAACTCGAT
** * *
1688016 CAATCTTCAATAATTGTGTTTGCTCCTTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAA
1 CAATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAA
*
1688081 CAATCATGTATGCT-CCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTCAGCAATCGTGTC
66 CAATCATGTATGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTCA-CAATCGGGTC
1688145 TGCCCCCTATTTTTCAGAGAGTATAAGGCTCAAA
130 TGCCCCCTATTTTTCAGAGAGTATAA-GCTCAAA
*
1688179 CAATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
1 CAATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAA
* * * * * *
1688244 CAATCATGTCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATTGTGTC
66 CAATCATGTATGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTC-ACAATCGGGTC
* *
1688309 TGCCCCCTATCTCTTCAGAGAGTATAAGGCTCGAA
130 TGCCCCCTAT-TTTTCAGAGAGTATAA-GCTCAAA
1688344 CAATCTTC
1 CAATCTTC
1688352 TTTTGCTTCA
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
163 73 0.46
164 54 0.34
165 31 0.20
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (162 bp):
CAATCTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAA
CAATCATGTATGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTTCACAATCGGGTCT
GCCCCCTATTTTTCAGAGAGTATAAGCTCAAA
Found at i:1688324 original size:110 final size:108
Alignment explanation
Indices: 1688009--1688351 Score: 481
Period size: 109 Copynumber: 3.1 Consensus size: 108
1687999 GGAGTATGGA
* * * * *
1688009 ACTCGATCAATCTTCAATAATTGTGTTTGCTCCTTATTTCTTCAGAGAGTATAAGACTCAAACAA
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT-TTCAGAGAGTATAAGACTCAAACAA
* *
1688074 TCTTCAACAATCATGTATG-CTCCTATTCCTTCAGAGAGTATAAG
65 TCTTCAACAATCATGTCTGCCCCCTATT-CTTCAGAGAGTATAAG
* * * *
1688118 ACTCGAATAATCTTCAGCAATCGTGTCTGCCCCCTATTTTTCAGAGAGTATAAGGCTCAAACAAT
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTTTCAGAGAGTATAAGACTCAAACAAT
* *
1688183 CTTCAATAATCATGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
66 CTTCAACAATCATGTCTGCCCCCTA-TTCTTCAGAGAGTATAAG
*
1688227 ACTCGAACAATCTTCAACAATCATGTCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCAAACAA
1 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT-TTTCAGAGAGTATAAGACTCAAACAA
**
1688292 TCTTCAACAATTGTGTCTGCCCCCTATCTCTTCAGAGAGTATAAG
65 TCTTCAACAATCATGTCTGCCCCCTAT-TCTTCAGAGAGTATAAG
*
1688337 GCTCGAACAATCTTC
1 ACTCGAACAATCTTC
1688352 TTTTGCTTCA
Statistics
Matches: 207, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
108 41 0.20
109 86 0.42
110 80 0.39
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (108 bp):
ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTTTCAGAGAGTATAAGACTCAAACAAT
CTTCAACAATCATGTCTGCCCCCTATTCTTCAGAGAGTATAAG
Found at i:1689528 original size:11 final size:11
Alignment explanation
Indices: 1689512--1689543 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1689502 CCCCCCTTTA
1689512 TTCATTTTTTT
1 TTCATTTTTTT
1689523 TTCATTTTTTT
1 TTCATTTTTTT
*
1689534 CTCATTTTTT
1 TTCATTTTTT
1689544 CTTTTCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (11 bp):
TTCATTTTTTT
Found at i:1699112 original size:25 final size:25
Alignment explanation
Indices: 1699080--1699128 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1699070 ACATTAAAAC
1699080 CCTAACCACATGATATCTAATTCAA
1 CCTAACCACATGATATCTAATTCAA
* *
1699105 CCTAACCACATGATCTCTAGTTCA
1 CCTAACCACATGATATCTAATTCA
1699129 CATGCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.29
Consensus pattern (25 bp):
CCTAACCACATGATATCTAATTCAA
Found at i:1705626 original size:14 final size:14
Alignment explanation
Indices: 1705607--1705635 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1705597 CCCTCTAAAT
1705607 GGCGTCATTTTGAA
1 GGCGTCATTTTGAA
1705621 GGCGTCATTTTGAA
1 GGCGTCATTTTGAA
1705635 G
1 G
1705636 CCCTCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (14 bp):
GGCGTCATTTTGAA
Found at i:1706388 original size:19 final size:20
Alignment explanation
Indices: 1706364--1706402 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1706354 ATGGCCTGCA
1706364 TAAAATAAAAATAA-AAAAT
1 TAAAATAAAAATAATAAAAT
*
1706383 TAAAATTAAAATAATAAAAT
1 TAAAATAAAAATAATAAAAT
1706403 ATCTGGCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAAAATAATAAAAT
Found at i:1708184 original size:132 final size:132
Alignment explanation
Indices: 1707947--1708222 Score: 392
Period size: 132 Copynumber: 2.1 Consensus size: 132
1707937 AAATGAATGA
* * * * ***
1707947 ATAAATTAATATGCATAACGTTACATTTTTGGCAGAAAGGTGCCATAAAAGAAAATGCATAATGG
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAAACGCCATAAAAGAAAATGCATAATGG
* * * *
1708012 TGTATTATTGGCAGAAATGTGTCATAAATGAAAATGCATAATGATGCATTATTAGCAGAAAGATG
66 TGCATTATTAGCAGAAATGTGTCATAAATGAAAATGCATAACGATGCATTATTAGAAGAAAGATG
1708077 CC
131 CC
* *
1708079 ATAAATGAAAATGTATAACGGTGCATTATTGGCAGAAAAACGCCATAAAAGAAAATGCATAATGG
1 ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAAACGCCATAAAAGAAAATGCATAATGG
* * *
1708144 TGCATTATTAGCAGAAATGTGTCATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGGTG
66 TGCATTATTAGCAGAAATGTGTCATAAATGAAAATGCATAACGATGCATTATTAGAAGAAAGATG
1708209 CC
131 CC
1708211 ACT-AATGAAAAT
1 A-TAAATGAAAAT
1708223 TAAATGCATA
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 126 0.99
133 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.26
Consensus pattern (132 bp):
ATAAATGAAAATGCATAACGGTACATTATTGGCAGAAAAACGCCATAAAAGAAAATGCATAATGG
TGCATTATTAGCAGAAATGTGTCATAAATGAAAATGCATAACGATGCATTATTAGAAGAAAGATG
CC
Found at i:1708240 original size:49 final size:44
Alignment explanation
Indices: 1707947--1708256 Score: 327
Period size: 44 Copynumber: 7.0 Consensus size: 44
1707937 AAATGAATGA
* * * * * *
1707947 ATAAATTAATATGCATAACGTTACATTTTTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
* * * *
1707991 ATAAAAGAAAATGCATAATGGTGTATTATTGGCAGAAATGTGTC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
* * *
1708035 ATAAATGAAAATGCATAATGATGCATTATTAGCAGAAAGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
* * ***
1708079 ATAAATGAAAATGTATAACGGTGCATTATTGGCAGAAAAACGCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
* * * *
1708123 ATAAAAGAAAATGCATAATGGTGCATTATTAGCAGAAATGTGTC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
* *
1708167 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGGTGCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
*
1708211 ACT-AATGAAAATTAAATGCATAATGGTGCATT-TTGGCATAAAGGTG
1 A-TAAATG---A--AAATGCATAATGGTGCATTATTGGCAGAAAGGTG
1708257 TCAGTCCTAG
Statistics
Matches: 220, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
44 188 0.85
45 1 0.00
47 1 0.00
48 12 0.05
49 18 0.08
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
Found at i:1714311 original size:18 final size:20
Alignment explanation
Indices: 1714268--1714310 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
1714258 GTTTTCATTT
*
1714268 AAAAACAACATAATTAAATC
1 AAAAACAACATAATTAAAAC
*
1714288 AAAAACAACA-ATTTAAAAC
1 AAAAACAACATAATTAAAAC
1714307 AAAA
1 AAAA
1714311 CTTTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAACAACATAATTAAAAC
Found at i:1714753 original size:23 final size:24
Alignment explanation
Indices: 1714718--1714763 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
1714708 GCTACCCCTC
1714718 GAGGGGTATCGATACACATTCAAA
1 GAGGGGTATCGATACACATTCAAA
1714742 GAGGGG-ATCGATACACATTCAA
1 GAGGGGTATCGATACACATTCAA
1714764 GATGTATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (24 bp):
GAGGGGTATCGATACACATTCAAA
Found at i:1714774 original size:21 final size:23
Alignment explanation
Indices: 1714721--1714777 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1714711 ACCCCTCGAG
1714721 GGGTATCGATACACATTCAAAGA
1 GGGTATCGATACACATTCAAAGA
*
1714744 GGGGATCGATACACATTC-AAGA
1 GGGTATCGATACACATTCAAAGA
*
1714766 -TGTATCGATACA
1 GGGTATCGATACA
1714778 GGTATCGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 10 0.32
22 4 0.13
23 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (23 bp):
GGGTATCGATACACATTCAAAGA
Found at i:1722658 original size:11 final size:11
Alignment explanation
Indices: 1722636--1722669 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
1722626 CAAGGTAAAG
1722636 TTTATCTTTTTC
1 TTTAT-TTTTTC
1722648 TTTATTTTTTC
1 TTTATTTTTTC
1722659 TGTTATTTTTT
1 T-TTATTTTTT
1722670 TTCCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTATTTTTTC
Found at i:1723390 original size:43 final size:43
Alignment explanation
Indices: 1723337--1723422 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
1723327 AAGAAAAAAG
*
1723337 GGAAAATTAAAAGTAATTAGAATGTATATAGGACTAAGTTGCA
1 GGAAAATTAAAAGTAATTAGAATGTATATAGGACTAAATTGCA
*
1723380 GGAAAGTTAAAAGTAATTAGAATGTATATAGGACTAAATTGCA
1 GGAAAATTAAAAGTAATTAGAATGTATATAGGACTAAATTGCA
1723423 TTGAACTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.28
Consensus pattern (43 bp):
GGAAAATTAAAAGTAATTAGAATGTATATAGGACTAAATTGCA
Found at i:1724203 original size:16 final size:16
Alignment explanation
Indices: 1724166--1724214 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
1724156 ATAAGTTATG
*
1724166 TAAATATCAAGTCAGA
1 TAAATATCAAATCAGA
*
1724182 TAAATATCAAATCAGT
1 TAAATATCAAATCAGA
* *
1724198 TCAATAACAAATCAGA
1 TAAATATCAAATCAGA
1724214 T
1 T
1724215 CATTTATAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (16 bp):
TAAATATCAAATCAGA
Found at i:1726161 original size:43 final size:43
Alignment explanation
Indices: 1726113--1726207 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 43
1726103 GTTGGGTTTT
*
1726113 TTTATTAAAATAATATTATTAATTAA-TTAATAATATTTTATTA
1 TTTATTAAAATAATA-AATTAATTAACTTAATAATATTTTATTA
* * ** *
1726156 TTTATTAAAAATAATAAATTAGTTAACTTATTGTTTTTTTATTA
1 TTTATT-AAAATAATAAATTAATTAACTTAATAATATTTTATTA
1726200 TTTATTAA
1 TTTATTAA
1726208 TAAATTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
43 16 0.36
44 28 0.64
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (43 bp):
TTTATTAAAATAATAAATTAATTAACTTAATAATATTTTATTA
Found at i:1726837 original size:152 final size:150
Alignment explanation
Indices: 1726538--1726839 Score: 570
Period size: 150 Copynumber: 2.0 Consensus size: 150
1726528 GAGGTTAGCC
1726538 GAGGGTGAGGGTGAGGTGGGGGGGGGGGGGGAAGAGGGGCATTTTTGACATATTATATGTTTATT
1 GAGGGTGAGGGTGAGGTGGGGGGGGGGGGGGAAGAGGGGCATTTTTGACATATTATATGTTTATT
1726603 TTTTAAATTGATTTTCGTTTACTCAAATAAAAAAAATTAAAATTAATAAGTGATTTGGTGTATTG
66 TTTTAAATTGATTTTCGTTTACTCAAATAAAAAAAATTAAAATTAATAAGTGATTTGGTGTATTG
1726668 TAATTGATCATCGGATTTTT
131 TAATTGATCATCGGATTTTT
1726688 GAGGGTGAGGGTGAGGT-GGGGGGGGGGGGGAAGAGGGGCATTTTTGACATATTATATGTTTTAT
1 GAGGGTGAGGGTGAGGTGGGGGGGGGGGGGGAAGAGGGGCATTTTTGACATATTATATG-TTTAT
1726752 TTTTTAAATTGATTTTCGTTTACTCAAATAAAAAAAAATTTAAAATTAATAAGTGATTTGGTGTA
65 TTTTTAAATTGATTTTCGTTTACTCAAAT-AAAAAAAA-TTAAAATTAATAAGTGATTTGGTGTA
1726817 TTGTAATTGATCATCGGATTTTT
128 TTGTAATTGATCATCGGATTTTT
1726840 TCTTAATGGG
Statistics
Matches: 149, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
149 41 0.28
150 51 0.34
151 8 0.05
152 49 0.33
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (150 bp):
GAGGGTGAGGGTGAGGTGGGGGGGGGGGGGGAAGAGGGGCATTTTTGACATATTATATGTTTATT
TTTTAAATTGATTTTCGTTTACTCAAATAAAAAAAATTAAAATTAATAAGTGATTTGGTGTATTG
TAATTGATCATCGGATTTTT
Found at i:1728078 original size:39 final size:39
Alignment explanation
Indices: 1728030--1728143 Score: 124
Period size: 39 Copynumber: 2.9 Consensus size: 39
1728020 TTTTTCCTAA
*
1728030 TTCTAAAATTATTTCACCCTAACATTCTAAA-TACTTAAT
1 TTCTTAAATTATTTCACCCTAACATTCTAAATTA-TTAAT
** * *
1728069 TTCTTAAATTAAATAACCAC-ATCATTCTAAATTATTAAT
1 TTCTTAAATTATTTCACC-CTAACATTCTAAATTATTAAT
* * *
1728108 TTCTTAAATTATTTCACCCTAATAATCTACATTATT
1 TTCTTAAATTATTTCACCCTAACATTCTAAATTATT
1728144 TCTCAAATTA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.02
39 56 0.93
40 3 0.05
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (39 bp):
TTCTTAAATTATTTCACCCTAACATTCTAAATTATTAAT
Found at i:1728803 original size:6 final size:6
Alignment explanation
Indices: 1728792--1728816 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1728782 ATAATTACTT
1728792 TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA T
1728817 ATTCCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:1728904 original size:29 final size:29
Alignment explanation
Indices: 1728860--1728921 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
1728850 TTCATAATTA
1728860 AAAAATAAGTACTTAAATATTTTAA-AATAT
1 AAAAATAAGTACTT-AAT-TTTTAATAATAT
*
1728890 AAAAA-AAGTATTTAATTTTTAATTAATAT
1 AAAAATAAGTACTTAATTTTTAA-TAATAT
1728919 AAA
1 AAA
1728922 CCCTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.21
28 3 0.10
29 15 0.52
30 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAAATAAGTACTTAATTTTTAATAATAT
Found at i:1730117 original size:3 final size:3
Alignment explanation
Indices: 1730109--1730176 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
1730099 CATCCATTTG
1730109 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1730156 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
1730177 CAGACCGACC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1731562 original size:13 final size:13
Alignment explanation
Indices: 1731524--1731579 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
1731514 TATATTTTAA
*
1731524 TTTAATTTATTAT
1 TTTAATTTAATAT
*
1731537 TTAAATTTCAATAT
1 TTTAATTT-AATAT
1731551 TTTAATTTAATAT
1 TTTAATTTAATAT
* *
1731564 TCTAA-TTATTAT
1 TTTAATTTAATAT
1731576 TTTA
1 TTTA
1731580 TTATTTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
12 9 0.25
13 16 0.44
14 11 0.31
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTAATTTAATAT
Found at i:1731579 original size:20 final size:19
Alignment explanation
Indices: 1731516--1731584 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
1731506 TATTTATTTA
1731516 TATTTTAAT-TT-AATTTAT
1 TATTTTAATATTCAA-TTAT
* *
1731534 TATTTAAAT-TTCAATATTT
1 TATTTTAATATTCAAT-TAT
*
1731553 TAATTTAATATTCTAATTAT
1 TATTTTAATATTC-AATTAT
*
1731573 TATTTTATTATT
1 TATTTTAATATT
1731585 TTTTCTAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 11 0.28
19 11 0.28
20 15 0.38
21 3 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTAATATTCAATTAT
Found at i:1731668 original size:16 final size:18
Alignment explanation
Indices: 1731648--1731687 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
1731638 TTGACTTTTT
1731648 TATATTAAATAAAA-ATA
1 TATATTAAATAAAATATA
*
1731665 -ATATTTAATAAAATATA
1 TATATTAAATAAAATATA
1731682 TATATT
1 TATATT
1731688 TGCTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATATTAAATAAAATATA
Found at i:1731873 original size:41 final size:40
Alignment explanation
Indices: 1731827--1731907 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
1731817 AATATCCTAC
*
1731827 TTTTA-TAA-ATTATATATATTTAATTTATTTTAAGAGAAATG
1 TTTTATTAATATT-TATATATTT-ATTTATATTAAGA-AAATG
* *
1731868 TTTTATTAATATTTATTTATTTTTTTATATTAAGAAAATG
1 TTTTATTAATATTTATATATTTATTTATATTAAGAAAATG
1731908 ACTGTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 5 0.14
41 16 0.46
42 11 0.31
43 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (40 bp):
TTTTATTAATATTTATATATTTATTTATATTAAGAAAATG
Found at i:1731996 original size:140 final size:139
Alignment explanation
Indices: 1731733--1731997 Score: 349
Period size: 140 Copynumber: 1.9 Consensus size: 139
1731723 TAATCATATT
**
1731733 TTAATATTTATTTATTTTTTAATATTAAGAAATGGTTGTCTTAAAGCAACTAGAAGTCCTTTTTG
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGACTGTCTTAAAGCAACTAGAAGTCCTTTTTG
* * * * *
1731798 ATATTTTTAAAAATAACTAAATATCCTACTTTTATAAATTATATATATTTAATTTATTTTAAGAG
66 ATATTTCT-AAAATAAATAAATATCCTACTTTTATAAAATATAAATATTAAATTTATTTTAAGAG
1731863 AAATGTTTTA
130 AAATGTTTTA
* *
1731873 TTAATATTTATTTATTTTTTTATATTAAGAAAATGACTGTCTTAAAGCAACTAGAAGTCTTTTTC
1 TTAATATTTATTTATTTTTTAATATTAAG-AAATGACTGTCTTAAAGCAACTAGAAGTCCTTTT-
* * *
1731938 TGATATTTCT-AAGTAAATAAATATCTTA--TTTATAAAAATATAAATA-TAAATATATATTTA
64 TGATATTTCTAAAATAAATAAATATCCTACTTTTAT-AAAATATAAATATTAAATTTAT-TTTA
1731998 TAAAATTTAA
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 12 0.11
139 14 0.13
140 43 0.39
141 31 0.28
142 9 0.08
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (139 bp):
TTAATATTTATTTATTTTTTAATATTAAGAAATGACTGTCTTAAAGCAACTAGAAGTCCTTTTTG
ATATTTCTAAAATAAATAAATATCCTACTTTTATAAAATATAAATATTAAATTTATTTTAAGAGA
AATGTTTTA
Found at i:1731999 original size:14 final size:14
Alignment explanation
Indices: 1731954--1732001 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1731944 TTCTAAGTAA
*
1731954 ATAAATATCTTATTT
1 ATAAATAT-ATATTT
* **
1731969 ATAAAAATATAAAT
1 ATAAATATATATTT
1731983 ATAAATATATATTT
1 ATAAATATATATTT
1731997 ATAAA
1 ATAAA
1732002 ATTTAATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATATATATTT
Found at i:1732009 original size:20 final size:22
Alignment explanation
Indices: 1731986--1732031 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
1731976 TATAAATATA
1731986 AATATATATTT-ATAAAATT-T
1 AATATATATTTCATAAAATTAT
* *
1732006 AATATATTTTTCTTAAAATTAT
1 AATATATATTTCATAAAATTAT
1732028 AATA
1 AATA
1732032 ATAAATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 7 0.32
22 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATATATTTCATAAAATTAT
Found at i:1735821 original size:15 final size:15
Alignment explanation
Indices: 1735797--1735828 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1735787 GATCAACACC
*
1735797 TTTTGTATACATTCA
1 TTTTGCATACATTCA
1735812 TTTTGCATACATTCA
1 TTTTGCATACATTCA
1735827 TT
1 TT
1735829 ATTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTTGCATACATTCA
Found at i:1762902 original size:61 final size:61
Alignment explanation
Indices: 1762815--1762933 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 61
1762805 TGCACTAAGC
*
1762815 TTACACTCTAGTACTGATCCAGATATGACACATAAGGTCATGCCCACCACCTACACTAGGT
1 TTACACTATAGTACTGATCCAGATATGACACATAAGGTCATGCCCACCACCTACACTAGGT
* * ** *
1762876 TTACACTATAGTGCTGATCCGGATATGACACATAAGGTTGTGCCCACCACCTGCACTA
1 TTACACTATAGTACTGATCCAGATATGACACATAAGGTCATGCCCACCACCTACACTA
1762934 AGTGTCCTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (61 bp):
TTACACTATAGTACTGATCCAGATATGACACATAAGGTCATGCCCACCACCTACACTAGGT
Found at i:1766773 original size:39 final size:39
Alignment explanation
Indices: 1766718--1767017 Score: 383
Period size: 39 Copynumber: 7.7 Consensus size: 39
1766708 AGGTTGAATA
* *
1766718 AGTTCTTCAGACTATGAACTTTTTCTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATG
*
1766757 AGTTCTTCAGATTATGAACTCCTTCTTCCTCTTCATG-TG
1 AGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCA-GATG
* * *
1766796 AGTTCTTCAGACTATGAA-TGTTTTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACT-TCTTCTTCCTCTTCAGATG
* *
1766835 AGTTCTTCAGATTATGAAC-TCTTTTTTCCTCTTTAGATG
1 AGTTCTTCAGATTATGAACTTC-TTCTTCCTCTTCAGATG
* * * * *
1766874 AGTTCTTTAGACTCTGAACTTCTTCTTCCTCTTCAAACG
1 AGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATG
* *
1766913 AGTTCTTCAGATTATGAACTCCTTCTTCCTATTCAGATG
1 AGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATG
*
1766952 AGTTCTTCAGACTT-TGAACTTCTTCTTTCTCTTCAGATG
1 AGTTCTTCAGA-TTATGAACTTCTTCTTCCTCTTCAGATG
*
1766991 AGTTCTTCAGATTATGAACTCCTTCTT
1 AGTTCTTCAGATTATGAACTTCTTCTT
1767018 GAAATATTTT
Statistics
Matches: 223, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
38 5 0.02
39 213 0.96
40 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATG
Found at i:1766847 original size:78 final size:78
Alignment explanation
Indices: 1766718--1767017 Score: 451
Period size: 78 Copynumber: 3.8 Consensus size: 78
1766708 AGGTTGAATA
* *
1766718 AGTTCTTCAGACTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
1766783 TCCTCTTCATG-TG
66 TCCTCTTCA-GATG
* * *
1766796 AGTTCTTCAGACTATGAA-TGTTTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTTT
1 AGTTCTTCAGACTATGAACT-TCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTC
*
1766860 TTCCTCTTTAGATG
65 TTCCTCTTCAGATG
* * *
1766874 AGTTCTTTAGACTCTGAACTTCTTCTTCCTCTTCAAACGAGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
*
1766939 TCCTATTCAGATG
66 TCCTCTTCAGATG
* * *
1766952 AGTTCTTCAGACTTTGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
1767017 T
66 T
1767018 GAAATATTTT
Statistics
Matches: 202, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
77 2 0.01
78 199 0.99
79 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (78 bp):
AGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCT
TCCTCTTCAGATG
Found at i:1767142 original size:73 final size:73
Alignment explanation
Indices: 1767024--1767354 Score: 567
Period size: 73 Copynumber: 4.5 Consensus size: 73
1767014 TCTTGAAATA
* * * *
1767024 TTTTAAGAAAAA-AATCTCAAGCGAGATAAATTACTATTTCGAGTGAAACTTTCTCCAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAGAA
*
1767088 ACAATTTA
66 ACAATTTG
*
1767096 TTTTATGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAACAC-TTCTCTAGCGAGA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAA-ACTTTCTCTAGCGAGA
*
1767160 AACATTTTG
65 AACAATTTG
*
1767169 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGACAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAGAA
1767234 ACAATTTG
66 ACAATTTG
1767242 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAGAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAGAA
1767307 ACAATTTG
66 ACAATTTG
1767315 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1767355 GAAAACATCC
Statistics
Matches: 245, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
72 13 0.05
73 230 0.94
74 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (73 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCTAGCGAGAA
ACAATTTG
Found at i:1768108 original size:22 final size:23
Alignment explanation
Indices: 1768083--1768166 Score: 129
Period size: 22 Copynumber: 3.8 Consensus size: 23
1768073 AATAGAGCTT
1768083 TCATCTTTGAA-AATATAATCTA
1 TCATCTTTGAAGAATATAATCTA
* *
1768105 TCATCTTTGAAG-AGAGAATCTA
1 TCATCTTTGAAGAATATAATCTA
1768127 TCATCTTTGAAGAATA-AATCTA
1 TCATCTTTGAAGAATATAATCTA
1768149 TCATCTTTGAAGAATATA
1 TCATCTTTGAAGAATATA
1768167 GATGTAGATA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
22 53 0.95
23 3 0.05
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (23 bp):
TCATCTTTGAAGAATATAATCTA
Found at i:1768686 original size:54 final size:54
Alignment explanation
Indices: 1768525--1768686 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 54
1768515 ATAATCACTG
* * * * * *
1768525 GTTCGTAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTGCTCAGAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* * *
1768579 GTTCGTAAAACATTTGACAGCACATTCATTCTTTCCTGTGGCTTTTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* *
1768633 GTTCGTAAAATATTTGACAACATATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
1768687 TTCTCAATCA
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
Found at i:1769036 original size:75 final size:75
Alignment explanation
Indices: 1768940--1769183 Score: 339
Period size: 75 Copynumber: 3.3 Consensus size: 75
1768930 ATAAGATGAT
* * * * ** * *
1768940 ATGGGCCTTCAACATGCCCCAACATTTGCT-ATTGCAGACGTTCAAAATGCACCAACATTCCTGA
1 ATGGGCTTTCAGCATGCCCCAACATTTGCTGA-TACAAACGTTCAAAATGCGTCAATATTCC-AA
1769004 -TTCTGATTGAA
64 TTTCTGATTGAA
1769015 ATGGGCTTTCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCGTCAATATTCCAATT
1 ATGGGCTTTCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCGTCAATATTCCAATT
* *
1769080 TATGAATGAA
66 TCTGATTGAA
* *
1769090 ATGGGCTTTTAGCATGCCCCAACATTTGCTGATACAAACGTTAAAAATGCGTCAATATTCCAATT
1 ATGGGCTTTCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCGTCAATATTCCAATT
*
1769155 TCTGATTAAA
66 TCTGATTGAA
1769165 ATGGGCTTTCAGCATGCCC
1 ATGGGCTTTCAGCATGCCC
1769184 AAATATTTAC
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
74 1 0.01
75 149 0.99
76 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (75 bp):
ATGGGCTTTCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCGTCAATATTCCAATT
TCTGATTGAA
Found at i:1771509 original size:13 final size:13
Alignment explanation
Indices: 1771492--1771556 Score: 71
Period size: 13 Copynumber: 4.9 Consensus size: 13
1771482 TCAATTTCTT
1771492 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
1771505 ATTTTCTCTT-TTCTC
1 -TTTT-TCTTCTT-TC
*
1771520 TTTTTCTT-TTTT
1 TTTTTCTTCTTTC
*
1771532 TTTTTCTTTTTTC
1 TTTTTCTTCTTTC
1771545 TTTTTCTTCTTT
1 TTTTTCTTCTTT
1771557 TTCATCTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
12 9 0.20
13 20 0.44
14 10 0.22
15 6 0.13
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:1771516 original size:7 final size:7
Alignment explanation
Indices: 1771506--1771591 Score: 60
Period size: 7 Copynumber: 12.9 Consensus size: 7
1771496 TCTTCTTTCA
1771506 TTTTCTC
1 TTTTCTC
1771513 TTTTCTC
1 TTTTCTC
1771520 TTTT-TC
1 TTTTCTC
* *
1771526 TTTTTTT
1 TTTTCTC
*
1771533 TTTTCTT
1 TTTTCTC
1771540 TTTTCT-
1 TTTTCTC
1771546 TTTTCTTC
1 TTTTC-TC
1771554 TTTTTCATC
1 -TTTTC-TC
1771563 TTTT-T-
1 TTTTCTC
1771568 TTTT-T-
1 TTTTCTC
1771573 TTTTCT-
1 TTTTCTC
*
1771579 TTTTTTC
1 TTTTCTC
1771586 TTTTCT
1 TTTTCT
1771592 GATGAATGAG
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
5 9 0.13
6 18 0.26
7 30 0.44
8 4 0.06
9 7 0.10
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTCTC
Found at i:1771530 original size:1 final size:1
Alignment explanation
Indices: 1771520--1771589 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
1771510 CTCTTTTCTC
* * * * * ** * *
1771520 TTTTTCTTTTTTTTTTTCTTTTTTCTTTTTCTTCTTTTTCATCTTTTTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1771585 CTTTT
1 TTTTT
1771590 CTGATGAATG
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:1771550 original size:40 final size:40
Alignment explanation
Indices: 1771490--1771589 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
1771480 ATTCAATTTC
* * *
1771490 TTTTTTTCTTCTTTCATTTTC-TCTTTTCTC-TTTTTCTTTT
1 TTTTTTTCTTTTTTCTTTTTCTTCTTTT-TCATCTTT-TTTT
1771530 TTTTTTTCTTTTTTCTTTTTCTTCTTTTTCATCTTTTTTT
1 TTTTTTTCTTTTTTCTTTTTCTTCTTTTTCATCTTTTTTT
1771570 TTTTTTTCTTTTTTTCTTTT
1 TTTTTTTC-TTTTTTCTTTT
1771590 CTGATGAATG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
40 33 0.61
41 21 0.39
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (40 bp):
TTTTTTTCTTTTTTCTTTTTCTTCTTTTTCATCTTTTTTT
Found at i:1771570 original size:13 final size:12
Alignment explanation
Indices: 1771486--1771589 Score: 95
Period size: 12 Copynumber: 8.7 Consensus size: 12
1771476 CTTAATTCAA
1771486 TTTC-TTTTTTT
1 TTTCTTTTTTTT
* **
1771497 CTTCTTTCATTT
1 TTTCTTTTTTTT
* *
1771509 TCTCTTTTCTCTT
1 TTTCTTTT-TTTT
1771522 TTTCTTTTTTTT
1 TTTCTTTTTTTT
1771534 TTTCTTTTTTCTT
1 TTTCTTTTTT-TT
*
1771547 TTTCTTCTTTTT
1 TTTCTTTTTTTT
**
1771559 CATCTTTTTTTT
1 TTTCTTTTTTTT
*
1771571 TTT-TTTCTTTT
1 TTTCTTTTTTTT
1771582 TTTCTTTT
1 TTTCTTTT
1771590 CTGATGAATG
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
11 13 0.18
12 38 0.54
13 20 0.28
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:1775759 original size:22 final size:22
Alignment explanation
Indices: 1775734--1775776 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1775724 ATAAAAATAA
* *
1775734 TAACCAAATTATAATTAAACAG
1 TAACCAAAATATAATCAAACAG
1775756 TAACCAAAATATAATCAAACA
1 TAACCAAAATATAATCAAACA
1775777 AAAACAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.23
Consensus pattern (22 bp):
TAACCAAAATATAATCAAACAG
Found at i:1782225 original size:135 final size:136
Alignment explanation
Indices: 1781791--1782330 Score: 710
Period size: 136 Copynumber: 4.0 Consensus size: 136
1781781 GGAAATATTG
* *** * * *
1781791 ATCCCTCAAGTGAGGCATCACTGATTCGAAGTG-TGTTGAATCTAGCGATAGGTCGAACAAGTTC
1 ATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTG-TGAATCGAGCAATAGGTCGAACAAGTTC
* * * * *
1781855 TTCTAATTATGAAATTCTTCTCCCTATGTCAGATGAGTTCTTCTCACTAAGAACTCTCCATTGGA
65 TTCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGA
1781920 AA-GTTCA
130 AATG-TCA
* * * *
1781927 ATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAAGTCTAATAATTTCT
1 ATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAGGTCGAACAAGTTCT
* * * * * *
1781992 TCTCATTATGAACTTCTTGTCCCTCTGTCGGATGAGTTCATCTCATTATGAACTTTACATTGGCA
66 TCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAA
1782057 ATGTCA
131 ATGTCA
** * *
1782063 ATCCCTCAAGCGAGGCATTACTGATTCAAAGTGTTGTGAATCAAGCAATAGGTCGAACAAATTCT
1 ATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAGGTCGAACAAGTTCT
*
1782128 TCTCATTATGAACTTTTTCTCCCT-TGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAA
66 TCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAA
1782192 ATGTCA
131 ATGTCA
* * * *
1782198 ATCCCTCAACCGATGCGTTGTTGATTCAAAGTGTTGTGAATCGATCAATAGGTCGAACAAGTTCT
1 ATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAGGTCGAACAAGTTCT
* * * * *
1782263 TCTCATTATGAACTT-TTTTTCCTCTGTCGGATGAGTTCTTCTCATTAGGAACTCTCTATTGGAA
66 TCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAA
1782327 ATGT
131 ATGT
1782331 TGATCAGTTC
Statistics
Matches: 352, Mismatches: 49, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
134 6 0.02
135 154 0.44
136 189 0.54
137 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (136 bp):
ATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAGGTCGAACAAGTTCT
TCTCATTATGAACTTCTTCTCCCTCTGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGAA
ATGTCA
Found at i:1782275 original size:271 final size:271
Alignment explanation
Indices: 1781791--1782315 Score: 795
Period size: 271 Copynumber: 1.9 Consensus size: 271
1781781 GGAAATATTG
* * * * *
1781791 ATCCCTCAAGTGAGGCATCACTGATTCGAAGTGTGTTGAATCTAGCGATAGGTCGAACAAGTTCT
1 ATCCCTCAAGCGAGGCATCACTGATTCAAAGTGTGTTGAATCAAGCAATAGGTCGAACAAATTCT
1781856 TCTAATTATGAAATTCTTCTCCCTATGTCAGATGAGTTCTTCTCACTAAGAACTCTCCATTGGAA
66 TCTAATTATGAAATTCTTCTCCCTATGTCAGATGAGTTCTTCTCACTAAGAACTCTCCATTGGAA
* * *
1781921 AGTTCAATCCCTCAAGCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAAGTCTAATA
131 AGTTCAATCCCTCAACCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAAGTCGAACA
* *
1781986 ATTTCTTCTCATTATGAACTTCTTGTCCCTCTGTCGGATGAGTTCATCTCATTATGAACTTTACA
196 AGTTCTTCTCATTATGAACTT-TTGTCCCTCTGTCGGATGAGTTCATCTCATTAGGAACTTTACA
1782051 TTGGCAATGTCA
260 TTGGCAATGTCA
*
1782063 ATCCCTCAAGCGAGGCATTACTGATTCAAAGTGT-TGTGAATCAAGCAATAGGTCGAACAAATTC
1 ATCCCTCAAGCGAGGCATCACTGATTCAAAGTGTGT-TGAATCAAGCAATAGGTCGAACAAATTC
* * * * *
1782127 TTCTCATTATGAACTTTTTCTCCCT-TGTCAGATGAGTTCTTCTCATTATGAACTCTCCATTGGA
65 TTCTAATTATGAAATTCTTCTCCCTATGTCAGATGAGTTCTTCTCACTAAGAACTCTCCATTGGA
* * * *
1782191 AA-TGTCAATCCCTCAACCGATGCGTTGTTGATTCAAAGTGTTGTGAATCGATCAATAGGTCGAA
130 AAGT-TCAATCCCTCAACCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAAGTCGAA
* * *
1782255 CAAGTTCTTCTCATTATGAACTTTTTTTCCTCTGTCGGATGAGTTCTTCTCATTAGGAACT
194 CAAGTTCTTCTCATTATGAACTTTTGTCCCTCTGTCGGATGAGTTCATCTCATTAGGAACT
1782316 CTCTATTGGA
Statistics
Matches: 228, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
270 35 0.15
271 115 0.50
272 78 0.34
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (271 bp):
ATCCCTCAAGCGAGGCATCACTGATTCAAAGTGTGTTGAATCAAGCAATAGGTCGAACAAATTCT
TCTAATTATGAAATTCTTCTCCCTATGTCAGATGAGTTCTTCTCACTAAGAACTCTCCATTGGAA
AGTTCAATCCCTCAACCGAGGCATTGTTGATTCAAAGTGTTGTGAATCGAGCAATAAGTCGAACA
AGTTCTTCTCATTATGAACTTTTGTCCCTCTGTCGGATGAGTTCATCTCATTAGGAACTTTACAT
TGGCAATGTCA
Found at i:1788501 original size:24 final size:24
Alignment explanation
Indices: 1788457--1788506 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1788447 ATAAAGAACC
*
1788457 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
1788481 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
1788505 AA
1 AA
1788507 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:1788971 original size:17 final size:17
Alignment explanation
Indices: 1788949--1788982 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1788939 TCCTCCAAGT
*
1788949 GCAGTGGTTCTCTGGCG
1 GCAGTGGTCCTCTGGCG
1788966 GCAGTGGTCCTCTGGCG
1 GCAGTGGTCCTCTGGCG
1788983 ACTCTGACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.41, T:0.26
Consensus pattern (17 bp):
GCAGTGGTCCTCTGGCG
Found at i:1793078 original size:14 final size:14
Alignment explanation
Indices: 1793059--1793091 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1793049 TTAATGCATG
*
1793059 ATGTAAATTTAAAA
1 ATGTAAATGTAAAA
1793073 ATGTAAATGTAAAA
1 ATGTAAATGTAAAA
1793087 ATGTA
1 ATGTA
1793092 CAAATGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (14 bp):
ATGTAAATGTAAAA
Found at i:1795477 original size:3 final size:3
Alignment explanation
Indices: 1795446--1795505 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
1795436 TATTTATATA
* * * *
1795446 AAT AAT AAA AAT AAA AAT AAT GA- AAT AAT AATT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
1795491 AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
1795506 TTGCAAATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 3 0.07
3 40 0.87
4 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1795514 original size:42 final size:39
Alignment explanation
Indices: 1795446--1795524 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 39
1795436 TATTTATATA
1795446 AATAATAAAAATAAAAATAATGAAATAATAATTAAAAAT
1 AATAATAAAAATAAAAATAATGAAATAATAATTAAAAAT
* * *
1795485 AATAATAATAATAAAATAATATTGCAAATAATGATTAAAA
1 AATAATAAAAAT-AAA-AATAATG-AAATAATAATTAAAA
1795525 CAAAAGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 11 0.32
40 3 0.09
41 6 0.18
42 14 0.41
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (39 bp):
AATAATAAAAATAAAAATAATGAAATAATAATTAAAAAT
Found at i:1796775 original size:3 final size:3
Alignment explanation
Indices: 1796767--1796817 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
1796757 TGTAATTATT
*
1796767 TAA TAA TAA TAA TAA TAA T-A TATA TATA TAA T-A TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA
1796812 TAA TAA
1 TAA TAA
1796818 ATAAATAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
2 4 0.09
3 33 0.75
4 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1797904 original size:19 final size:20
Alignment explanation
Indices: 1797860--1797904 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1797850 ATTTGTTTTT
*
1797860 AATAAATTTTTATCTATGAA
1 AATAAATTTTTATCTATCAA
* *
1797880 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATCTATCAA
1797899 AATAAA
1 AATAAA
1797905 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATCTATCAA
Found at i:1798449 original size:16 final size:15
Alignment explanation
Indices: 1798425--1798480 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
1798415 TCCGAGTTTT
*
1798425 TATTGACCTGATCTGA
1 TATTTACCTGA-CTGA
1798441 TATTTACCTGACTTGA
1 TATTTACCTGAC-TGA
* *
1798457 CATTTACCTGACTTA
1 TATTTACCTGACTGA
1798472 TATATTACC
1 TAT-TTACC
1798481 ATGGACGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.15
16 29 0.85
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (15 bp):
TATTTACCTGACTGA
Found at i:1798653 original size:14 final size:13
Alignment explanation
Indices: 1798619--1798645 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1798609 GACCTATTAT
1798619 ATAAAAATATTTA
1 ATAAAAATATTTA
1798632 ATAAAAATATTTA
1 ATAAAAATATTTA
1798645 A
1 A
1798646 ATGTAAATTA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAAAATATTTA
Found at i:1799042 original size:11 final size:11
Alignment explanation
Indices: 1799010--1799044 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1799000 TGATAAATTA
1799010 AATAACATTTG
1 AATAACATTTG
*
1799021 ATATAAAATTTG
1 A-ATAACATTTG
1799033 AATAACATTTG
1 AATAACATTTG
1799044 A
1 A
1799045 GTTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (11 bp):
AATAACATTTG
Found at i:1799991 original size:17 final size:19
Alignment explanation
Indices: 1799958--1799992 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1799948 ATAAAGTTGC
1799958 TAGCTGACCTATGAGCTCA
1 TAGCTGACCTATGAGCTCA
1799977 TAGCTGA-CT-TGAGCTC
1 TAGCTGACCTATGAGCTC
1799993 GACTTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (19 bp):
TAGCTGACCTATGAGCTCA
Found at i:1800943 original size:36 final size:35
Alignment explanation
Indices: 1800892--1801002 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
1800882 TAAGATACTA
1800892 CCTA-AACATCACCATCTTCCATCACCATTTTCACG
1 CCTATAACATCACCATCTTCCATCACCA-TTTCACG
* *
1800927 CCTATAACATCACCATCTTCCATTACCATTGCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
* * * *
1800962 CCTATATCATTACCATCTTCTATCACAATTTCACG
1 CCTATAACATCACCATCTTCCATCACCATTTCACG
1800997 CCTATA
1 CCTATA
1801003 TAACCACCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 45 0.67
36 22 0.33
ACGTcount: A:0.29, C:0.36, G:0.04, T:0.32
Consensus pattern (35 bp):
CCTATAACATCACCATCTTCCATCACCATTTCACG
Found at i:1804092 original size:6 final size:6
Alignment explanation
Indices: 1804083--1804159 Score: 82
Period size: 6 Copynumber: 12.7 Consensus size: 6
1804073 TTCGAATTTA
** * *
1804083 GGTTTG GGTTTG GGTTCA AGTTTG GGTTTG GGTTTG GGTTTG GATTTG
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
* * *
1804131 GGTTTAG GGTTTG AGTTTA GGTTGG GGTT
1 GGTTT-G GGTTTG GGTTTG GGTTTG GGTT
1804160 AGGTTGGGTT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
6 51 0.89
7 6 0.11
ACGTcount: A:0.08, C:0.01, G:0.44, T:0.47
Consensus pattern (6 bp):
GGTTTG
Found at i:1805008 original size:31 final size:28
Alignment explanation
Indices: 1804934--1805013 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
1804924 ATAAACTGTT
* * *
1804934 TATAATTAATATTAAAATAATTATATAT
1 TATAATTGATATTAATATAATTATATAA
1804962 TATAATTGATATTAATATAATTAATATTAA
1 TATAATTGATATTAATATAATT-ATA-TAA
1804992 TATTAACTT-ATATTAATATAAT
1 TA-TAA-TTGATATTAATATAAT
1805014 ATAGTTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 20 0.44
29 3 0.07
30 4 0.09
31 16 0.36
32 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
TATAATTGATATTAATATAATTATATAA
Found at i:1805024 original size:43 final size:42
Alignment explanation
Indices: 1804916--1805155 Score: 130
Period size: 43 Copynumber: 5.6 Consensus size: 42
1804906 CCTATATAAT
* *
1804916 TTATATTAATA-AA-CT-GTTTATAATTAATATTAA-AATAA
1 TTATATTAATATAATATAGTTTATAATTAATATTAATATTAA
*
1804954 TTATA-TATTATAATTGATA-TTAATATAATTAATATTAATATTAA
1 TTATATTAATATAA-T-ATAGTT--TATAATTAATATTAATATTAA
1804998 CTTATATTAATATAATATAGTTTATAATT--T-TT-A-ATTAA
1 -TTATATTAATATAATATAGTTTATAATTAATATTAATATTAA
* * * * *
1805036 TTTTAAT-ATAAAATATAGTCTATAAAATTAATATTAATATAAA
1 TTATATTAATATAATATAGT-T-TATAATTAATATTAATATTAA
* *
1805079 CTATATGTTATAAATTATATAGTATAGTTTATAAACT-ATAGTTAATA-TAA
1 -T-TA---TATTAA-TATA-A-TATAGTTTAT-AATTAATA-TTAATATTAA
1805129 TTAATATTAATATAATATAGTTTATAA
1 TT-ATATTAATATAATATAGTTTATAA
1805156 GCTATATACT
Statistics
Matches: 155, Mismatches: 17, Indels: 56
0.68 0.07 0.25
Matches are distributed among these distances:
36 11 0.07
37 10 0.06
38 18 0.12
39 1 0.01
40 3 0.02
41 6 0.04
42 3 0.02
43 36 0.23
44 9 0.06
45 13 0.08
46 12 0.08
48 3 0.02
49 3 0.02
50 10 0.06
51 11 0.07
52 6 0.04
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (42 bp):
TTATATTAATATAATATAGTTTATAATTAATATTAATATTAA
Found at i:1805033 original size:65 final size:66
Alignment explanation
Indices: 1804954--1805228 Score: 257
Period size: 65 Copynumber: 4.2 Consensus size: 66
1804944 ATTAAAATAA
*
1804954 TTATATATTATAATTGATATTAATATAATTAATA-TTAATATTAACTT-ATATTAATAT-AA-TA
1 TTATAAATTATAATTGATATTAATATAATT-ATAGTTAATA-TAA-TTAATATTAATATAAACTA
1805015 TAGT
63 TAGT
* * * * * *
1805019 TTATAATTTTTAATTAATTTTAATATAAAATATAGTCT-ATAAAATTAATATTAATATAAACTAT
1 TTATAAATTATAATTGATATTAATAT-AATTATAGT-TAATATAATTAATATTAATATAAACTAT
1805083 A-T
64 AGT
* * *
1805085 GTTATAAATTAT-ATAGTATAGTTTATA-AACTATAGTTAATATAATTAATATTAATAT-AA-TA
1 -TTATAAATTATAATTG-ATA-TTAATATAATTATAGTTAATATAATTAATATTAATATAAACTA
1805146 TAGT
63 TAGT
** * *
1805150 TTATAAGCTATATACT-ATATTAATATAAATTATAGTTAATATAATTAACATTAATATAAACTAT
1 TTATAAATTATA-ATTGATATTAATAT-AATTATAGTTAATATAATTAATATTAATATAAACTAT
1805214 AGT
64 AGT
1805217 TTATAAATTATA
1 TTATAAATTATA
1805229 TTCTATAGGT
Statistics
Matches: 169, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
63 5 0.03
64 18 0.11
65 68 0.40
66 41 0.24
67 32 0.19
68 5 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (66 bp):
TTATAAATTATAATTGATATTAATATAATTATAGTTAATATAATTAATATTAATATAAACTATAG
T
Found at i:1805073 original size:31 final size:30
Alignment explanation
Indices: 1805030--1805230 Score: 151
Period size: 31 Copynumber: 6.3 Consensus size: 30
1805020 TATAATTTTT
* *
1805030 AATTAATTTTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAACTATAGT-TATAA
1805061 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAACTATA-GTTATAA
* *
1805091 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAACTATAGTT-ATAA
1805127 AATTAATATTAATAT-AA-TATAGTTTATAA
1 AATTAATATTAATATAAACTATAG-TTATAA
* * *
1805156 GCTATATACTATATTAATATAAATTATAGTTAATAT
1 --AAT-TA--ATATTAATATAAACTATAGTT-ATAA
*
1805192 AATTAACATTAATATAAACTATAGTT-TATA
1 AATTAATATTAATATAAACTATAGTTATA-A
1805222 AATT-ATATT
1 AATTAATATT
1805231 CTATAGGTTA
Statistics
Matches: 139, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
29 14 0.10
30 14 0.10
31 51 0.37
32 5 0.04
33 6 0.04
34 16 0.12
35 20 0.14
36 13 0.09
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (30 bp):
AATTAATATTAATATAAACTATAGTTATAA
Found at i:1805110 original size:14 final size:14
Alignment explanation
Indices: 1805093--1805154 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
1805083 ATGTTATAAA
*
1805093 TTATATAGTATAGT
1 TTATATAATATAGT
1805107 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
1805121 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
1805136 TAATATAATATAGT
1 TTATATAATATAGT
1805150 TTATA
1 TTATA
1805155 AGCTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:1805140 original size:15 final size:15
Alignment explanation
Indices: 1805120--1805208 Score: 65
Period size: 15 Copynumber: 5.6 Consensus size: 15
1805110 TAAACTATAG
1805120 TTAATATAATTAATA
1 TTAATATAATTAATA
* *
1805135 TTAATATAATATAGTT
1 TTAATATAAT-TAATA
*
1805151 TATAAGCTATATACT-ATA
1 T-TAA--TATA-ATTAATA
1805169 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
*
1805184 GTTAATATAATTAACA
1 -TTAATATAATTAATA
1805200 TTAATATAA
1 TTAATATAA
1805209 ACTATAGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
15 31 0.53
16 14 0.24
17 6 0.10
18 2 0.03
19 5 0.08
20 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:1805150 original size:131 final size:132
Alignment explanation
Indices: 1804988--1805249 Score: 345
Period size: 131 Copynumber: 2.0 Consensus size: 132
1804978 ATAATTAATA
** * * *
1804988 TTAATATTAACTTATATTAATATAATATAGTTTATAATTTTTA-ATTAATTTTAATATAAAATAT
1 TTAATATTAACTTATATTAATATAATATAGTTTATAAGCTATATACT-ATATTAATATAAAATAT
* * *
1805052 AGTCT-ATAAAATTAATATTAATATAAACTATA-TGTTATAAATTATATAGTATAGTTTATAAAC
65 AGT-TAATAAAATTAACATTAATATAAACTATAGT-TTATAAATTATATACTATAGGTTATAAAC
1805115 TATAG
128 TATAG
*
1805120 TTAATA-TAA-TTAATATTAATATAATATAGTTTATAAGCTATATACTATATTAATATAAATTAT
1 TTAATATTAACTT-ATATTAATATAATATAGTTTATAAGCTATATACTATATTAATATAAAATAT
* * *
1805183 AGTTAATATAATTAACATTAATATAAACTATAGTTTATAAATTATATTCTATAGGTTATAAAGTA
65 AGTTAATAAAATTAACATTAATATAAACTATAGTTTATAAATTATATACTATAGGTTATAAACTA
1805248 TA
130 TA
1805250 AACTATATAG
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
130 3 0.03
131 102 0.89
132 9 0.08
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (132 bp):
TTAATATTAACTTATATTAATATAATATAGTTTATAAGCTATATACTATATTAATATAAAATATA
GTTAATAAAATTAACATTAATATAAACTATAGTTTATAAATTATATACTATAGGTTATAAACTAT
AG
Found at i:1805255 original size:21 final size:21
Alignment explanation
Indices: 1805204--1805256 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1805194 TTAACATTAA
* *
1805204 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
**
1805225 TATATTCTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
1805246 TATAAACTATA
1 TATAAACTATA
1805257 TAGTACACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:1805283 original size:131 final size:129
Alignment explanation
Indices: 1805005--1805292 Score: 307
Period size: 131 Copynumber: 2.2 Consensus size: 129
1804995 TAACTTATAT
** * * * *
1805005 TAATATAATATAGTTTATAATTTTTA-ATTAATTTTAATATAAAATATAGTCTATAAAATTAATA
1 TAATATAATATAGTTTATAAACTATATACT-ATATTAATATAAAATATAGTCTATAAAATTAACA
* * * *
1805069 TTAATATAAACTATATGTTATAAATTATATAGTATAGTTTATAAACTATAGTTAATATAATTAAT
65 TTAATATAAACTATATGTTATAAATTATATACTATAGGTTATAAACTATA--TAATATAAGTAAC
*
1805134 AT
128 AC
* * *
1805136 TAATATAATATAGTTTATAAGCTATATACTATATTAATATAAATTATAGT-TAATATAATTAACA
1 TAATATAATATAGTTTATAAACTATATACTATATTAATATAAAATATAGTCT-ATAAAATTAACA
* *
1805200 TTAATATAAACTATA-GTTTATAAATTATATTCTATAGGTTATAAAGTATA-AACTATATAGT-A
65 TTAATATAAACTATATG-TTATAAATTATATACTATAGGTTATAAACTATATAA-TATA-AGTAA
1805262 CAC
127 CAC
*
1805265 TAATATAAACTATTGTTTATAAACTATA
1 TAATAT-AA-TATAGTTTATAAACTATA
1805293 GGTTACATAT
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
128 2 0.02
129 12 0.09
130 6 0.05
131 111 0.83
132 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (129 bp):
TAATATAATATAGTTTATAAACTATATACTATATTAATATAAAATATAGTCTATAAAATTAACAT
TAATATAAACTATATGTTATAAATTATATACTATAGGTTATAAACTATATAATATAAGTAACAC
Found at i:1805384 original size:20 final size:21
Alignment explanation
Indices: 1805299--1805402 Score: 76
Period size: 20 Copynumber: 5.0 Consensus size: 21
1805289 TATAGGTTAC
1805299 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
1805319 ATAAATAGATTGTATATATATACAT
1 ATATATAG--T-T-TATATATACAT
* *
1805344 ATACTACAG-GT-TATA-A-AT
1 ATA-TATAGTTTATATATACAT
1805362 ATATATAGTTTATATATAC-T
1 ATATATAGTTTATATATACAT
* *
1805382 ATACATAGTTTATACATACAT
1 ATATATAGTTTATATATACAT
1805403 GTACTATAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
17 4 0.06
18 6 0.09
19 5 0.08
20 30 0.46
21 2 0.03
22 1 0.02
23 1 0.02
24 6 0.09
25 7 0.11
26 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:1805423 original size:59 final size:62
Alignment explanation
Indices: 1805299--1805423 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 62
1805289 TATAGGTTAC
* * *
1805299 ATATATAGTTTATATAACATATAAATAGATTGTATATATATACATATACTACAGGTTATAAAT
1 ATATATAGTTTATATAACATATAAATAGA-TGTATATACATACATATACTACAAGTTACAAAT
* * * *
1805362 ATATATAGTTTATATATAC-TATACATAG-T-T-TATACATACATGTACTATAAGTTACATAT
1 ATATATAGTTTATATA-ACATATAAATAGATGTATATACATACATATACTACAAGTTACAAAT
1805421 ATA
1 ATA
1805424 GTTTATATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 26 0.48
60 1 0.02
61 1 0.02
63 24 0.44
64 2 0.04
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (62 bp):
ATATATAGTTTATATAACATATAAATAGATGTATATACATACATATACTACAAGTTACAAAT
Found at i:1805426 original size:35 final size:36
Alignment explanation
Indices: 1805386--1805459 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
1805376 TATACTATAC
*
1805386 ATAGTTTATA-CATACATGTACTATAAGTTACATAT
1 ATAGTTTATAGCATACATATACTATAAGTTACATAT
* * *
1805421 ATAGTTTATATGTATACATATATTATAGGTTACATAT
1 ATAGTTTATA-GCATACATATACTATAAGTTACATAT
1805458 AT
1 AT
1805460 TAACTATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 10 0.30
37 23 0.70
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (36 bp):
ATAGTTTATAGCATACATATACTATAAGTTACATAT
Found at i:1805775 original size:20 final size:20
Alignment explanation
Indices: 1805736--1805775 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1805726 TTTTGTTATA
* *
1805736 TATATATAGTTTACATATAC
1 TATACATAGTTTACACATAC
*
1805756 TATACATAGTTTATACATAC
1 TATACATAGTTTACACATAC
1805776 ATGTACTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (20 bp):
TATACATAGTTTACACATAC
Found at i:1805800 original size:35 final size:36
Alignment explanation
Indices: 1805761--1805834 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
1805751 TATACTATAC
*
1805761 ATAGTTT-ATACATACATGTACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACATAT
** *
1805796 ATAGTTTACATGTATACATATACTATAGGTTACATAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACATAT
1805833 AT
1 AT
1805835 TTACTATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 7 0.21
37 26 0.79
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACATAT
Found at i:1806142 original size:17 final size:15
Alignment explanation
Indices: 1806113--1806148 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1806103 CTGTATAGTT
1806113 TATATAGTTTATACA
1 TATATAGTTTATACA
*
1806128 TATATAGTTTATATA
1 TATATAGTTTATACA
1806143 TATATA
1 TATATA
1806149 TTATATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:1806143 original size:13 final size:13
Alignment explanation
Indices: 1806113--1806263 Score: 97
Period size: 13 Copynumber: 11.7 Consensus size: 13
1806103 CTGTATAGTT
1806113 TATATAGTTTATACA
1 TATATAGTTTAT--A
1806128 TATATAGTTTATA
1 TATATAGTTTATA
1806141 TATATA-TATTATA
1 TATATAGT-TTATA
1806154 T-TA-A---TATA
1 TATATAGTTTATA
* *
1806162 AACTATAGGTTATAAA
1 TA-TATA-GTT-TATA
*
1806178 CTATATACTTT-T-
1 -TATATAGTTTATA
1806190 TATA--GTTTATA
1 TATATAGTTTATA
*
1806201 TATTATAATTTATA
1 TA-TATAGTTTATA
*
1806215 TACATAGTTTATA
1 TATATAGTTTATA
1806228 TATTATAGTTTATA
1 TA-TATAGTTTATA
*
1806242 TACATAGTTTATA
1 TATATAGTTTATA
1806255 TATATAGTT
1 TATATAGTT
1806264 CATACAAACA
Statistics
Matches: 108, Mismatches: 12, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
8 4 0.04
9 3 0.03
10 3 0.03
11 8 0.07
12 5 0.05
13 42 0.39
14 21 0.19
15 14 0.13
16 7 0.06
17 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:1806154 original size:75 final size:74
Alignment explanation
Indices: 1806065--1806216 Score: 214
Period size: 75 Copynumber: 2.0 Consensus size: 74
1806055 TTATACATAC
* * * *
1806065 ATATATATACTATATTAATATAAATTATAATTTATAAACTGTATAGTTTATATAGTTTATACATA
1 ATATATATACTATATTAATATAAACTATAAGTTATAAACTATATACTTTATATAGTTTATACAT-
*
1806130 TATAGTTTAT
65 TATAATTTAT
* * * *
1806140 ATATATATATTATATTAATATAAACTATAGGTTATAAACTATATACTTTTTATAGTTTATATATT
1 ATATATATACTATATTAATATAAACTATAAGTTATAAACTATATACTTTATATAGTTTATACATT
1806205 ATAATTTAT
66 ATAATTTAT
1806214 ATA
1 ATA
1806217 CATAGTTTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 12 0.18
75 56 0.82
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (74 bp):
ATATATATACTATATTAATATAAACTATAAGTTATAAACTATATACTTTATATAGTTTATACATT
ATAATTTAT
Found at i:1806212 original size:14 final size:14
Alignment explanation
Indices: 1806189--1806263 Score: 102
Period size: 13 Copynumber: 5.6 Consensus size: 14
1806179 TATATACTTT
1806189 TTATAGTTTATATA
1 TTATAGTTTATATA
*
1806203 TTATAATTTATATA
1 TTATAGTTTATATA
*
1806217 -CATAGTTTATATA
1 TTATAGTTTATATA
1806230 TTATAGTTTATATA
1 TTATAGTTTATATA
*
1806244 -CATAGTTTATATA
1 TTATAGTTTATATA
1806257 -TATAGTT
1 TTATAGTT
1806264 CATACAAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
13 29 0.54
14 25 0.46
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (14 bp):
TTATAGTTTATATA
Found at i:1806221 original size:27 final size:27
Alignment explanation
Indices: 1806191--1806257 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
1806181 TATACTTTTT
1806191 ATAGTTTATATATTATAATTTATATAC
1 ATAGTTTATATATTATAATTTATATAC
*
1806218 ATAGTTTATATATTATAGTTTATATAC
1 ATAGTTTATATATTATAATTTATATAC
1806245 ATAGTTTATATAT
1 ATAGTTTATATAT
1806258 ATAGTTCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (27 bp):
ATAGTTTATATATTATAATTTATATAC
Found at i:1806306 original size:18 final size:19
Alignment explanation
Indices: 1806283--1806318 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1806273 ATAATGTATA
1806283 TATATAGCTTATA-ATAAT
1 TATATAGCTTATATATAAT
*
1806301 TATATAGTTTATATATAA
1 TATATAGCTTATATATAA
1806319 ACTTATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TATATAGCTTATATATAAT
Found at i:1808066 original size:35 final size:36
Alignment explanation
Indices: 1808001--1808075 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
1807991 GTAGTGTGAA
1808001 TGTTAGCATGTATCTGCATGTGTTAATATTAGTTAG
1 TGTTAGCATGTATCTGCATGTGTTAATATTAGTTAG
*
1808037 TGTTAGCATGTATCTGCA-GTGTTAATATTAGTTGG
1 TGTTAGCATGTATCTGCATGTGTTAATATTAGTTAG
1808072 TGTT
1 TGTT
1808076 GTTATCAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 20 0.53
36 18 0.47
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (36 bp):
TGTTAGCATGTATCTGCATGTGTTAATATTAGTTAG
Found at i:1813377 original size:56 final size:56
Alignment explanation
Indices: 1813291--1813403 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
1813281 AATGTTATAG
1813291 TAGAGCATGTTGTATTTTGGTTTAATAAGAGGCAATGTGAGAAACTTTGGAGAACT
1 TAGAGCATGTTGTATTTTGGTTTAATAAGAGGCAATGTGAGAAACTTTGGAGAACT
* * *
1813347 TAGAGTATGTTGTATTTTGGTTTAATAAGAGGCAGTGTTAGAAACTTTGGAGAACT
1 TAGAGCATGTTGTATTTTGGTTTAATAAGAGGCAATGTGAGAAACTTTGGAGAACT
1813403 T
1 T
1813404 GTATGTGAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (56 bp):
TAGAGCATGTTGTATTTTGGTTTAATAAGAGGCAATGTGAGAAACTTTGGAGAACT
Found at i:1813566 original size:29 final size:29
Alignment explanation
Indices: 1813529--1813587 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1813519 TATGTTCAAA
1813529 TATGATATAGGTGATCAAATGTTGCATTG
1 TATGATATAGGTGATCAAATGTTGCATTG
*
1813558 TATGCTATAGGTGATCAAATGTTGCATTG
1 TATGATATAGGTGATCAAATGTTGCATTG
1813587 T
1 T
1813588 GTCTTAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (29 bp):
TATGATATAGGTGATCAAATGTTGCATTG
Found at i:1816512 original size:37 final size:37
Alignment explanation
Indices: 1816462--1816538 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
1816452 ACTCTAAAAA
* *
1816462 TTCAGATTAGGTCGAAGTCG-ATGGAGGATATAAATTT
1 TTCAGATTAGGTCGAA-TCGAATGGACGATATAAAATT
* * * *
1816499 TTCAGGTTGGGTCGGATCGAATGTACGATATAAAATT
1 TTCAGATTAGGTCGAATCGAATGGACGATATAAAATT
1816536 TTC
1 TTC
1816539 GGATCAAGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (37 bp):
TTCAGATTAGGTCGAATCGAATGGACGATATAAAATT
Found at i:1818464 original size:31 final size:31
Alignment explanation
Indices: 1818428--1818487 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1818418 AACCACAATC
*
1818428 CACAATCCTTGACTCTTGAGATAATTATACA
1 CACAATCCTTGACTCTTGAGATAACTATACA
1818459 CACAATCCTTGACTCTTGAGATAACTATA
1 CACAATCCTTGACTCTTGAGATAACTATA
1818488 TAGCAAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (31 bp):
CACAATCCTTGACTCTTGAGATAACTATACA
Found at i:1818818 original size:10 final size:10
Alignment explanation
Indices: 1818803--1818861 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
1818793 CAATTTTTTA
1818803 AAAAATAAAT
1 AAAAATAAAT
*
1818813 AAAAATGCAAT
1 AAAAAT-AAAT
1818824 AAAAATAAATT
1 AAAAATAAA-T
*
1818835 AAAAATGAAT
1 AAAAATAAAT
* *
1818845 AAAATTCAAT
1 AAAAATAAAT
1818855 AAAAATA
1 AAAAATA
1818862 TAATGTAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 22 0.55
11 18 0.45
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:1818828 original size:21 final size:20
Alignment explanation
Indices: 1818803--1818860 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
1818793 CAATTTTTTA
1818803 AAAAATAAATAAAAATGCAAT
1 AAAAATAAATAAAAATG-AAT
1818824 AAAAATAAATTAAAAATGAAT
1 AAAAATAAA-TAAAAATGAAT
* *
1818845 AAAATTCAATAAAAAT
1 AAAAATAAATAAAAAT
1818861 ATAATGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 19 0.56
22 8 0.24
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (20 bp):
AAAAATAAATAAAAATGAAT
Found at i:1818855 original size:31 final size:34
Alignment explanation
Indices: 1818803--1818876 Score: 100
Period size: 31 Copynumber: 2.3 Consensus size: 34
1818793 CAATTTTTTA
1818803 AAAAATAAATAAAAATGCAATAAAAATA-AAT-T
1 AAAAATAAATAAAAATGCAATAAAAATATAATGT
* *
1818835 AAAAATGAAT-AAAATTCAATAAAAATATAATGT
1 AAAAATAAATAAAAATGCAATAAAAATATAATGT
*
1818868 AAAGATAAA
1 AAAAATAAA
1818877 AATATCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 16 0.44
32 12 0.33
33 8 0.22
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (34 bp):
AAAAATAAATAAAAATGCAATAAAAATATAATGT
Found at i:1819316 original size:29 final size:31
Alignment explanation
Indices: 1819250--1819321 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 31
1819240 TTATTATTCA
1819250 TTAATTATTATTTTTAACAACAATTAATAATG
1 TTAA-TATTATTTTTAACAACAATTAATAATG
*
1819282 TT--TATTCATTTTTAATAA-AATTAA-AAT-
1 TTAATATT-ATTTTTAACAACAATTAATAATG
1819309 TTAATATTTATTT
1 TTAATA-TTATTT
1819322 AATATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
27 2 0.06
28 3 0.09
29 16 0.46
30 12 0.34
32 2 0.06
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (31 bp):
TTAATATTATTTTTAACAACAATTAATAATG
Found at i:1819407 original size:31 final size:30
Alignment explanation
Indices: 1819372--1819439 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
1819362 AAGAGGTGAT
*
1819372 ATTTTTT-AGTTTTACATTATATTTTTATTGA
1 ATTTTTTCAGTTTTA-ATT-CATTTTTATTGA
* *
1819403 ATTTTATTCATTTTTAATTCATTTTTATTGC
1 ATTTT-TTCAGTTTTAATTCATTTTTATTGA
1819434 ATTTTT
1 ATTTTT
1819440 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.03
31 20 0.62
32 5 0.16
33 6 0.19
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.66
Consensus pattern (30 bp):
ATTTTTTCAGTTTTAATTCATTTTTATTGA
Found at i:1819447 original size:21 final size:20
Alignment explanation
Indices: 1819392--1819449 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
1819382 TTTACATTAT
* *
1819392 ATTTTTATTGAATTTTATTC
1 ATTTTTATTCATTTTTATTC
1819412 ATTTTTAATTCATTTTTATTGC
1 ATTTTT-ATTCATTTTTATT-C
*
1819434 ATTTTTATTTATTTTT
1 ATTTTTATTCATTTTT
1819450 TAAAAAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.18
21 20 0.61
22 7 0.21
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTTTTATTCATTTTTATTC
Found at i:1819451 original size:11 final size:10
Alignment explanation
Indices: 1819392--1819449 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
1819382 TTTACATTAT
*
1819392 ATTTTTATTG
1 ATTTTTATTC
*
1819402 AATTTTATTC
1 ATTTTTATTC
1819412 ATTTTTAATTC
1 ATTTTT-ATTC
1819423 ATTTTTATTGC
1 ATTTTTATT-C
*
1819434 ATTTTTATTT
1 ATTTTTATTC
1819444 ATTTTT
1 ATTTTT
1819450 TAAAAAAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 22 0.52
11 20 0.48
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:1826523 original size:22 final size:22
Alignment explanation
Indices: 1826497--1826567 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
1826487 CCACAGCTCG
*
1826497 TAATTTGCACCAAAGTGCCATA
1 TAATTTGCACCAAAGTGCCACA
*
1826519 TAA-TTGTC-CCCAAG-GACCACA
1 TAATTTG-CACCAAAGTG-CCACA
*
1826540 TAGGTTTGCACCAAAGTGCCACA
1 TA-ATTTGCACCAAAGTGCCACA
1826563 TAATT
1 TAATT
1826568 ATCCCGAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 1 0.03
21 14 0.37
22 7 0.18
23 15 0.39
24 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (22 bp):
TAATTTGCACCAAAGTGCCACA
Found at i:1826553 original size:44 final size:44
Alignment explanation
Indices: 1826500--1826585 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
1826490 CAGCTCGTAA
* *
1826500 TTTGCACCAAAGTGCCATATAATTGTCCCCAAGGACCACATAGG
1 TTTGCACCAAAGTGCCACATAATTATCCCCAAGGACCACATAGG
*
1826544 TTTGCACCAAAGTGCCACATAATTATCCCGAAGGACCACATA
1 TTTGCACCAAAGTGCCACATAATTATCCCCAAGGACCACATA
1826586 AAACCCTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (44 bp):
TTTGCACCAAAGTGCCACATAATTATCCCCAAGGACCACATAGG
Found at i:1828857 original size:18 final size:18
Alignment explanation
Indices: 1828834--1828874 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1828824 CTTAGAGTGT
1828834 TGAAGATGACTCCAATAA
1 TGAAGATGACTCCAATAA
*
1828852 TGAAGATGACTCCAATGA
1 TGAAGATGACTCCAATAA
1828870 TGAAG
1 TGAAG
1828875 TTGAAGTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (18 bp):
TGAAGATGACTCCAATAA
Done.