Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 32 of 198
Found at i:9287634 original size:29 final size:29
Alignment explanation
Indices: 9287602--9287689 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
9287592 CGCATACTAG
* *
9287602 ACACATTTAGGGTTAGCACATATGGGTTC
1 ACACATATAGGATTAGCACATATGGGTTC
* * *
9287631 ACACATCTAGGTTTCA-AACATATGGGTTC
1 ACACATATAGGATT-AGCACATATGGGTTC
*
9287660 GCACATATAGGATCT-GCACATATAGGGTTC
1 ACACATATAGGAT-TAGCACATAT-GGGTTC
9287690 GTATACTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
29 40 0.83
30 8 0.17
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (29 bp):
ACACATATAGGATTAGCACATATGGGTTC
Found at i:9287635 original size:14 final size:14
Alignment explanation
Indices: 9287618--9287667 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
9287608 TTAGGGTTAG
9287618 CACATATGGGTTCA
1 CACATATGGGTTCA
* *
9287632 CACATCTAGGTTTCA
1 CACATAT-GGGTTCA
* *
9287647 AACATATGGGTTCG
1 CACATATGGGTTCA
9287661 CACATAT
1 CACATAT
9287668 AGGATCTGCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (14 bp):
CACATATGGGTTCA
Found at i:9287704 original size:23 final size:24
Alignment explanation
Indices: 9287678--9287739 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
9287668 AGGATCTGCA
*
9287678 CATATAGGGTTCGTATACTAAAT-
1 CATATAGGGTTCGCATACTAAATC
* * *
9287701 CATATGGGGTTTGCATACTGAATC
1 CATATAGGGTTCGCATACTAAATC
*
9287725 CATA-AGGGTTTGCAT
1 CATATAGGGTTCGCAT
9287740 GTAGGTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 29 0.88
24 4 0.12
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (24 bp):
CATATAGGGTTCGCATACTAAATC
Found at i:9287838 original size:34 final size:33
Alignment explanation
Indices: 9287799--9288094 Score: 349
Period size: 34 Copynumber: 8.7 Consensus size: 33
9287789 AATCATATAT
** *
9287799 TATATAATTTGGGAGTTCGCATACTACATCATAC
1 TATATAACATGGG-GTTCGCATACTACGTCATAC
* * * *
9287833 TATATAACATAGAGGTTCACATACCACGTCATGC
1 TATATAACAT-GGGGTTCGCATACTACGTCATAC
*
9287867 TATATAACATGGGGGTTCGCATACTACGCCATAC
1 TATATAACAT-GGGGTTCGCATACTACGTCATAC
*
9287901 TATATAACATGGGAGTTCGCATACTACGTCATAT
1 TATATAACATGGG-GTTCGCATACTACGTCATAC
* *
9287935 TATATAACATAAGGGTTCACATACTACGTCATAC
1 TATATAACAT-GGGGTTCGCATACTACGTCATAC
* *
9287969 TATATAACATGAGGGTTCGCATACTACATCATAG
1 TATATAACATG-GGGTTCGCATACTACGTCATAC
* * *
9288003 TATATAACATGGGGGTTTGCATGCTATGTCATAC
1 TATATAACAT-GGGGTTCGCATACTACGTCATAC
9288037 TATATAACATGGGGATTCGCATACTACGTCATAC
1 TATATAACATGGGG-TTCGCATACTACGTCATAC
*
9288071 CATATAACATAAGGGGTTCGCATA
1 TATATAACAT--GGGGTTCGCATA
9288095 TATAAGACTT
Statistics
Matches: 223, Mismatches: 31, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
33 7 0.03
34 199 0.89
35 13 0.06
36 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (33 bp):
TATATAACATGGGGTTCGCATACTACGTCATAC
Found at i:9287920 original size:102 final size:102
Alignment explanation
Indices: 9287799--9288094 Score: 389
Period size: 102 Copynumber: 2.9 Consensus size: 102
9287789 AATCATATAT
** * *
9287799 TATATAATTTGGGAGTTCGCATACTACATCATACTATATAACATAGAGGTTCACATACCACGTCA
1 TATATAACATGGGAGTTCGCATACTACGTCATACTATATAACATAGAGGTTCACATACTACGTCA
* *
9287864 TGCTATATAACATGGGGGTTCGCATACTACGCCATAC
66 TACTATATAACATGGGGGTTCGCATACTACACCATAC
*
9287901 TATATAACATGGGAGTTCGCATACTACGTCATATTATATAACATA-AGGGTTCACATACTACGTC
1 TATATAACATGGGAGTTCGCATACTACGTCATACTATATAACATAGA-GGTTCACATACTACGTC
* * *
9287965 ATACTATATAACATGAGGGTTCGCATACTACATCATAG
65 ATACTATATAACATGGGGGTTCGCATACTACACCATAC
* * * * * *
9288003 TATATAACATGGGGGTTTGCATGCTATGTCATACTATATAACAT-GGGGATTCGCATACTACGTC
1 TATATAACATGGGAGTTCGCATACTACGTCATACTATATAACATAGAGG-TTCACATACTACGTC
* *
9288067 ATACCATATAACATAAGGGGTTCGCATA
65 ATACTATATAACAT-GGGGGTTCGCATA
9288095 TATAAGACTT
Statistics
Matches: 170, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
101 3 0.02
102 156 0.92
103 11 0.06
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (102 bp):
TATATAACATGGGAGTTCGCATACTACGTCATACTATATAACATAGAGGTTCACATACTACGTCA
TACTATATAACATGGGGGTTCGCATACTACACCATAC
Found at i:9289583 original size:15 final size:15
Alignment explanation
Indices: 9289565--9289597 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9289555 AGATTATATC
9289565 AAATTAAAATATAAT
1 AAATTAAAATATAAT
*
9289580 AAATTTAAATATAAT
1 AAATTAAAATATAAT
9289595 AAA
1 AAA
9289598 AAGACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAAAATATAAT
Found at i:9289852 original size:22 final size:23
Alignment explanation
Indices: 9289827--9289870 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
9289817 GAAACATTAT
9289827 TTTTTTTGA-ATATTAT-AAAATA
1 TTTTTTT-ATATATTATGAAAATA
9289849 TTTTTTTATATATTATGAAAAT
1 TTTTTTTATATATTATGAAAAT
9289871 GTTATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.05
22 14 0.70
23 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTTTTATATATTATGAAAATA
Found at i:9289965 original size:20 final size:20
Alignment explanation
Indices: 9289942--9289984 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
9289932 TGAAAAATAT
*
9289942 GAAATTATTATAAAATT-TTA
1 GAAATTA-TAGAAAATTATTA
9289962 GAAATTATAGAAAATTATTA
1 GAAATTATAGAAAATTATTA
9289982 GAA
1 GAA
9289985 GTGGTTGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (20 bp):
GAAATTATAGAAAATTATTA
Found at i:9289978 original size:10 final size:11
Alignment explanation
Indices: 9289943--9289984 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
9289933 GAAAAATATG
*
9289943 AAATTATTATA
1 AAATTATTAGA
9289954 AAATT-TTAG-
1 AAATTATTAGA
9289963 AAATTA-TAGA
1 AAATTATTAGA
9289973 AAATTATTAGA
1 AAATTATTAGA
9289984 A
1 A
9289985 GTGGTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 8 0.30
10 9 0.33
11 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (11 bp):
AAATTATTAGA
Found at i:9290021 original size:19 final size:19
Alignment explanation
Indices: 9289997--9290037 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
9289987 GGTTGAGTGC
*
9289997 AATGTGAAATGTGATTGAA
1 AATGTGAAATGTGATAGAA
9290016 AATGTGAAATGTGATAGAA
1 AATGTGAAATGTGATAGAA
9290035 AAT
1 AAT
9290038 TATGAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
AATGTGAAATGTGATAGAA
Found at i:9298972 original size:23 final size:22
Alignment explanation
Indices: 9298936--9298980 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9298926 AGTTATTCTG
*
9298936 TAAAATAAATTGTACGTAATTTT
1 TAAAATAAATTGTAAGT-ATTTT
9298959 TAAAATAACA-TGTAAGTATTTT
1 TAAAATAA-ATTGTAAGTATTTT
9298981 GCTAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
TAAAATAAATTGTAAGTATTTT
Found at i:9302880 original size:2 final size:2
Alignment explanation
Indices: 9302873--9302897 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9302863 GAGATCCTTT
9302873 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9302898 TTGGGGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9303355 original size:11 final size:10
Alignment explanation
Indices: 9303339--9303396 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 10
9303329 AAAATAGTGA
9303339 AAAAAATAAC
1 AAAAAATAAC
**
9303349 AAGAAAATAGT
1 AA-AAAATAAC
*
9303360 AATAAAATAAT
1 AA-AAAATAAC
*
9303371 AAAAAACAAC
1 AAAAAATAAC
9303381 AAAAAATAA-
1 AAAAAATAAC
9303390 AAAAAAT
1 AAAAAAT
9303397 CAATTTCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.17
10 16 0.40
11 17 0.43
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (10 bp):
AAAAAATAAC
Found at i:9306811 original size:2 final size:2
Alignment explanation
Indices: 9306804--9306838 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9306794 ATGGTTCTCC
9306804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9306839 AGTATTTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9309533 original size:17 final size:18
Alignment explanation
Indices: 9309493--9309533 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
9309483 TTGTAACGAG
9309493 AAAATTGATAATTTTTAA
1 AAAATTGATAATTTTTAA
*
9309511 ATAATT-AT-ATTTTTAGA
1 AAAATTGATAATTTTTA-A
9309528 AAAATT
1 AAAATT
9309534 TGGTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
AAAATTGATAATTTTTAA
Found at i:9310289 original size:40 final size:39
Alignment explanation
Indices: 9310245--9310456 Score: 99
Period size: 40 Copynumber: 5.3 Consensus size: 39
9310235 TGGTACATTT
9310245 TCATATTTTTTTATACTTCCTCATTTTTTTTGGTATTCCC
1 TCATA-TTTTTTATACTTCCTCATTTTTTTTGGTATTCCC
* * *
9310285 TCATAATTTTTAGTACATT-CTCA-TGTTTTTGGCACTT-CC
1 TCATATTTTTTA-TAC-TTCCTCATTTTTTTTGGTA-TTCCC
* ** ** * **
9310324 TCATAATTGTTGGTA-TTCCCTCATAATTTTTGATATTTTC
1 TCAT-ATTTTTTATACTT-CCTCATTTTTTTTGGTATTCCC
* * * * *
9310364 TAAGAATTTTTAGTACTTCCTCGTGTTCTTTTTTGTATTCCC
1 TCATATTTTTTA-TACTTCCTCAT-TT-TTTTTGGTATTCCC
* * * * **
9310406 TCATAATTTCTTGTACTTCCTCATATTTTTTGATACACCC
1 TCAT-ATTTTTTATACTTCCTCATTTTTTTTGGTATTCCC
9310446 TCATTATTTTT
1 TCA-TATTTTT
9310457 GGTAATCCCT
Statistics
Matches: 121, Mismatches: 37, Indels: 28
0.65 0.20 0.15
Matches are distributed among these distances:
37 2 0.02
39 33 0.27
40 53 0.44
41 6 0.05
42 22 0.18
43 5 0.04
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.53
Consensus pattern (39 bp):
TCATATTTTTTATACTTCCTCATTTTTTTTGGTATTCCC
Found at i:9310294 original size:20 final size:20
Alignment explanation
Indices: 9310271--9310469 Score: 97
Period size: 20 Copynumber: 9.9 Consensus size: 20
9310261 TTCCTCATTT
9310271 TTTTTGGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
* *
9310291 TTTTTAGTACATT--CTCAT-G
1 TTTTTGGT--ATTCCCTCATAA
*
9310310 TTTTTGGCACTT-CCTCATAA
1 TTTTTGGTA-TTCCCTCATAA
*
9310330 TTGTTGGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
* ** * *
9310350 TTTTTGATATTTTCTAAGAA
1 TTTTTGGTATTCCCTCATAA
* * **
9310370 TTTTTAGTACTT-CCTCGTGTTC
1 TTTTTGGTA-TTCCCTC--ATAA
*
9310392 TTTTTTGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
*
9310412 TTTCTT-GTACTT-CCTCATAT
1 TTT-TTGGTA-TTCCCTCATAA
* ** *
9310432 TTTTTGATACACCCTCATTA
1 TTTTTGGTATTCCCTCATAA
*
9310452 TTTTTGGTAATCCCTCAT
1 TTTTTGGTATTCCCTCAT
9310470 GCTTTTTTTT
Statistics
Matches: 131, Mismatches: 34, Indels: 28
0.68 0.18 0.15
Matches are distributed among these distances:
17 1 0.01
18 2 0.02
19 15 0.11
20 90 0.69
21 8 0.06
22 15 0.11
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (20 bp):
TTTTTGGTATTCCCTCATAA
Found at i:9310908 original size:21 final size:19
Alignment explanation
Indices: 9310882--9310950 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 19
9310872 TGGTATCCCC
9310882 TCATATTTTTTCGATACTTCT
1 TCATATTTTTT-G-TACTTCT
*
9310903 TCATATTTTTTGGTA-TTCCC
1 TCATATTTTTT-GTACTT-CT
9310923 TCATAATTTTTTGTACTTCT
1 TCAT-ATTTTTTGTACTTCT
9310943 TCATATTT
1 TCATATTT
9310951 ATTGGCATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.14
20 15 0.36
21 21 0.50
ACGTcount: A:0.19, C:0.17, G:0.06, T:0.58
Consensus pattern (19 bp):
TCATATTTTTTGTACTTCT
Found at i:9310926 original size:20 final size:20
Alignment explanation
Indices: 9310871--9310981 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
9310861 CAAACCAAAC
*
9310871 TTGGTATCCCCTCATATTTT
1 TTGGTATTCCCTCATATTTT
* *
9310891 TTCGATACTT-CTTCATATTTT
1 TT-GGTA-TTCCCTCATATTTT
9310912 TTGGTATTCCCTCATAATTTT
1 TTGGTATTCCCTCAT-ATTTT
* *
9310933 TT-GTACTT-CTTCATATTTA
1 TTGGTA-TTCCCTCATATTTT
* * * * *
9310952 TTGGCATTCTCTTAGAATTT
1 TTGGTATTCCCTCATATTTT
9310972 TTGGTATTCC
1 TTGGTATTCC
9310982 TTTGTTATAT
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
19 10 0.15
20 33 0.49
21 24 0.35
22 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGGTATTCCCTCATATTTT
Found at i:9310971 original size:40 final size:42
Alignment explanation
Indices: 9310886--9310973 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 42
9310876 ATCCCCTCAT
* * *
9310886 ATTTTTTCGATACTTCTTCATATTTTTTGGTATTCCCTCATA
1 ATTTTTTCGATACTTCTTCATATTTATTGGCATTCCCTCAGA
* *
9310928 ATTTTTT-G-TACTTCTTCATATTTATTGGCATTCTCTTAGA
1 ATTTTTTCGATACTTCTTCATATTTATTGGCATTCCCTCAGA
9310968 ATTTTT
1 ATTTTT
9310974 GGTATTCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 33 0.80
41 1 0.02
42 7 0.17
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.57
Consensus pattern (42 bp):
ATTTTTTCGATACTTCTTCATATTTATTGGCATTCCCTCAGA
Found at i:9314116 original size:20 final size:20
Alignment explanation
Indices: 9314091--9314131 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9314081 TATTCTTGAG
*
9314091 TAGTTTTAATGTATTTTTCA
1 TAGTTTTAATGTAATTTTCA
* *
9314111 TAGTTTTCATTTAATTTTCA
1 TAGTTTTAATGTAATTTTCA
9314131 T
1 T
9314132 TTTTTAGCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.61
Consensus pattern (20 bp):
TAGTTTTAATGTAATTTTCA
Found at i:9317100 original size:13 final size:13
Alignment explanation
Indices: 9317082--9317111 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9317072 GTCAAAACCC
9317082 GTTTTTCAAAATA
1 GTTTTTCAAAATA
*
9317095 GTTTTTCAAAATC
1 GTTTTTCAAAATA
9317108 GTTT
1 GTTT
9317112 GTTCTTCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (13 bp):
GTTTTTCAAAATA
Found at i:9317492 original size:18 final size:18
Alignment explanation
Indices: 9317440--9317492 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
9317430 CACGGAGGAA
* *
9317440 GAAGATGAAGATGAAGAT
1 GAAGATGAAGATGGAGGT
* ** *
9317458 GAAGACGGGGATCGAGGT
1 GAAGATGAAGATGGAGGT
9317476 GAAGATGAAGATGGAGG
1 GAAGATGAAGATGGAGG
9317493 AAGGAGCCGG
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.43, T:0.13
Consensus pattern (18 bp):
GAAGATGAAGATGGAGGT
Found at i:9317747 original size:11 final size:11
Alignment explanation
Indices: 9317731--9317763 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9317721 TAATTTTTTA
9317731 TAATAATAATT
1 TAATAATAATT
9317742 TAATAATAATT
1 TAATAATAATT
*
9317753 TTATAA-AATT
1 TAATAATAATT
9317763 T
1 T
9317764 TAAAGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATAATAATT
Found at i:9323692 original size:35 final size:36
Alignment explanation
Indices: 9323613--9323694 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
9323603 TAAACATACA
* * *
9323613 AGTTCTTTTCTGTTTTGCTCTGCTCCATTCCGTTCT
1 AGTTCTGTTCTGTCTTGCTCTGCTCCATTCCATTCT
* * *
9323649 A-CTATGTTCTGTCTTGCTCTGCTCCATTCTATT-T
1 AGTTCTGTTCTGTCTTGCTCTGCTCCATTCCATTCT
9323683 AGTTCTGTTCTG
1 AGTTCTGTTCTG
9323695 CTATGTACCT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.05
35 34 0.92
36 1 0.03
ACGTcount: A:0.09, C:0.26, G:0.15, T:0.51
Consensus pattern (36 bp):
AGTTCTGTTCTGTCTTGCTCTGCTCCATTCCATTCT
Found at i:9324962 original size:21 final size:22
Alignment explanation
Indices: 9324931--9324984 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
9324921 AGAACACGTC
*
9324931 AACAAAAGCTCGA-GAGAGCTG
1 AACAGAAGCTCGATGAGAGCTG
*
9324952 AATAGAAGCTC-ATGAGAGCTG
1 AACAGAAGCTCGATGAGAGCTG
9324973 AACAGAAGCTCG
1 AACAGAAGCTCG
9324985 TAAAAGCTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (22 bp):
AACAGAAGCTCGATGAGAGCTG
Found at i:9324992 original size:21 final size:21
Alignment explanation
Indices: 9324947--9324994 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
9324937 AGCTCGAGAG
* * *
9324947 AGCTGAATAGAAGCTCATGAG
1 AGCTGAACAGAAGCTCATAAA
*
9324968 AGCTGAACAGAAGCTCGTAAA
1 AGCTGAACAGAAGCTCATAAA
9324989 AGCTGA
1 AGCTGA
9324995 TCCACCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAA
Found at i:9331013 original size:15 final size:16
Alignment explanation
Indices: 9330993--9331024 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9330983 TAGCTTTGAT
9330993 ACCACTAAATGT-AAC
1 ACCACTAAATGTCAAC
9331008 ACCACTAAATGTCAAC
1 ACCACTAAATGTCAAC
9331024 A
1 A
9331025 AACGGAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.28, G:0.06, T:0.19
Consensus pattern (16 bp):
ACCACTAAATGTCAAC
Found at i:9337212 original size:3 final size:3
Alignment explanation
Indices: 9337204--9337240 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9337194 AGAATAGTAT
9337204 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9337241 ATTTGATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9339769 original size:3 final size:3
Alignment explanation
Indices: 9339761--9339830 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
9339751 TAAATACCGG
* **
9339761 AAT AAT AAT AAG AAT AGC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9339809 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
9339831 GACAAGTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9345954 original size:27 final size:25
Alignment explanation
Indices: 9345924--9345977 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
9345914 AACTTTGGTC
9345924 AAATATAAGTATCAAATTAGACAAAAA
1 AAATATAAGTATCAAATTA-A-AAAAA
*
9345951 AAATATAAGTATCACATTAAAAAAA
1 AAATATAAGTATCAAATTAAAAAAA
9345976 AA
1 AA
9345978 GTGTCAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 7 0.27
26 1 0.04
27 18 0.69
ACGTcount: A:0.65, C:0.07, G:0.06, T:0.22
Consensus pattern (25 bp):
AAATATAAGTATCAAATTAAAAAAA
Found at i:9346787 original size:81 final size:81
Alignment explanation
Indices: 9346675--9348013 Score: 1326
Period size: 81 Copynumber: 16.6 Consensus size: 81
9346665 TCCATCGCCG
** * * * *** * * *
9346675 TCTTACATTAAACGCCTTGAAAGCAAGTACAAACCTGGTTACATAATGGATGAAGAAGAGGACAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
9346740 GAGTTCTTCCTCGTCT
66 GAGTTCTTCCTCATCT
* * * * *
9346756 TCTTACATTTTACGCCTTGAAAGCAAATACAAACCAGGTTATGTAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
9346821 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* * * * * *
9346837 TCTTACCTTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAGTAGATGAAGA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
9346902 GAATTCTTGTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * *
9346920 TCGT--ATTGCTCGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
9346983 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* * **
9346999 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAATAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
9347064 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * ** * * *
9347082 TCGT--ATTGCACGCCTTGAGAGCAAATACAAACCCAGTTATGTAGTGGATGGAGCAGACGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
9347145 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* * * **
9347161 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTAGATGAAATAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
9347226 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * ** * *
9347244 TCGT--ATTGCACGCCTTGAGAGCAAATACAAACCCAGTTATGTAGTGGATGGAGCAGAGG-AAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
9347306 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* * * *
9347322 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGAGTTATGGAGTGGATGAAGTAGAGGAAGA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
9347387 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * *
9347405 TCGT--ATTGCACGCCTTGAGAGCAACTACAAGCCGGGTTATGGAGTGGAT-AGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGA-AGCAGAGGAAA
9347467 AGAGTTCTTCCTCATCT
65 AGAGTTCTTCCTCATCT
* * * *
9347484 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGAGTTATGGAGTGGATGAAGTAGAGGAAGA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
*
9347549 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * *
9347567 TCGT--ATTGCACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
9347630 G-GTTTCTTCCTCATCT
66 GAG-TTCTTCCTCATCT
* * ** * * * *
9347646 TCTTACATTTCACGTCTTGAAAGTAGGTACAAGCCGAGTTATGGAGTGGATGAAGTAGACGAAGA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
* * *
9347711 GAATTCTT-CTCCCTCA
66 GAGTTCTTCCT-CATCT
* * * * *
9347727 TCTCATATTGT-ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAAGAAA
1 TCTTACATT-TCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAA
9347791 AGAGTTCTTCCTCATCT
65 AGAGTTCTTCCTCATCT
* * * * *
9347808 TCTTACATTTTACGTCTTGAAAGTAAATACAAGCCGGCTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
* *
9347873 GAATTATTCTCCCTCATC-
66 G-A--GTTCTTCCTCATCT
* * * * * * *
9347891 TCGT--ATTGCACACCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
9347954 GAGTTCTTCCTCA---
66 GAGTTCTTCCTCATCT
** *
9347967 TCTTATGTTTCACGCCTTGAAAGCAAATATAAGCCGGGTTATGGAGT
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGT
9348014 TGACAAAGAT
Statistics
Matches: 1033, Mismatches: 181, Indels: 91
0.79 0.14 0.07
Matches are distributed among these distances:
76 3 0.00
77 7 0.01
78 75 0.07
79 17 0.02
80 64 0.06
81 788 0.76
82 10 0.01
83 23 0.02
84 46 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (81 bp):
TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGCAGAGGAAAA
GAGTTCTTCCTCATCT
Found at i:9346936 original size:162 final size:162
Alignment explanation
Indices: 9346767--9348013 Score: 1995
Period size: 162 Copynumber: 7.7 Consensus size: 162
9346757 CTTACATTTT
* * *
9346767 ACGCCTTGAAAGCAAATACAAACCAGGTTATGTAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* * *
9346832 CATCTTCTTACCTTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAGTAGAT
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
*
9346897 GAAGAGAATTCTTGTCCCTCATCTCGTATTGC
131 GAAGAGAATTCTTCTCCCTCATCTCGTATTGC
* *
9346929 TCGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* *
9346994 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAATAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
*
9347059 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAGAGAATTCTTCTCCCTCATCTCGTATTGC
* * *
9347091 ACGCCTTGAGAGCAAATACAAACCCA-GTTATGTAGTGGATGGAGCAGACGAAAAGAGTTCTTCC
1 ACGCCTTGAGAGCAAATAC-AAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCC
* * *
9347155 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTAGATGAAATAGA
65 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGA
*
9347220 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
130 GGAAGAGAATTCTTCTCCCTCATCTCGTATTGC
* *
9347253 ACGCCTTGAGAGCAAATACAAACCCA-GTTATGTAGTGGATGGAGCAGAGG-AAAGAGTTCTTCC
1 ACGCCTTGAGAGCAAATAC-AAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCC
*
9347316 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGAGTTATGGAGTGGATGAAGTAGA
65 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGA
9347381 GGAAGAGAATTCTTCTCCCTCATCTCGTATTGC
130 GGAAGAGAATTCTTCTCCCTCATCTCGTATTGC
* * *
9347414 ACGCCTTGAGAGCAACTACAAGCCGGGTTATGGAGTGGATAGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
*
9347479 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGAGTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
9347544 GAAGAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAGAGAATTCTTCTCCCTCATCTCGTATTGC
*
9347576 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAG-GTTTCTTCC
1 ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAG-TTCTTCC
* ** *
9347640 TCATCTTCTTACATTTCACGTCTTGAAAGTAGGTACAAGCCGAGTTATGGAGTGGATGAAGTAGA
65 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGA
* * *
9347705 CGAAGAGAATTCTTCTCCCTCATCTCATATTGT
130 GGAAGAGAATTCTTCTCCCTCATCTCGTATTGC
* *
9347738 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAAGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* * *
9347803 CATCTTCTTACATTTTACGTCTTGAAAGTAAATACAAGCCGGCTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
* *
9347868 GAAAAGAATTATTCTCCCTCATCTCGTATTGC
131 GAAGAGAATTCTTCTCCCTCATCTCGTATTGC
* *
9347900 ACACCTTGAGAGCAAGTACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
** * *
9347965 CA---TCTTATGTTTCACGCCTTGAAAGCAAATATAAGCCGGGTTATGGAGT
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGT
9348014 TGACAAAGAT
Statistics
Matches: 1023, Mismatches: 57, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
159 40 0.04
160 4 0.00
161 147 0.14
162 827 0.81
163 5 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (162 bp):
ACGCCTTGAGAGCAAATACAAGCCAGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
GAAGAGAATTCTTCTCCCTCATCTCGTATTGC
Found at i:9348824 original size:47 final size:47
Alignment explanation
Indices: 9348755--9348846 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
9348745 GTCATGGTGT
9348755 TTGGATTCAGGCCTCCACTATTGCAGCCATTTAAGACGTAGCTTTAC
1 TTGGATTCAGGCCTCCACTATTGCAGCCATTTAAGACGTAGCTTTAC
*
9348802 TTGGATTCAGGCCTCCACTATTGTAGCCATTTAAGACGTAGCTTT
1 TTGGATTCAGGCCTCCACTATTGCAGCCATTTAAGACGTAGCTTT
9348847 TGCCGTCACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (47 bp):
TTGGATTCAGGCCTCCACTATTGCAGCCATTTAAGACGTAGCTTTAC
Found at i:9353513 original size:325 final size:326
Alignment explanation
Indices: 9352922--9353565 Score: 1245
Period size: 325 Copynumber: 2.0 Consensus size: 326
9352912 AATTCTGCAG
9352922 AAAAATCATATATCATCTCACCATAAATATAGGCATTAGGTGGTCTTTCAGATATTTTGATACAT
1 AAAAATCATATATCATCTCACCATAAATATAGGCATTAGGTGGTCTTTCAGATATTTTGATACAT
9352987 GCCAATCTCTTAAATGTCAGCCCTTAATAATTTTTCTAGGTTCGATGCCGACATTTCATATAGTT
66 GCCAATCTCTTAAATGTCAGCCCTTAATAATTTTTCTAGGTTCGATGCCGACATTTCATATAGTT
*
9353052 ATAAACTCTTATAATGTATAAATCTCACACTAAGCCAATATATATTGACTGTTTTGATGTTGTTA
131 ATAAACTCTTATAATGTATAAATCTCACACTAAGCCAATATATATTGACTGTTCTGATGTTGTTA
*
9353117 TCAACAAATTTGGAGCCATTGGCTTCATTCAATTTAGAATTCCCTAAATCTGCAGACCTAGGGCA
196 TCAACAAATTTGGAGCCATAGGCTTCATTCAATTTAGAATTCCCTAAATCTGCAGACCTAGGGCA
9353182 AGGTTAACATTGCACAAGGTTCTGCCAGAAACTTCTAAAGCAGTAACGTGACTCTTTATTTACTA
261 AGGTTAACATTGCACAAGGTTCTGCCAGAAACTTCTAAAGCAGTAACGTGACTCTTTATTTACTA
9353247 T
326 T
9353248 AAAAATCATATATCATCTCACCATAAATATAGGCATTAGGTGGTCTTTCAGATATTTTGATACAT
1 AAAAATCATATATCATCTCACCATAAATATAGGCATTAGGTGGTCTTTCAGATATTTTGATACAT
*
9353313 GCCAATCTCTTAAATGTCAGCCTTTAAT-ATTTTTCTAGGTTCGATGCCGACATTTCATATAGTT
66 GCCAATCTCTTAAATGTCAGCCCTTAATAATTTTTCTAGGTTCGATGCCGACATTTCATATAGTT
9353377 ATAAACTCTTATAATGTATAAATCTCACACTAAGCCAATATATATTGACTGTTCTGATGTTGTTA
131 ATAAACTCTTATAATGTATAAATCTCACACTAAGCCAATATATATTGACTGTTCTGATGTTGTTA
9353442 TCAACAAATTTGGAGCCATAGGCTTCATTCAATTTAGAATTCCCTAAATCTGCAGACCTAGGGCA
196 TCAACAAATTTGGAGCCATAGGCTTCATTCAATTTAGAATTCCCTAAATCTGCAGACCTAGGGCA
*
9353507 AGGTTAACATTGCACAAGGTTCTGCTAGAAACTTCTAAAGCAGTAACGTGACTCTTTAT
261 AGGTTAACATTGCACAAGGTTCTGCCAGAAACTTCTAAAGCAGTAACGTGACTCTTTAT
9353566 CAACAACACA
Statistics
Matches: 314, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
325 222 0.71
326 92 0.29
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (326 bp):
AAAAATCATATATCATCTCACCATAAATATAGGCATTAGGTGGTCTTTCAGATATTTTGATACAT
GCCAATCTCTTAAATGTCAGCCCTTAATAATTTTTCTAGGTTCGATGCCGACATTTCATATAGTT
ATAAACTCTTATAATGTATAAATCTCACACTAAGCCAATATATATTGACTGTTCTGATGTTGTTA
TCAACAAATTTGGAGCCATAGGCTTCATTCAATTTAGAATTCCCTAAATCTGCAGACCTAGGGCA
AGGTTAACATTGCACAAGGTTCTGCCAGAAACTTCTAAAGCAGTAACGTGACTCTTTATTTACTA
T
Found at i:9357797 original size:99 final size:98
Alignment explanation
Indices: 9357617--9357910 Score: 489
Period size: 99 Copynumber: 3.0 Consensus size: 98
9357607 CCATTCTTCA
* * * *
9357617 CCAGAAACTTGGGTGGTCTCCCACGCTTGCGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTACTCTGCACATCC
9357682 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
66 TTCACTTCAC-ATGAGACTGATCATTCCCCTTAT
9357716 CCAGCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTACTCTGCACATCC
9357781 TTCACTTCACACTGAGACTGATCATTCCCCTTAT
66 TTCACTTCACA-TGAGACTGATCATTCCCCTTAT
* *
9357815 CCAGCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTTCTCTGCACATCA
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTACTCTGCACATCC
* *
9357880 TTCACTTCAGTATGAGACAGATCATTCCCCT
66 TTCACTTCA-CATGAGACTGATCATTCCCCT
9357911 CCTTAACCAC
Statistics
Matches: 185, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
98 1 0.01
99 183 0.99
100 1 0.01
ACGTcount: A:0.19, C:0.37, G:0.13, T:0.30
Consensus pattern (98 bp):
CCAGCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTACTCTGCACATCC
TTCACTTCACATGAGACTGATCATTCCCCTTAT
Found at i:9377560 original size:5 final size:5
Alignment explanation
Indices: 9377551--9377590 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
9377541 TTTATAAAGC
* *
9377551 TTATA ATATA TTATA ATATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
9377591 AAGTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:9381536 original size:20 final size:20
Alignment explanation
Indices: 9381513--9381552 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9381503 TTAATTAACA
*
9381513 TAATTAACCTTACTTTAATT
1 TAATAAACCTTACTTTAATT
* *
9381533 TAATAAACTTTATTTTAATT
1 TAATAAACCTTACTTTAATT
9381553 AAGCTATTAA
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:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAACCTTACTTTAATT
Found at i:9396391 original size:22 final size:22
Alignment explanation
Indices: 9396366--9396430 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
9396356 ACAAATCCCA
*
9396366 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
9396388 TCTCAAATTCCTTAAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
9396410 TCTTAATTTCCTTCCAAAATT
1 TCTCAATTTCCTTCAAAAATT
9396431 ATCTTAAACT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:9396469 original size:21 final size:20
Alignment explanation
Indices: 9396441--9396479 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9396431 ATCTTAAACT
9396441 CTCAAA-TTCCTTTCAAAATC
1 CTCAAATTTCC-TTCAAAATC
9396461 CTCACAATTTCCTTCAAAA
1 CTCA-AATTTCCTTCAAAA
9396480 AATCTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (20 bp):
CTCAAATTTCCTTCAAAATC
Found at i:9396583 original size:30 final size:30
Alignment explanation
Indices: 9396524--9396580 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
9396514 TTCAATTTCA
9396524 TTTTTTTAAGAAAATTTTAAATATTTTTAT
1 TTTTTTTAAGAAAATTTTAAATATTTTTAT
9396554 TTTTTTTAA-AATAATTTTAAA-ATTTTT
1 TTTTTTTAAGAA-AATTTTAAATATTTTT
9396581 TATATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTTTAAGAAAATTTTAAATATTTTTAT
Found at i:9396708 original size:14 final size:15
Alignment explanation
Indices: 9396679--9396712 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9396669 AAATTTTAAA
9396679 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
9396694 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
9396708 TTTTA
1 TTTTA
9396713 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:9398592 original size:29 final size:29
Alignment explanation
Indices: 9398532--9399501 Score: 1273
Period size: 29 Copynumber: 32.8 Consensus size: 29
9398522 CCAGTAATGC
9398532 ATTAAAAACCCTAACCCTAACCTAATTTAATTTA
1 ATTAAAAACCCTAACCCTAACC-----TAATTTA
9398566 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9398595 ATTAAAAACCCTAACCCCTAACCTAATTTAATTAA
1 ATTAAAAACCCTAA-CCCTAACCTAA--T--TT-A
* *
9398630 ATTAAAAACTCTAACCCTAACCTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
9398659 ATTGAAAACCCTAACCCTGACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
**
9398688 ATTAAAAACCCTAA-CCTAATTTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9398716 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
**
9398745 ATTAAAAACCCTAA-CCTAATTTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
*
9398773 ATTAAAAACCCTAACTCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9398802 ATTAAAAACCCTAACCCTAACCTAATTTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAA--T--TT-A
*
9398836 ATTAAAAATCCTAACCCCTAACCTAATTTA
1 ATTAAAAACCCTAA-CCCTAACCTAATTTA
*
9398866 ATTAAAAACCCTAACCCTAACCTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9398895 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* *
9398924 ATTAAAAACCCTAGCCCTAATCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* ** *
9398953 ATTAAAAACCCTAACCGT-ATTTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
*
9398981 ATTAAAAACCCTAAACCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399010 ATTAAAAACCCTAACCCCTAACCTAATTTA
1 ATTAAAAACCCTAA-CCCTAACCTAATTTA
*
9399040 ATTAAATTAAAACCCTAACCCTAACCTAATTAA
1 ATT--A--AAAACCCTAACCCTAACCTAATTTA
9399073 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399102 ATT--AAA----AACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399125 ATTAAAAACCCTAACCCTAACCTAATTAAATTAA
1 ATTAAAAACCCTAACCCTAACCTAA-T---TT-A
9399159 ATTAAAAACCCTAACCTCTAACCTAATTTA
1 ATTAAAAACCCTAACC-CTAACCTAATTTA
*
9399189 ATTAAAAACCCTAACCCTAACCTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
*
9399218 ATTAAAAACCCTAACCATAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399247 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
* * ** *
9399276 ATTAAAAACTCTAACCGT-ATTTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399304 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399333 ATTAAAAACCCTAACCCTAACCGTATTTAATTTA
1 ATTAAAAACCCTAACCCTAACC-----TAATTTA
* * *
9399367 TTTAAAAACCCT-ATCCTAACCTAATTAA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399395 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399424 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
**
9399453 ATT-AAAACCCTAA-CCTAATTTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTA
9399480 ATTAAAAACCCTAACCCTAACC
1 ATTAAAAACCCTAACCCTAACC
9399502 CCTAACCTAA
Statistics
Matches: 835, Mismatches: 60, Indels: 87
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.02
25 3 0.00
27 18 0.02
28 135 0.16
29 430 0.51
30 61 0.07
31 6 0.01
32 3 0.00
33 30 0.04
34 95 0.11
35 34 0.04
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (29 bp):
ATTAAAAACCCTAACCCTAACCTAATTTA
Found at i:9398713 original size:57 final size:57
Alignment explanation
Indices: 9398610--9399535 Score: 1107
Period size: 57 Copynumber: 15.7 Consensus size: 57
9398600 AAACCCTAAC
** * * * * *
9398610 CCCTAA-CCTAATTTAATTAAATTAAAAACTCTAACCCTAACCTAATTAAATTGAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATCTAATTTAATTAAAAA
* *
9398667 CCCTAACCCTGACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTAATTTAATTAAAAA
*
9398724 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTAATTTAATTAAAAA
* *
9398781 CCCTAACTCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATCTAA--T--TT-AATTAAAAA
* * *
9398844 TCCTAACCCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTAAATTAAAAA
1 CCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATCTAATTTAATTAAAAA
*
9398903 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAGCCCTAATCTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTA-ACCTAATCTAATTTAATTAAAAA
* ** * *
9398961 CCCTAACCGT-ATTTAATTAAATTAAAAACCCTAAACCTAACCTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCTAATCTAATTTAATTAAAAA
* *
9399018 CCCTAACCCCTAACCTAATTTAATTAAATTAAAACCCTAACCCTAACCTAATTAAATTAAAAA
1 CCCTAA-CCCTAACCTAATTTAATT--A--AAAACCCTAA-CCTAATCTAATTTAATTAAAAA
9399081 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-C----CTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTAATTTAATTAAAAA
*
9399133 CCCTAACCCTAACCTAATTAAATTAAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAA-T---TT-AATTAAAAACCCTAA-C-CTAATCTAATTTAATTAAAAA
* *
9399197 CCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCATAACCTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC-TAATCTAATTTAATTAAAAA
* * *
9399255 CCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCGT-ATTTAATTAAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC-TAATCTAATTTAATTAAAAA
* *
9399312 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCGTATTTAATTTATTTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCT-A----ATCTAATTTAATTAAAAA
* * *
9399375 CCCT-ATCCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATCTAATTTAATTAAAAA
*
9399432 CCCTAACCCTAACCTAATTTAATT-AAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAA
1 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTAATTTAATT--AAA----AA
9399494 CCCTAACCCCTAACCTAATTTAATTAAAAACCCTAACCTAAT
1 CCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAACCTAAT
9399536 TTGATAATCT
Statistics
Matches: 772, Mismatches: 51, Indels: 85
0.85 0.06 0.09
Matches are distributed among these distances:
52 32 0.04
53 1 0.00
56 18 0.02
57 255 0.33
58 181 0.23
59 39 0.05
60 5 0.01
61 2 0.00
62 63 0.08
63 88 0.11
64 88 0.11
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (57 bp):
CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTAATTTAATTAAAAA
Found at i:9398817 original size:23 final size:23
Alignment explanation
Indices: 9398671--9398770 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
9398661 TGAAAACCCT
*
9398671 AACCCTGACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
9398694 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
9398722 AACCCTAACCCTAACCTAATTTAATTAAA
1 AA--C----CCTAACCTAATTTAATTAAA
9398751 AACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATT
9398771 TAATTAAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 22
0.74 0.01 0.25
Matches are distributed among these distances:
23 26 0.40
27 1 0.02
28 15 0.23
29 15 0.23
30 1 0.02
34 7 0.11
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:9399138 original size:18 final size:20
Alignment explanation
Indices: 9399092--9399134 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
9399082 CCTAACCCTA
9399092 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
9399113 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
9399135 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:9399187 original size:323 final size:321
Alignment explanation
Indices: 9398532--9399531 Score: 1428
Period size: 323 Copynumber: 3.0 Consensus size: 321
9398522 CCAGTAATGC
9398532 ATTAAAAACCCTAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
1 ATTAAAAACCCTAACCCTAACCTAA-TT-A---AATTAAAAACCCTAACCCTAACCTAATTTAAT
* **
9398597 TAAAAACCCTAACCCCTAACCTAATTTAATTAAATTAAAAACTCTAACCCTAACCTAATTAAATT
61 TAAAAACCCTAA-CCCTAACCTAA--T--TT-AATTAAAAACTCTAACCGT-ATTTAATTAAATT
* * **
9398662 GAAAACCCTAACCCTGACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATT-A--AAA
119 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAATTAAA
* **
9398723 ACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAA
184 ACCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA--C---
*
9398787 CTCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAATCCTAACC
244 C-CTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACC
9398852 CCTAACCTAATTTA
308 CCTAACCTAATTTA
9398866 ATTAAAAACCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAA
* * * *
9398931 ACCCTAGCCCTAATCTAATTTAATTAAAAACCCTAACCGTATTTAATTAAATTAAAAACCCTAAA
66 ACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCGTATTTAATTAAATTAAAAACCCTAAC
9398996 CCTAACCTAATTTAATTAAAAACCCTAACCCCTAACCTAATTTAATTAAATTAAAACCCTAACCC
131 CCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATT-AATTAAAACCCTAACCC
9399061 TAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA
194 TAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA
* *
9399126 TTAAAAACCCTAACCCTAACCTAATTAAATTAAATTAAAAACCCTAACCTCTAACCTAATTTA
259 TTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCCCTAACCTAATTTA
*
9399189 ATTAAAAACCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCATAACCTAATTTAATTAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAA
9399254 ACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCGTATTTAATTAAATTAAAAACCCTAAC
66 ACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCGTATTTAATTAAATTAAAAACCCTAAC
* *
9399319 CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCGT-ATTTAATTTATTTAAAAACCCT-ATC
131 CCTAACCTAATTTAATTAAAAACCCTAACCCTAACC-TAATTTAA-TTAATT-AAAACCCTAACC
9399382 CTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCT
193 CTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCT
** *
9399447 AATTTAATT-AAAACCCTAA-CCTAATTTAATTTAATTAAA--AACCCTAACCCTAACCCCTAAC
252 AATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAA---AAACCCTAACCCCTAAC
9399508 CTAATTTA
314 CTAATTTA
9399516 ATTAAAAACCCTAACC
1 ATTAAAAACCCTAACC
9399532 TAATTTGATA
Statistics
Matches: 618, Mismatches: 29, Indels: 45
0.89 0.04 0.07
Matches are distributed among these distances:
322 112 0.18
323 255 0.41
324 23 0.04
326 19 0.03
327 50 0.08
328 68 0.11
329 63 0.10
332 1 0.00
333 2 0.00
334 25 0.04
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (321 bp):
ATTAAAAACCCTAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAA
ACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCGTATTTAATTAAATTAAAAACCCTAAC
CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAATTAAAACCCTAACCCTA
ACCTAATTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATT
AAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCCCTAACCTAATTTA
Found at i:9399464 original size:22 final size:22
Alignment explanation
Indices: 9399436--9399477 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9399426 TAAAAACCCT
9399436 AACCCTAACCTAATTTAATTAA
1 AACCCTAACCTAATTTAATTAA
9399458 AACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATT
9399478 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (22 bp):
AACCCTAACCTAATTTAATTAA
Found at i:9399506 original size:36 final size:34
Alignment explanation
Indices: 9399458--9399531 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 34
9399448 ATTTAATTAA
**
9399458 AACCCTAACCTAATTTAATTTAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTTAATTAAAAACCCT
9399492 AACCCTAACCCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAA--CCTAACCTAATTTAATTAAAAACCCT
9399528 AACC
1 AACC
9399532 TAATTTGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 8 0.22
36 28 0.78
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (34 bp):
AACCCTAACCTAACCTAATTTAATTAAAAACCCT
Found at i:9402987 original size:24 final size:24
Alignment explanation
Indices: 9402937--9402988 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9402927 TTCGTAGGTC
* **
9402937 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
9402961 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
9402985 AAAT
1 AAAT
9402989 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:9404916 original size:24 final size:24
Alignment explanation
Indices: 9404889--9404940 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9404879 TTTATAGGTC
* *
9404889 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
9404913 AAATACATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
9404937 AAAT
1 AAAT
9404941 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:9405669 original size:2 final size:2
Alignment explanation
Indices: 9405662--9405696 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9405652 TTATTAAGTT
9405662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9405697 TTGATACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9406147 original size:22 final size:22
Alignment explanation
Indices: 9406122--9406188 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
9406112 ACTCAAATCA
9406122 TTGTAAAAACTTAAGTTTTTCC
1 TTGTAAAAACTTAAGTTTTTCC
*
9406144 TTGT---AACTCAA----TTCC
1 TTGTAAAAACTTAAGTTTTTCC
*
9406159 TTGTAAAAACGTAAGTTTTTCC
1 TTGTAAAAACTTAAGTTTTTCC
9406181 TTGTAAAA
1 TTGTAAAA
9406189 TCCTAGGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
15 8 0.23
18 5 0.14
19 6 0.17
22 16 0.46
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (22 bp):
TTGTAAAAACTTAAGTTTTTCC
Found at i:9406183 original size:37 final size:37
Alignment explanation
Indices: 9406090--9406186 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
9406080 CTGCAGTGAT
* *
9406090 AAAACTTATGTTTTTCCTTATAACTCAAATCATTGTA
1 AAAACTTAAGTTTTTCCTTGTAACTCAAATCATTGTA
* *
9406127 AAAACTTAAGTTTTTCCTTGTAACTCAATTCCTTGTA
1 AAAACTTAAGTTTTTCCTTGTAACTCAAATCATTGTA
*
9406164 AAAACGTAAGTTTTTCCTTGTAA
1 AAAACTTAAGTTTTTCCTTGTAA
9406187 AATCCTAGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.42
Consensus pattern (37 bp):
AAAACTTAAGTTTTTCCTTGTAACTCAAATCATTGTA
Found at i:9407121 original size:11 final size:11
Alignment explanation
Indices: 9407105--9407129 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9407095 ATTTTTTAAC
9407105 TTTAAAATACT
1 TTTAAAATACT
9407116 TTTAAAATACT
1 TTTAAAATACT
9407127 TTT
1 TTT
9407130 TTTTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:9407141 original size:9 final size:9
Alignment explanation
Indices: 9407127--9407199 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 9
9407117 TTAAAATACT
9407127 TTTTTTTAA
1 TTTTTTTAA
9407136 TTTTTTTAA
1 TTTTTTTAA
**
9407145 -TTTTAAAA
1 TTTTTTTAA
9407153 TTTTTTTAAA
1 TTTTTTT-AA
9407163 TTTTTTTAAAATA
1 TTTTTTT---A-A
9407176 CTTTTTTTTAA
1 --TTTTTTTAA
9407187 TTTTTTTAA
1 TTTTTTTAA
9407196 TTTT
1 TTTT
9407200 AAAATATTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
8 6 0.11
9 26 0.49
10 9 0.17
11 1 0.02
12 3 0.06
13 1 0.02
15 7 0.13
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:9407159 original size:11 final size:11
Alignment explanation
Indices: 9407145--9407195 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
9407135 ATTTTTTTAA
9407145 TTTTAAAATTT
1 TTTTAAAATTT
9407156 TTTT-AAATTT
1 TTTTAAAATTT
9407166 TTTTAAAATACTT
1 TTTTAAAAT--TT
**
9407179 TTTTTTAATTT
1 TTTTAAAATTT
9407190 TTTTAA
1 TTTTAA
9407196 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 10 0.30
11 14 0.42
13 9 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:9407176 original size:51 final size:51
Alignment explanation
Indices: 9407115--9407213 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
9407105 TTTAAAATAC
*
9407115 TTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATTTTTTTAAATTT
1 TTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAATTT
9407166 TTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAA
1 TTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAA
9407214 ATACTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (51 bp):
TTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAATTT
Found at i:9407200 original size:40 final size:40
Alignment explanation
Indices: 9407155--9407249 Score: 127
Period size: 41 Copynumber: 2.2 Consensus size: 40
9407145 TTTTAAAATT
* *
9407155 TTTTTAAATTTTTTTAAAATACTTTTTTTTAATTTTTTTAA
1 TTTTAAAATATTTTTAAAATAC-TTTTTTTAATTTTTTTAA
9407196 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTATTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTTAA--TTT-TTTTAA
9407239 TTTTTAAAATA
1 -TTTTAAAATA
9407250 AATTTTTGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
40 9 0.19
41 20 0.42
42 3 0.06
43 6 0.12
44 10 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTAA
Found at i:9407243 original size:51 final size:50
Alignment explanation
Indices: 9407105--9407243 Score: 174
Period size: 51 Copynumber: 2.7 Consensus size: 50
9407095 ATTTTTTAAC
**
9407105 TTTAAAATACTTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATTT
1 TTTAAAATTTTTTTAAAATA-TTTTTTTTAATTTTTTTAATTTTAAAATTT
*
9407156 TTTTAAATTTTTTTAAAATACTTTTTTTTAATTTTTTTAATTTTAAAATATT
1 TTTAAAATTTTTTTAAAATA-TTTTTTTTAATTTTTTTAATTTTAAAAT-TT
*
9407208 TTTAAAATACTTTTTT-TAAT-TTTTATTTTAATTTTT
1 TTTAAAAT--TTTTTTAAAATATTTT-TTTTAATTTTT
9407244 AAAATAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
51 50 0.63
52 20 0.25
53 3 0.04
54 6 0.08
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (50 bp):
TTTAAAATTTTTTTAAAATATTTTTTTTAATTTTTTTAATTTTAAAATTT
Found at i:9415969 original size:30 final size:29
Alignment explanation
Indices: 9415935--9415993 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
9415925 ACTCTCCTCC
9415935 TCCTCCTCC-CCCTTCTTCTTCCCTATCCTG
1 TCCTCCTCCTCCC--CTTCTTCCCTATCCTG
9415965 TCCTCCTCCTTCCCCTTCTTCCCTATCCT
1 TCCTCCTCC-TCCCCTTCTTCCCTATCCT
9415994 TTCTCTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 24 0.89
32 3 0.11
ACGTcount: A:0.03, C:0.54, G:0.02, T:0.41
Consensus pattern (29 bp):
TCCTCCTCCTCCCCTTCTTCCCTATCCTG
Found at i:9426271 original size:22 final size:22
Alignment explanation
Indices: 9426243--9426287 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
9426233 TTTTCTGTAG
*
9426243 TCGATACACAGTCTCAATGTCC
1 TCGATACACAGTCTCAACGTCC
9426265 TCGATACACAGTCTCAACGTCC
1 TCGATACACAGTCTCAACGTCC
9426287 T
1 T
9426288 ATCTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (22 bp):
TCGATACACAGTCTCAACGTCC
Found at i:9428944 original size:15 final size:16
Alignment explanation
Indices: 9428915--9428945 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9428905 TAATGAAATT
9428915 AATTAAATAAATTTTC
1 AATTAAATAAATTTTC
9428931 AATTAAAT-AATTTTC
1 AATTAAATAAATTTTC
9428946 TCAAACCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAATAAATTTTC
Found at i:9429735 original size:21 final size:21
Alignment explanation
Indices: 9429709--9429752 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9429699 CATACGGAAA
9429709 AAGTCGTATACCCAACGCACT
1 AAGTCGTATACCCAACGCACT
9429730 AAGTCGTATACCCAACGCACT
1 AAGTCGTATACCCAACGCACT
9429751 AA
1 AA
9429753 CTTTCGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (21 bp):
AAGTCGTATACCCAACGCACT
Found at i:9436531 original size:22 final size:22
Alignment explanation
Indices: 9436506--9436548 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9436496 TATCTAAATA
9436506 ATAACAACAAAATAG-TAACAAT
1 ATAACAACAAAAT-GTTAACAAT
* *
9436528 ATAATAACGAAATGTTAACAA
1 ATAACAACAAAATGTTAACAA
9436549 AATTCGAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATGTTAACAAT
Found at i:9438593 original size:2 final size:2
Alignment explanation
Indices: 9438586--9438623 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9438576 TTACCACGTG
9438586 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9438624 ATGCTTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9439512 original size:2 final size:2
Alignment explanation
Indices: 9439505--9439552 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
9439495 AGCAAGAAAG
9439505 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9439547 GA GA GA
1 GA GA GA
9439553 CCGGGGGGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9440221 original size:20 final size:21
Alignment explanation
Indices: 9440191--9440229 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
9440181 TTTTATTTTT
9440191 ATTATTTTCTACTTTTAATAA
1 ATTATTTTCTACTTTTAATAA
9440212 ATTA-TTTCTACTTTTAAT
1 ATTATTTTCTACTTTTAAT
9440230 TGTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTATTTTCTACTTTTAATAA
Found at i:9447345 original size:114 final size:114
Alignment explanation
Indices: 9447168--9447459 Score: 413
Period size: 114 Copynumber: 2.6 Consensus size: 114
9447158 TTGTGGAAAT
* * * * * * *
9447168 GCCACAAATAAATCGAAGCCCAATGATGCCGTTTTTTGAGCATTCGGGGATTTAGTGGTGTTTTC
1 GCCACAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCGTTTTC
* *
9447233 GGCGAAGCGCTGCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGC
66 GGCAAAGCGCCGCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGC
* *
9447282 GCCGCAAATAAACCAAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCGTTTTC
1 GCCACAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCGTTTTC
** * **
9447347 GTTAAAGCGCCGCTAATGCTTAGGACTTTAGCGGTGTTTTTGAGTAAGC
66 GGCAAAGCGCCGCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGC
* * *
9447396 GCCACAAATAGACCGAAGCCCAACGACGTCATTTTCTGAGCATTCAGGGATTTAGCGGCGTTTT
1 GCCACAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCGTTTT
9447460 TTGTGGAAGC
Statistics
Matches: 157, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 157 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (114 bp):
GCCACAAATAAACCGAAGCCCAACGACGCCGTTTTCTGAGCATTCAGGGATTTAGCGGCGTTTTC
GGCAAAGCGCCGCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGC
Found at i:9447869 original size:14 final size:15
Alignment explanation
Indices: 9447850--9447888 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
9447840 GGTTTAAGAG
9447850 GTTTAAGGGC-TATA
1 GTTTAAGGGCTTATA
9447864 GTTTAAGGGCTTTTATA
1 GTTTAAGGGC--TTATA
9447881 GTTTAAGG
1 GTTTAAGG
9447889 TTTAATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
17 12 0.55
ACGTcount: A:0.26, C:0.05, G:0.28, T:0.41
Consensus pattern (15 bp):
GTTTAAGGGCTTATA
Found at i:9449458 original size:7 final size:7
Alignment explanation
Indices: 9449446--9449531 Score: 64
Period size: 7 Copynumber: 11.9 Consensus size: 7
9449436 TATATAATGT
9449446 TTAGGGG
1 TTAGGGG
9449453 TTAGGGG
1 TTAGGGG
* *
9449460 TTTAAGGT
1 -TTAGGGG
*
9449468 TTAAGGG
1 TTAGGGG
* *
9449475 TTAAGGT
1 TTAGGGG
*
9449482 TTAGAGG
1 TTAGGGG
*
9449489 TTAAGGGT
1 TT-AGGGG
9449497 TTAGGGG
1 TTAGGGG
**
9449504 TTAGATG
1 TTAGGGG
9449511 TTAGGGG
1 TTAGGGG
9449518 TTTAGGGG
1 -TTAGGGG
9449526 TTAGGG
1 TTAGGG
9449532 ATTTAAGGTT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
7 45 0.73
8 17 0.27
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:9449528 original size:22 final size:22
Alignment explanation
Indices: 9449448--9449546 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 22
9449438 TATAATGTTT
*
9449448 AGGGGTTAGGGGTTTA-AGGTTTA
1 AGGGTTTAGGGGT-TAGAGG-TTA
* *
9449471 AGGG-TTAAGGTTTAGAGGTTA
1 AGGGTTTAGGGGTTAGAGGTTA
*
9449492 AGGGTTTAGGGGTTAGATGTTA
1 AGGGTTTAGGGGTTAGAGGTTA
*
9449514 GGGGTTTAGGGGTTAG-GGATTTA
1 AGGGTTTAGGGGTTAGAGG--TTA
9449537 A-GGTTTAGGG
1 AGGGTTTAGGG
9449547 ATTCAGGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
21 10 0.16
22 47 0.73
23 7 0.11
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.34
Consensus pattern (22 bp):
AGGGTTTAGGGGTTAGAGGTTA
Found at i:9449549 original size:15 final size:14
Alignment explanation
Indices: 9449457--9449546 Score: 69
Period size: 15 Copynumber: 6.2 Consensus size: 14
9449447 TAGGGGTTAG
9449457 GGGTTTAAGGTTTAA
1 GGGTTTAAGGTTT-A
9449472 GGG-TTAAGGTTTA
1 GGGTTTAAGGTTTA
9449485 GAGG-TTAAGGGTTTA
1 G-GGTTTAA-GGTTTA
* *
9449500 GGGGTT-AGATGTTA
1 GGGTTTAAGGT-TTA
* *
9449514 GGGGTTTAGGGGTTA
1 -GGGTTTAAGGTTTA
9449529 GGGATTTAAGGTTTA
1 GGG-TTTAAGGTTTA
9449544 GGG
1 GGG
9449547 ATTCAGGGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
13 4 0.07
14 24 0.39
15 32 0.52
16 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:9449785 original size:10 final size:10
Alignment explanation
Indices: 9449770--9449808 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
9449760 TTGTTAAATG
9449770 ATAAAATTTT
1 ATAAAATTTT
9449780 ATAAAATTTT
1 ATAAAATTTT
9449790 ATACAATTATTTT
1 ATA-AA--ATTTT
9449803 ATAAAA
1 ATAAAA
9449809 ATCAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.54
11 2 0.08
12 2 0.08
13 8 0.31
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:9450120 original size:101 final size:103
Alignment explanation
Indices: 9449923--9450128 Score: 299
Period size: 103 Copynumber: 2.0 Consensus size: 103
9449913 AGATAAGAAT
* * * * *
9449923 TAGCGGCGTTTTCTATAAAAACGTCACAAAATATAAATAAAATTATAAAAAATAAAAAAATTTAT
1 TAGCAGCGTTTTCCATAAAAACGCCACAAAAAATAAATAAAATTAAAAAAAATAAAAAAATTTAT
* *
9449988 TTGCATAGCAAAACGACGTCATTTTGTTCAAAATGAAA
66 GTGCATAGAAAAACGACGTCATTTTGTTCAAAATGAAA
* * *
9450026 TAGCAGCGTTTTCCATAAAAACGCCGCAAAAAATAAATTAATTTAAAAAAAAT-AAAAAATTT-T
1 TAGCAGCGTTTTCCATAAAAACGCCACAAAAAATAAATAAAATTAAAAAAAATAAAAAAATTTAT
*
9450089 GTGCATAGAAAAACGGCGTCATTTTGTTCAAAATGAAA
66 GTGCATAGAAAAACGACGTCATTTTGTTCAAAATGAAA
9450127 TA
1 TA
9450129 ATATTTTGCG
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 38 0.41
102 9 0.10
103 45 0.49
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (103 bp):
TAGCAGCGTTTTCCATAAAAACGCCACAAAAAATAAATAAAATTAAAAAAAATAAAAAAATTTAT
GTGCATAGAAAAACGACGTCATTTTGTTCAAAATGAAA
Found at i:9452084 original size:20 final size:20
Alignment explanation
Indices: 9452059--9452183 Score: 64
Period size: 20 Copynumber: 6.2 Consensus size: 20
9452049 TTATAAATTT
9452059 TTAATATATAACTTAATAAC
1 TTAATATATAACTTAATAAC
* *
9452079 TTAATA-AT-ATTTATATACATTT
1 TTAATATATAACTTA-ATA-A--C
*
9452101 TTAATATATATA-TTAA-AAA
1 TTAATATATA-ACTTAATAAC
* **
9452120 TTTATATATATTTTTAATAAC
1 TTAATATATA-ACTTAATAAC
*
9452141 TT-ATATATAACTTTCATAAC
1 TTAATATATAAC-TTAATAAC
*
9452161 TTACATA-ATAACATAATAAC
1 TTA-ATATATAACTTAATAAC
9452181 TTA
1 TTA
9452184 CATAATACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
18 4 0.05
19 15 0.18
20 36 0.44
21 10 0.12
22 10 0.12
23 3 0.04
24 3 0.04
25 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATATATAACTTAATAAC
Found at i:9452131 original size:42 final size:42
Alignment explanation
Indices: 9452050--9452132 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
9452040 TTACATAACT
*
9452050 TATAAATTTTTAATATATAACTTAATAACTTAATAATATTTA
1 TATAAATTTTTAATATATAACTTAAAAACTTAATAATATTTA
* *
9452092 TATACATTTTTAATATATATA-TTAAAAA-TTTATATATATTT
1 TATAAATTTTTAATATATA-ACTTAAAAACTTAATA-ATATTT
9452133 TTAATAACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 5 0.14
42 30 0.83
43 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (42 bp):
TATAAATTTTTAATATATAACTTAAAAACTTAATAATATTTA
Found at i:9452161 original size:9 final size:9
Alignment explanation
Indices: 9452147--9452403 Score: 125
Period size: 9 Copynumber: 29.9 Consensus size: 9
9452137 TAACTTATAT
*
9452147 ATAACTTTC
1 ATAACTTAC
9452156 ATAACTTAC
1 ATAACTTAC
*
9452165 ATAA-TAAC
1 ATAACTTAC
9452173 ATAATAACTTAC
1 ---ATAACTTAC
9452185 ATAA--TAC
1 ATAACTTAC
* *
9452192 ATAGCCTAC
1 ATAACTTAC
* *
9452201 ATGACTTGC
1 ATAACTTAC
9452210 ATAA--TAC
1 ATAACTTAC
*
9452217 ACAACTTAC
1 ATAACTTAC
*
9452226 ATAACTTAA
1 ATAACTTAC
*
9452235 ATAAATTAC
1 ATAACTTAC
9452244 ATAA--TAC
1 ATAACTTAC
**
9452251 AT-TTTTA-
1 ATAACTTAC
* *
9452258 ATCACTTAT
1 ATAACTTAC
*
9452267 ATAAAACTTTC
1 AT--AACTTAC
9452278 ATAACTTAC
1 ATAACTTAC
9452287 ATAA--TAC
1 ATAACTTAC
* *
9452294 ATAGCCTAC
1 ATAACTTAC
*
9452303 ATGACTTAC
1 ATAACTTAC
9452312 ATAA--TAC
1 ATAACTTAC
* *
9452319 ACAACTTAA
1 ATAACTTAC
9452328 ATAACTTAC
1 ATAACTTAC
9452337 ATAA--TAC
1 ATAACTTAC
* *
9452344 GTAACTTTC
1 ATAACTTAC
9452353 ATAACTTAC
1 ATAACTTAC
*
9452362 ATTA--TAC
1 ATAACTTAC
* *
9452369 ACAACTTAT
1 ATAACTTAC
9452378 ATAACTTAC
1 ATAACTTAC
9452387 ATAACTTAC
1 ATAACTTAC
*
9452396 ATAGCTTA
1 ATAACTTA
9452404 ATTATACTTA
Statistics
Matches: 184, Mismatches: 42, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
7 41 0.22
8 8 0.04
9 122 0.66
11 10 0.05
12 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:9452184 original size:20 final size:20
Alignment explanation
Indices: 9452134--9452194 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
9452124 TATATATTTT
* *
9452134 TAATAACTTATAT-ATAACTT
1 TAATAACTTACATAATAAC-A
*
9452154 TCATAACTTACATAATAACA
1 TAATAACTTACATAATAACA
9452174 TAATAACTTACATAAT-ACA
1 TAATAACTTACATAATAACA
9452193 TA
1 TA
9452195 GCCTACATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAACTTACATAATAACA
Found at i:9452226 original size:25 final size:25
Alignment explanation
Indices: 9452155--9452390 Score: 137
Period size: 25 Copynumber: 9.6 Consensus size: 25
9452145 ATATAACTTT
9452155 CATAACTTACATAATA-AC-A--TA
1 CATAACTTACATAATACACAACCTA
* *
9452176 -ATAACTTACATAATACATAGCCTA
1 CATAACTTACATAATACACAACCTA
* * *
9452200 CATGACTTGCATAATACACAACTTA
1 CATAACTTACATAATACACAACCTA
* *
9452225 CATAACTTAAATAAATTACATAA--TA
1 CATAACTTACAT-AA-TACACAACCTA
** * * * * *
9452250 CAT-TTTTAATCACTTATATAAAACTTT
1 CATAACTT-A-CA-TAATACACAACCTA
* *
9452277 CATAACTTACATAATACATAGCCTA
1 CATAACTTACATAATACACAACCTA
* *
9452302 CATGACTTACATAATACACAACTTA
1 CATAACTTACATAATACACAACCTA
* ** * *
9452327 AATAACTTACATAATACGTAACTTT
1 CATAACTTACATAATACACAACCTA
* *
9452352 CATAACTTACATTATACACAACTTA
1 CATAACTTACATAATACACAACCTA
*
9452377 TATAACTTACATAA
1 CATAACTTACATAA
9452391 CTTACATAGC
Statistics
Matches: 160, Mismatches: 42, Indels: 22
0.71 0.19 0.10
Matches are distributed among these distances:
20 15 0.09
21 1 0.01
24 4 0.03
25 120 0.75
26 6 0.04
27 12 0.08
28 2 0.01
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (25 bp):
CATAACTTACATAATACACAACCTA
Found at i:9452232 original size:50 final size:50
Alignment explanation
Indices: 9452176--9452400 Score: 213
Period size: 50 Copynumber: 4.4 Consensus size: 50
9452166 TAATAACATA
*
9452176 ATAACTTACATAATACATAGCCTACATGACTTGCATAATACACAACTTAC
1 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAC
* * ** * * * *
9452226 ATAACTTAAATAAATTACATA--ATACAT-TTTTAATCACTTATATAAAACTTTC
1 ATAACTTACAT-AA-TACATAGCCTACATGACTT-A-CA-TAATACACAACTTAC
*
9452278 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAA
1 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAC
* * * * * * *
9452328 ATAACTTACATAATACGTAACTTTCATAACTTACATTATACACAACTTAT
1 ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAC
9452378 ATAACTTACATAACTTACATAGC
1 ATAACTTACATAA--TACATAGC
9452401 TTAATTATAC
Statistics
Matches: 138, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
49 2 0.01
50 87 0.63
51 8 0.06
52 39 0.28
53 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (50 bp):
ATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTAC
Found at i:9453949 original size:21 final size:21
Alignment explanation
Indices: 9453925--9453975 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9453915 CTACAACTTA
*
9453925 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* * *
9453946 AAGCAGAGGCTGTAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
9453967 AAGCAGAGG
1 AAGCAGAGG
9453976 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:9454441 original size:43 final size:40
Alignment explanation
Indices: 9454405--9454527 Score: 192
Period size: 40 Copynumber: 3.0 Consensus size: 40
9454395 GTTTGGGATG
*
9454405 AAAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT
9454446 ACCAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 A--AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
* *
9454488 TAAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTT
1 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
9454528 CTGTAAACGC
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
40 38 0.49
41 1 0.01
42 6 0.08
43 32 0.42
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
Found at i:9454504 original size:40 final size:41
Alignment explanation
Indices: 9454406--9454527 Score: 201
Period size: 43 Copynumber: 3.0 Consensus size: 41
9454396 TTTGGGATGA
*
9454406 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--C
9454449 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
9454489 AAGCGCCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
9454528 CTGTAAACGC
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
40 38 0.49
43 39 0.51
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:9455114 original size:39 final size:40
Alignment explanation
Indices: 9455008--9455126 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 40
9454998 GCGTTTGGAC
* * * *
9455008 AAAAAACGCCACTAAAAATCAAGCAGTAGCGGCGCTTTTG
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTTT
* ** * *
9455048 GAAAAACGCCGCTAAAGGTCGATCATTAGCGGCGATTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTTT
* *
9455088 AAAAAATGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTTT
9455127 GGAAAGCGCC
Statistics
Matches: 63, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 17 0.27
40 46 0.73
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTTT
Found at i:9455138 original size:39 final size:39
Alignment explanation
Indices: 9455010--9455142 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 39
9455000 GTTTGGACAA
* * *
9455010 AAAACGCCACTAAAAATCAAGCAGTAGCGGCGCTTTTGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTGG
** * * **
9455049 AAAAACGCCGCTAAAGGTCGATCATTAGCGGCGATTTTTAA
1 -AAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTGG
*
9455090 AAAATGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTGG
*
9455129 AAAGCGCCGC-AAAA
1 AAAACGCCGCTAAAA
9455143 CGCCGTTTTC
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
38 4 0.05
39 25 0.34
40 40 0.55
41 4 0.05
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTGG
Found at i:9455243 original size:41 final size:41
Alignment explanation
Indices: 9455164--9455396 Score: 330
Period size: 41 Copynumber: 5.7 Consensus size: 41
9455154 AAGTTTTTGG
*
9455164 GGTCTTTAGCGGCGTTTCTGAA-AAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
*
9455204 GGTCTTTAGCGGCGTTTCTGAATAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
9455245 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
*
9455286 GGTCTTTAGCGGCATTTTTGAATAAGCGCCGCTAATGCTC-
1 GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
* * * * *
9455326 GGACCTTTAGCGGTGTTTTTTAAAAAGCGCCACTAATGCTC-
1 GG-TCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
*
9455367 -GTACCTTTAGCGGCGTTTTTGAAGAAGCGC
1 GGT--CTTTAGCGGCGTTTTTGAATAAGCGC
9455397 TGCAAAAACA
Statistics
Matches: 177, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
40 25 0.14
41 152 0.86
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (41 bp):
GGTCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
Found at i:9455993 original size:20 final size:21
Alignment explanation
Indices: 9455959--9455997 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9455949 TAAATAATGT
9455959 TTAGGGGTTAGGGATTTAGGG
1 TTAGGGGTTAGGGATTTAGGG
*
9455980 TTAGGGTTTA-GGATTTAG
1 TTAGGGGTTAGGGATTTAG
9455998 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
TTAGGGGTTAGGGATTTAGGG
Found at i:9455997 original size:14 final size:14
Alignment explanation
Indices: 9455958--9455991 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9455948 TTAAATAATG
9455958 TTTAGGGGTTAGGGA
1 TTTA-GGGTTAGGGA
9455973 TTTAGGGTTAGGG-
1 TTTAGGGTTAGGGA
9455986 TTTAGG
1 TTTAGG
9455992 ATTTAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 9 0.47
15 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
TTTAGGGTTAGGGA
Found at i:9456084 original size:89 final size:89
Alignment explanation
Indices: 9455979--9456228 Score: 464
Period size: 89 Copynumber: 2.8 Consensus size: 89
9455969 GGGATTTAGG
9455979 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
*
9456044 TATGGGTTAGTGATTCGGGGTTGA
66 TAGGGGTTAGTGATTCGGGGTTGA
* *
9456068 GTTAGGGTTTAGGATTTAGATTAATTAGTATTTTTTAGTTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
9456133 TAGGGGTTAGTGATTCGGGGTTGA
66 TAGGGGTTAGTGATTCGGGGTTGA
*
9456157 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGTT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
9456222 TAGGGGT
66 TAGGGGT
9456229 AAAGGTTTGG
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 155 1.00
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (89 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
TAGGGGTTAGTGATTCGGGGTTGA
Found at i:9472228 original size:15 final size:15
Alignment explanation
Indices: 9472208--9472237 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9472198 TTATATGTAA
9472208 TATCATAATTTAAAT
1 TATCATAATTTAAAT
9472223 TATCATAATTTAAAT
1 TATCATAATTTAAAT
9472238 CTTGGTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TATCATAATTTAAAT
Found at i:9473914 original size:21 final size:21
Alignment explanation
Indices: 9473888--9473983 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
9473878 CAACAACTTA
*
9473888 AAGCAGAGGCGGCAGCGAG-G
1 AAGCAGAGGCCGCAGCGAGAG
***
9473908 TAAGCAGAGGCTATAGCGAGAG
1 -AAGCAGAGGCCGCAGCGAGAG
9473930 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
** *
9473951 AAGCAGTAAGAGAAGCAGTGAGAG
1 AAGCAG--AG-GCCGCAGCGAGAG
9473975 AAGCAGAGG
1 AAGCAGAGG
9473984 TTCAAAAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
21 41 0.66
22 3 0.05
23 2 0.03
24 16 0.26
ACGTcount: A:0.38, C:0.16, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:9473962 original size:12 final size:12
Alignment explanation
Indices: 9473947--9473980 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9473937 GGCCGCAGCG
9473947 AGAGAAGCAGTA
1 AGAGAAGCAGTA
*
9473959 AGAGAAGCAGTG
1 AGAGAAGCAGTA
9473971 AGAGAAGCAG
1 AGAGAAGCAG
9473981 AGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.38, T:0.06
Consensus pattern (12 bp):
AGAGAAGCAGTA
Found at i:9474465 original size:42 final size:40
Alignment explanation
Indices: 9474417--9474711 Score: 315
Period size: 42 Copynumber: 7.0 Consensus size: 40
9474407 TTTGTGAAAT
*
9474417 AAGCGCCGCTAAAGAACACTA-CTTTTAGCGGCGTTTTTGACC
1 AAGCGCCGCTAAAGAACA-TATC-TTTAGCGGCGTTTTT-TCC
* * *
9474459 AAGCGCCGCTATAGAATAT-TACTTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATAT-C-TTTAGCGGCG-TTTTTTCC
*
9474501 AAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTATTTCC
1 AAGCGCCGCTAAAGAACAT-ATCTTTAGCGGCGTTT-TTTCC
* * *
9474543 TTAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCAT
1 -AAGCGCCGCTAAAGAACA-TATCTTTAGCGGCGTTTTTTC-C
* * *
9474586 AAGCGCCGCTAAAGAACAGGATCTTTAGCGGCATTTTTTCAT
1 AAGCGCCGCTAAAGAACA-TATCTTTAGCGGCGTTTTTTC-C
9474628 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 AAGCGCCGCTAAAGAACAT-ATCTTTAGCGGCGTTT-TTTCC
*
9474670 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 -AAGCGCCGCTAAAGAACAT-ATCTTTAGCGGCGTTTTTTCC
9474712 TGTAAGCGCC
Statistics
Matches: 223, Mismatches: 18, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
41 4 0.02
42 141 0.63
43 77 0.35
44 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATATCTTTAGCGGCGTTTTTTCC
Found at i:9474591 original size:127 final size:128
Alignment explanation
Indices: 9474418--9474710 Score: 425
Period size: 127 Copynumber: 2.3 Consensus size: 128
9474408 TTGTGAAATA
* * * * **
9474418 AGCGCCGCTAAAGAACACTA-CTTTTAGCGGCG-TTTTTGACCAAGCGCCGCTATAGAATATTA-
1 AGCGCCGCTAAAGAACACGATC-TTTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACAGGAT
*
9474480 CTTTTAGCGGCGTTTTTTTC-TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTATTTCCT
65 C-TTTAGCGGC-ATTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTATTTCCT
9474544 T
128 T
* *
9474545 AGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTTTTCA-TAAGCGCCGCTAAAGAACAGGATC
1 AGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACAGGATC
*
9474609 TTTAGCGGCATTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTT
66 TTTAGCGGCATTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTATTTCCTT
*
9474672 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 AGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTC
9474711 CTGTAAGCGC
Statistics
Matches: 151, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
126 7 0.05
127 136 0.90
128 8 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (128 bp):
AGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACAGGATC
TTTAGCGGCATTTTTTCATAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTATTTCCTT
Found at i:9474596 original size:85 final size:84
Alignment explanation
Indices: 9474415--9474728 Score: 395
Period size: 85 Copynumber: 3.7 Consensus size: 84
9474405 CGTTTGTGAA
* * *
9474415 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC-AAGCGCCGCTATAGAATA
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCCTAAGCGCCGCTAAAGAACA
*
9474477 TTA-CTTTTAGCGGCGTTTTTTTC
63 TGATC-TTTAGCGGCG-TTTTTTC
* * *
9474500 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTATTTCCTTAGCGCCGCTAAAGAACAGG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCTAAGCGCCGCTAAAGAACATG
9474564 ATCTTTAGCGGCGTTTTTTC
65 ATCTTTAGCGGCGTTTTTTC
* * *
9474584 ATAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCATTTTTTCATAAGCGCCGCTAAAGAACATGA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
9474649 TCTTTAGCGGCGTTTATTTC
66 TCTTTAGCGGCGTTT-TTTC
* * *
9474669 CTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTGTAAGCGCCGCAAAAG
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC--TAAGCGCCGCTAAAG
9474729 TTAGCGACGT
Statistics
Matches: 201, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
83 1 0.00
84 80 0.40
85 105 0.52
86 1 0.00
87 14 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGA
TCTTTAGCGGCGTTTTTTC
Found at i:9477388 original size:38 final size:40
Alignment explanation
Indices: 9477328--9477408 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
9477318 TATTTAATAC
* *
9477328 AATAAAATATTTATTATATTTAT-TTGTGTTTTTTAACAT
1 AATAAAATAATTATTATATTTATGTTGTGCTTTTTAACAT
* *
9477367 AATAAAA-AATTATTCTATTTATGGTTGTGCTTTTTAATAT
1 AATAAAATAATTATTATATTTAT-GTTGTGCTTTTTAACAT
9477407 AA
1 AA
9477409 ATATTTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 13 0.36
39 7 0.19
40 16 0.44
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (40 bp):
AATAAAATAATTATTATATTTATGTTGTGCTTTTTAACAT
Found at i:9478791 original size:31 final size:29
Alignment explanation
Indices: 9478753--9478829 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
9478743 CTAACGGCTC
* *
9478753 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
9478784 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
9478813 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
9478830 TTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:9480811 original size:11 final size:11
Alignment explanation
Indices: 9480795--9480852 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
9480785 ATTTTTTTAA
9480795 TTTTAAAATAC
1 TTTTAAAATAC
9480806 TTTTAAAATAC
1 TTTTAAAATAC
**
9480817 TTTTTTTAA-A-
1 -TTTTAAAATAC
**
9480827 TTTTAAAATTT
1 TTTTAAAATAC
9480838 TTTTAAAATAC
1 TTTTAAAATAC
9480849 TTTT
1 TTTT
9480853 TTAATTTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
9 6 0.16
11 25 0.68
12 6 0.16
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:9480829 original size:32 final size:31
Alignment explanation
Indices: 9480786--9480860 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 31
9480776 AATATTTTTA
9480786 TTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTTAATTTTAAAATACTTTTAAAATAC
**
9480817 TTTTTTTAAATTTTAAAATTTTTTTAAAATAC
1 TTTTTTT-AATTTTAAAATACTTTTAAAATAC
9480849 -TTTTTTAATTTT
1 TTTTTTTAATTTT
9480861 TGTTTTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 6 0.15
31 13 0.32
32 22 0.54
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:9480847 original size:43 final size:43
Alignment explanation
Indices: 9480795--9480878 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
9480785 ATTTTTTTAA
9480795 TTTTAAAATACTTTTAAAATACTTT-TTTTAAATTTTAAAATTT
1 TTTTAAAATACTTTTAAAAT-CTTTGTTTTAAATTTTAAAATTT
** * *
9480838 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAAT
1 TTTTAAAATACTTTTAAAATCTTTGTTTTAAATTTTAAAAT
9480879 AAATTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (43 bp):
TTTTAAAATACTTTTAAAATCTTTGTTTTAAATTTTAAAATTT
Found at i:9481190 original size:49 final size:49
Alignment explanation
Indices: 9481137--9481231 Score: 115
Period size: 49 Copynumber: 1.9 Consensus size: 49
9481127 TGAAAAGGAT
9481137 TAAAA-ACA-TAAATAACCCATAAAT-AAAACCCCATTTCATTTGCAGCCAA
1 TAAAACACATTAAA-AACCC-T-AATCAAAACCCCATTTCATTTGCAGCCAA
* **
9481186 TAAAACCCATTTCAAACCCTAATCAAAACCCCATTTCATTTGCAGC
1 TAAAACACATTAAAAACCCTAATCAAAACCCCATTTCATTTGCAGC
9481232 AACAGCAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
48 3 0.08
49 28 0.70
50 7 0.17
51 2 0.05
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.24
Consensus pattern (49 bp):
TAAAACACATTAAAAACCCTAATCAAAACCCCATTTCATTTGCAGCCAA
Found at i:9482113 original size:44 final size:43
Alignment explanation
Indices: 9482053--9482295 Score: 208
Period size: 44 Copynumber: 5.7 Consensus size: 43
9482043 GATGCGATCT
* * *
9482053 GCTCTACTGTAACTTCAGAGAAATAAGATCCATGGTTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGAT-CATGGTTTTAATCC
* * * * ** **
9482097 GCTCCACTGCAACTTCAGGGAGATAGGATTA-GTTTCTTCTGTTT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTT-TT-AATCC
* * * *
9482141 GCTCCACTGCAACTTCAGAGAGATAAGA-C-TGGATGTGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTTTTAATCC
* * * *
9482182 GCTCTATTGCAACTTCGGAGAGATAAGATC-TGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTTTTAATCC
* *
9482224 GCTCCACTGCAACTTCAGAGAGATAAGATTATTGGCTTTAATCTC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCA-TGGTTTTAATC-C
*
9482269 -CTCCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGA
9482296 CTTGCCATCT
Statistics
Matches: 157, Mismatches: 35, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
41 27 0.17
42 38 0.24
43 5 0.03
44 86 0.55
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCATGGTTTTAATCC
Found at i:9482197 original size:41 final size:42
Alignment explanation
Indices: 9482141--9482295 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
9482131 TCTTCTGTTT
* *
9482141 GCTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGTGATCT
1 GCTCCACTGCAACTTCAGAGAGATAAGATCT-GATTGTAATCC
* * * *
9482182 GCTCTATTGCAACTTCGGAGAGATAAGATCTGATTTTAATCC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGATTGTAATCC
9482224 GCTCCACTGCAACTTCAGAGAGATAAGAT-T-ATTGGCTTTAATCTC
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGATT-G---TAATC-C
*
9482269 -CTCCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGA
9482296 CTTGCCATCT
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
40 3 0.03
41 28 0.29
42 33 0.34
44 31 0.32
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTGATTGTAATCC
Found at i:9482274 original size:127 final size:129
Alignment explanation
Indices: 9482013--9482297 Score: 380
Period size: 127 Copynumber: 2.2 Consensus size: 129
9482003 CTTCGATCCA
* * * *
9482013 CTCCACTGCAACGTCAGAGAGATAAAACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAAATA
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAAATA
* * * * * * *
9482078 AGATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTTTG
66 AGATCCATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTTGCTTCTATCTC
* * * *
9482142 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGTGATCTGCTCTATTGCAACTTCGGAGAGATA
1 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAAATA
9482207 AGAT-C-TGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTA-TTGGCTT-TAATCT
66 AGATCCATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTT-GCTTCT-ATCT
9482268 C
129 C
*
9482269 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGAGAGATAAGACT
9482298 TGCCATCTTC
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
126 3 0.02
127 73 0.53
128 1 0.01
129 61 0.44
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAAATA
AGATCCATGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTTGCTTCTATCTC
Found at i:9482372 original size:50 final size:50
Alignment explanation
Indices: 9482304--9482573 Score: 220
Period size: 50 Copynumber: 5.4 Consensus size: 50
9482294 GACTTGCCAT
* * * *
9482304 CTTCAATCTGTTTAACTACAATGTCGGGGAAATAAGATTCACCATCGTAG
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
* * ** * * *
9482354 CTTCAATCTATTCCACTACACCGTCAGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
* * * * *
9482404 CTTCAATCTTTTTAATTATAATGTCAGGGAAACAAGATTCGCCGTCGT-G
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
** ** * * * *
9482453 ACTTCAATCTGTTCCCCTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
1 -CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
* * * * * * *
9482504 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCGTCGTCA-
1 CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGT-AG
*
9482554 CTTCAATCTGTTCCACTACA
1 CTTCAATCTGTTCAACTACA
9482574 CCGCCAAGGG
Statistics
Matches: 164, Mismatches: 53, Indels: 6
0.74 0.24 0.03
Matches are distributed among these distances:
49 1 0.01
50 162 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTACAATGTCAGGGAAATAAGATTCGCCGTCGTAG
Found at i:9482434 original size:100 final size:100
Alignment explanation
Indices: 9482304--9482612 Score: 453
Period size: 100 Copynumber: 3.1 Consensus size: 100
9482294 GACTTGCCAT
* * * * * *
9482304 CTTCAATCTGTTTAACTACAATGTCGGGGAAATAAGATTCACCATCGTAGCTTCAATCTATTCCA
1 CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
*
9482369 CTACACCGTCAGGGAAGTAAGATTCGCCGTTGTGG
66 CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
9482404 CTTCAATCTTTTTAATTATAATGTCAGGGAAACAAGATTCGCCGTCGT-GACTTCAATCTGTTCC
1 CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGTAG-CTTCAATCTGTTCC
*
9482468 CCTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
65 ACTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* *
9482504 CTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATCCGCCGTCGTCA-CTTCAATCTGTTCC
1 CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGT-AGCTTCAATCTGTTCC
9482568 ACTACACCGCCAAGGG-AGTAAGATTCGCCGTTGTGG
65 ACTACACCGCC-AGGGAAGTAAGATTCGCCGTTGTGG
*
9482604 CTTTAATCT
1 CTTCAATCT
9482613 ATTCCACTGT
Statistics
Matches: 189, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
99 1 0.01
100 184 0.97
101 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTACAATGTCGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
Found at i:9482591 original size:50 final size:50
Alignment explanation
Indices: 9482330--9482620 Score: 217
Period size: 50 Copynumber: 5.8 Consensus size: 50
9482320 TACAATGTCG
* * * * *
9482330 GGGAAATAAGATTCACCATCGT-AGCTTCAATCTATTCCACTACACCGTCA
1 GGGAAGTAAGATTCGCCGTCGTGA-CTTCAATCTGTTCCACTACACCGCCA
* * * ** * * ** *
9482380 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTATAATGTCA
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
** *
9482430 GGGAAACAAGATTCGCCGTCGTGACTTCAATCTGTTCCCCTACACCGCCA
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
* * * ** * * ** * *
9482480 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
** * *
9482530 GGGAAACAAGATCCGCCGTCGTCACTTCAATCTGTTCCACTACACCGCCAA
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCC-A
* * * *
9482581 GGG-AGTAAGATTCGCCGTTGTGGCTTTAATCTATTCCACT
1 GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACT
9482621 GTAATGCCCA
Statistics
Matches: 177, Mismatches: 62, Indels: 4
0.73 0.26 0.02
Matches are distributed among these distances:
50 174 0.98
51 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTCGTGACTTCAATCTGTTCCACTACACCGCCA
Found at i:9482794 original size:50 final size:50
Alignment explanation
Indices: 9482691--9482797 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 50
9482681 TCCAAGCATT
* * *
9482691 AACGCCAGGGAGATAAGATTCGCCATTGTGGCTTCAATCTGCTCCGCTAC
1 AACGCCAGGGAGATAAGATTCGCCATTGTGCCTTCAATCTACTCCACTAC
* * * *
9482741 AACGCCAGGGA-AGTAAGATTC-TCAGTTGTGCCTTCAATCTATTCCATTGC
1 AACGCCAGGGAGA-TAAGATTCGCCA-TTGTGCCTTCAATCTACTCCACTAC
9482791 AACGCCA
1 AACGCCA
9482798 AGACGATAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.06
50 45 0.94
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (50 bp):
AACGCCAGGGAGATAAGATTCGCCATTGTGCCTTCAATCTACTCCACTAC
Found at i:9482909 original size:88 final size:88
Alignment explanation
Indices: 9482809--9482987 Score: 261
Period size: 88 Copynumber: 2.0 Consensus size: 88
9482799 GACGATAAGA
* * * *
9482809 CTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAAGAAG-GCAAGATCTGCCATTTTCAACCTACT
1 CTGGTATCTTCGATCTACTTCACTGCCAATACAAGAAGAG-AAGATCTGCCATTTTCAACCTACT
9482873 CCACCGCTGCTCAGGGAGACAAGG
65 CCACCGCTGCTCAGGGAGACAAGG
* *
9482897 CTGGTATCTTCGATCTACTTCACTGCCAATACAGGAAGAGAAGATCTGCTATTTTCAACCTACTC
1 CTGGTATCTTCGATCTACTTCACTGCCAATACAAGAAGAGAAGATCTGCCATTTTCAACCTACTC
* * *
9482962 TACTGCTGCTCAGGGAGATAAGG
66 CACCGCTGCTCAGGGAGACAAGG
9482985 CTG
1 CTG
9482988 AAGTTTCACC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 80 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (88 bp):
CTGGTATCTTCGATCTACTTCACTGCCAATACAAGAAGAGAAGATCTGCCATTTTCAACCTACTC
CACCGCTGCTCAGGGAGACAAGG
Found at i:9484258 original size:13 final size:13
Alignment explanation
Indices: 9484230--9484272 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
9484220 CCTTAGCCTC
9484230 TCCATTTTTACTTTT
1 TCCA-TTTT-CTTTT
9484245 TCCATTTTCTTTT
1 TCCATTTTCTTTT
*
9484258 TTCATTTTCATTTT
1 TCCATTTTC-TTTT
9484272 T
1 T
9484273 TTGACAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.50
14 9 0.35
15 4 0.15
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.70
Consensus pattern (13 bp):
TCCATTTTCTTTT
Found at i:9484777 original size:17 final size:16
Alignment explanation
Indices: 9484743--9484779 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
9484733 CTGATAGAGG
9484743 TTTTGTTTCTTTTTCT
1 TTTTGTTTCTTTTTCT
*
9484759 TTTTGTTTTTTTGTTCT
1 TTTTGTTTCTTT-TTCT
9484776 TTTT
1 TTTT
9484780 TCTTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTCT
Found at i:9484807 original size:22 final size:22
Alignment explanation
Indices: 9484775--9484827 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9484765 TTTTTTGTTC
*
9484775 TTTTTTC--TTTTC-TTCCTTT
1 TTTTTTCTTTTTTCTTTCCTCT
9484794 ATTTTTTCTTTTTTCTTTCCTCT
1 -TTTTTTCTTTTTTCTTTCCTCT
*
9484817 TTTTTTGTTTT
1 TTTTTTCTTTT
9484828 GTTTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
22 15 0.54
23 6 0.21
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTCTTTTTTCTTTCCTCT
Found at i:9484827 original size:27 final size:26
Alignment explanation
Indices: 9484743--9484826 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
9484733 CTGATAGAGG
*
9484743 TTTTGTTTC-TTTTTCTTT-TTGTTT
1 TTTTGTTTCTTTTTTCTTTCTTCTTT
9484767 TTTTG-TTCTTTTTTCTTTTCTTCCTTT
1 TTTTGTTTCTTTTTTC-TTTCTT-CTTT
* *
9484794 ATTT-TTTCTTTTTTCTTTCCTCTTT
1 TTTTGTTTCTTTTTTCTTTCTTCTTT
9484819 TTTTGTTT
1 TTTTGTTT
9484827 TGTTTTTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.06
24 11 0.22
25 10 0.20
26 10 0.20
27 16 0.32
ACGTcount: A:0.01, C:0.14, G:0.05, T:0.80
Consensus pattern (26 bp):
TTTTGTTTCTTTTTTCTTTCTTCTTT
Found at i:9484832 original size:27 final size:27
Alignment explanation
Indices: 9484767--9484834 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
9484757 CTTTTTGTTT
*
9484767 TTTTGTTCTTTTTTCTTTTCTTCCTTTA
1 TTTT-TTCTTTTTTCTTTTCCTCCTTTA
* *
9484795 TTTTTTCTTTTTTC-TTTCCTCTTTTT
1 TTTTTTCTTTTTTCTTTTCCTCCTTTA
*
9484821 TTGTTTTGTTTTTT
1 TT-TTTTCTTTTTT
9484835 TGAATCTGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.31
27 20 0.57
28 4 0.11
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.79
Consensus pattern (27 bp):
TTTTTTCTTTTTTCTTTTCCTCCTTTA
Found at i:9484920 original size:14 final size:14
Alignment explanation
Indices: 9484897--9484930 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9484887 ATCAATATTG
* *
9484897 TTCCAGATAAGGTC
1 TTCCACATAAGATC
9484911 TTCCACATAAGATC
1 TTCCACATAAGATC
9484925 TTCCAC
1 TTCCAC
9484931 TTTCATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (14 bp):
TTCCACATAAGATC
Found at i:9487264 original size:25 final size:25
Alignment explanation
Indices: 9487190--9487264 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
9487180 CATATGAGCA
*
9487190 TGTA-AACGAGAAGCTCTTTCAAGC
1 TGTATAACGAGAAGCTCTTGCAAGC
** * * * **
9487214 CATATAACGGGAAACTCATGTGAGC
1 TGTATAACGAGAAGCTCTTGCAAGC
9487239 TGTATAACGAGAAGCTCTTGCAAGC
1 TGTATAACGAGAAGCTCTTGCAAGC
9487264 T
1 T
9487265 ATTTATTGCG
Statistics
Matches: 35, Mismatches: 15, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (25 bp):
TGTATAACGAGAAGCTCTTGCAAGC
Found at i:9487302 original size:25 final size:25
Alignment explanation
Indices: 9487274--9487344 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
9487264 TATTTATTGC
*
9487274 GAAGCTCAAAAGAGCCAAATATCAG
1 GAAGCTCATAAGAGCCAAATATCAG
* * * *
9487299 GAAGCTCGTGAGAGACAAATATCGG
1 GAAGCTCATAAGAGCCAAATATCAG
* *
9487324 GATGCTCATAAGAGCTAAATA
1 GAAGCTCATAAGAGCCAAATA
9487345 ACGAGAAGCT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCAAATATCAG
Found at i:9487355 original size:25 final size:25
Alignment explanation
Indices: 9487274--9487364 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
9487264 TATTTATTGC
* *
9487274 GAAGCTCAAAAGAGCCAAATATC-A
1 GAAGCTCATAAGAGCTAAATATCGA
* * *
9487298 GGAAGCTCGTGAGAGAC-AAATATCGG
1 -GAAGCTCATAAGAG-CTAAATATCGA
* *
9487324 GATGCTCATAAGAGCTAAATAACGA
1 GAAGCTCATAAGAGCTAAATATCGA
* *
9487349 GAAGCTCGTGAGAGCT
1 GAAGCTCATAAGAGCT
9487365 TTAGTGTATC
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (25 bp):
GAAGCTCATAAGAGCTAAATATCGA
Found at i:9487555 original size:22 final size:23
Alignment explanation
Indices: 9487506--9487556 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
9487496 TGAAAATTAC
9487506 ACAATTCAAACACATAACAATAT
1 ACAATTCAAACACATAACAATAT
* *
9487529 TCAATTCAAA-ACA-CACAAATAT
1 ACAATTCAAACACATAAC-AATAT
9487551 ACAATT
1 ACAATT
9487557 TAGTTACACG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 13 0.54
23 9 0.38
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (23 bp):
ACAATTCAAACACATAACAATAT
Done.