Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 18 of 410
Found at i:4541624 original size:24 final size:24
Alignment explanation
Indices: 4541597--4541643 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4541587 TAATTTTTTT
*
4541597 TATTAT-ATATTATATATTAAATAC
1 TATTATAAAATTAT-TATTAAATAC
*
4541621 TATTTTAAAATTATTATTAAATA
1 TATTATAAAATTATTATTAAATA
4541644 TCATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTATAAAATTATTATTAAATAC
Found at i:4541640 original size:12 final size:13
Alignment explanation
Indices: 4541596--4541644 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
4541586 ATAATTTTTT
*
4541596 TTATTATATATTA
1 TTATTAAATATTA
*
4541609 TATATTAAATACTA
1 T-TATTAAATATTA
4541623 TT-TTAAA-ATTA
1 TTATTAAATATTA
4541634 TTATTAAATAT
1 TTATTAAATAT
4541645 CATATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATTAAATATTA
Found at i:4541659 original size:26 final size:25
Alignment explanation
Indices: 4541603--4541661 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
4541593 TTTTTATTAT
4541603 ATATTATATATTAAATACTATTTTA
1 ATATTATATATTAAATACTATTTTA
* *
4541628 AAATTAT-TATTAAATATCATATTTTT
1 ATATTATATATTAAATA-C-TATTTTA
*
4541654 TTATTATA
1 ATATTATA
4541662 AGTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 9 0.33
25 7 0.26
26 11 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATTATATATTAAATACTATTTTA
Found at i:4542970 original size:18 final size:17
Alignment explanation
Indices: 4542929--4542987 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 17
4542919 CAATATATAG
* *
4542929 ATAAAATATATAATAGT
1 ATAAAATAAATAATAAT
* *
4542946 ATCAAATGACATAATAAT
1 ATAAAAT-AAATAATAAT
4542964 ATAAAATAAAT-ATAAT
1 ATAAAATAAATAATAAT
*
4542980 ATATAATA
1 ATAAAATA
4542988 TAAAAGTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 12 0.34
17 9 0.26
18 14 0.40
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAAAATAAATAATAAT
Found at i:4542985 original size:13 final size:13
Alignment explanation
Indices: 4542956--4543075 Score: 67
Period size: 13 Copynumber: 9.1 Consensus size: 13
4542946 ATCAAATGAC
4542956 ATAATAATATAAA-
1 ATAAT-ATATAAAT
4542969 ATAA-ATATAATAT
1 ATAATATATAA-AT
4542982 ATAATATA-AAAGT
1 ATAATATATAAA-T
*
4542995 AT--TATGTGAAA-
1 ATAATATAT-AAAT
4543006 ATAATATAT-AAT
1 ATAATATATAAAT
*
4543018 ATATATAAATAATAT
1 ATA-ATATATAA-AT
4543033 GAATAATATATAAA-
1 --ATAATATATAAAT
4543047 ATAATTATATAACAT
1 ATAA-TATATAA-AT
*
4543062 ATAATATAAAAAT
1 ATAATATATAAAT
4543075 A
1 A
4543076 AAAATAAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 34
0.69 0.04 0.27
Matches are distributed among these distances:
11 13 0.15
12 9 0.11
13 35 0.41
14 11 0.13
15 7 0.08
16 7 0.08
17 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (13 bp):
ATAATATATAAAT
Found at i:4543029 original size:20 final size:19
Alignment explanation
Indices: 4542956--4543070 Score: 101
Period size: 20 Copynumber: 5.8 Consensus size: 19
4542946 ATCAAATGAC
4542956 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
*
4542975 ATAATATATAATATAA-A-
1 ATAATATATAAAATAATAT
* *
4542992 AGTATTATGTGAAAATAATAT
1 A-TAATATAT-AAAATAATAT
4543013 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
4543033 GAATAATATATAAAATAATTAT
1 --ATAATATATAAAATAA-TAT
* *
4543055 ATAACATATAATATAA
1 ATAATATATAAAATAA
4543071 AAATAAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
17 1 0.01
18 17 0.21
19 12 0.15
20 30 0.38
21 7 0.09
22 13 0.16
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:4543058 original size:29 final size:29
Alignment explanation
Indices: 4543005--4543076 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
4542995 ATTATGTGAA
* *
4543005 AATAATATATAATAT-ATATAAATAATAT
1 AATAATATATAAAATAATATAAATAACAT
*
4543033 GAATAATATATAAAATAAT-TATATAACAT
1 -AATAATATATAAAATAATATAAATAACAT
4543062 -ATAATATA-AAAATAA
1 AATAATATATAAAATAA
4543077 AAATAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.18
27 8 0.21
29 22 0.56
30 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
AATAATATATAAAATAATATAAATAACAT
Found at i:4543959 original size:7 final size:7
Alignment explanation
Indices: 4543947--4543972 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4543937 ATAGCCACTG
4543947 AAAAAGA
1 AAAAAGA
4543954 AAAAAGA
1 AAAAAGA
4543961 AAAAAGA
1 AAAAAGA
4543968 AAAAA
1 AAAAA
4543973 ATATTTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:4548273 original size:3 final size:3
Alignment explanation
Indices: 4548265--4548315 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
4548255 TAAAAATTAA
4548265 AAT AAT AAT AAT AAT AAT 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
4548313 AAT
1 AAT
4548316 TCACGAGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4556298 original size:24 final size:24
Alignment explanation
Indices: 4556230--4556296 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
4556220 AATTAACTAT
4556230 TTTTTTAGAATTTAAAAAATTCAA
1 TTTTTTAGAATTTAAAAAATTCAA
* *
4556254 ATTTTTAGAATTTAAAAAATTGAA
1 TTTTTTAGAATTTAAAAAATTCAA
*
4556278 TTTTTTAAAAATTTAAAAA
1 TTTTTT-AGAATTTAAAAA
4556297 TTATTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
24 27 0.71
25 11 0.29
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTTTTAGAATTTAAAAAATTCAA
Found at i:4556303 original size:19 final size:20
Alignment explanation
Indices: 4556276--4556317 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4556266 TAAAAAATTG
* *
4556276 AATTTTTTAAAAA-TTTAAA
1 AATTATTTAAAAAGTATAAA
4556295 AATTATTTAAAAAGTATAAA
1 AATTATTTAAAAAGTATAAA
4556315 AAT
1 AAT
4556318 GTAAAACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTATTTAAAAAGTATAAA
Found at i:4568847 original size:18 final size:18
Alignment explanation
Indices: 4568824--4568858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4568814 AAATCAGAAG
4568824 TTAAATTTTTTAAATAAT
1 TTAAATTTTTTAAATAAT
*
4568842 TTAAATTTTTTATATAA
1 TTAAATTTTTTAAATAA
4568859 AATAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTTTTTAAATAAT
Found at i:4576585 original size:25 final size:25
Alignment explanation
Indices: 4576557--4576607 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4576547 AACTAGATTC
4576557 AAAACGTGCTATTAGAAGTAGACTA
1 AAAACGTGCTATTAGAAGTAGACTA
4576582 AAAACGTGCTATTAGAAGTAGACTA
1 AAAACGTGCTATTAGAAGTAGACTA
4576607 A
1 A
4576608 TATGCTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
AAAACGTGCTATTAGAAGTAGACTA
Found at i:4578672 original size:21 final size:22
Alignment explanation
Indices: 4578633--4578680 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4578623 TTTCCTTTAT
* *
4578633 TTTTATATATTTTTTTATAAAA
1 TTTTATATAATTTTCTATAAAA
4578655 TTTTAT-TAATTTTCTAT--AA
1 TTTTATATAATTTTCTATAAAA
4578674 TTTTATA
1 TTTTATA
4578681 GTTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATATAATTTTCTATAAAA
Found at i:4586201 original size:19 final size:21
Alignment explanation
Indices: 4586160--4586207 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
4586150 TAATTAAACA
4586160 TTTT-TAAAATTTATATATAT
1 TTTTATAAAATTTATATATAT
*
4586180 TTTTATAAAATTT-TA-ATTT
1 TTTTATAAAATTTATATATAT
4586199 TTTTATAAA
1 TTTTATAAA
4586208 TATATTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.46
20 6 0.23
21 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATAAAATTTATATATAT
Found at i:4586239 original size:19 final size:19
Alignment explanation
Indices: 4586180--4586243 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
4586170 TTATATATAT
* *
4586180 TTTTATAAA-ATTTTAATTT
1 TTTTA-AAATATTTTGATTG
* *
4586199 TTTTATAAATATATTGAATG
1 TTTTA-AAATATTTTGATTG
*
4586219 TTTTAAATTATTTTGATTG
1 TTTTAAAATATTTTGATTG
4586238 TTTTAA
1 TTTTAA
4586244 TTTTTGGAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
19 26 0.70
20 11 0.30
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
TTTTAAAATATTTTGATTG
Found at i:4586465 original size:7 final size:7
Alignment explanation
Indices: 4586455--4586480 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4586445 AGAATTTAGA
4586455 GTTTACG
1 GTTTACG
4586462 GTTTACG
1 GTTTACG
4586469 GTTTACG
1 GTTTACG
4586476 GTTTA
1 GTTTA
4586481 AGGCTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.27, T:0.46
Consensus pattern (7 bp):
GTTTACG
Found at i:4591571 original size:23 final size:24
Alignment explanation
Indices: 4591539--4591584 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4591529 CATAGTAAGA
*
4591539 TTAGAACC-TTGACATGTTTCATT
1 TTAGAACCTTTAACATGTTTCATT
*
4591562 TTAGACCCTTTAACATGTTTCAT
1 TTAGAACCTTTAACATGTTTCAT
4591585 CTTCTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAGAACCTTTAACATGTTTCATT
Found at i:4595063 original size:26 final size:26
Alignment explanation
Indices: 4595027--4595099 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
4595017 CGTCGTTCTT
*
4595027 AGTTATGCCAAATGCAACCATATCTA
1 AGTTATGCCAAATTCAACCATATCTA
4595053 AGTTATGCCAAATTCAACCATATCTA
1 AGTTATGCCAAATTCAACCATATCTA
4595079 AGTTATGCCAAATTCAACCAT
1 AGTTATGCCAAATTCAACCAT
4595100 GGTGTAACCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (26 bp):
AGTTATGCCAAATTCAACCATATCTA
Found at i:4597002 original size:29 final size:29
Alignment explanation
Indices: 4596960--4597018 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4596950 GAGAAGCTAG
4596960 TTGTGCTATATTACTCCTAATTTTTTCTT
1 TTGTGCTATATTACTCCTAATTTTTTCTT
4596989 TTGTGCTATATTACTCCTAATTTTTTCTT
1 TTGTGCTATATTACTCCTAATTTTTTCTT
4597018 T
1 T
4597019 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (29 bp):
TTGTGCTATATTACTCCTAATTTTTTCTT
Found at i:4606137 original size:36 final size:36
Alignment explanation
Indices: 4606097--4606190 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 36
4606087 TGCTACCGTT
*
4606097 TTGTTATCATTTTGCTATTATATTACTACTATTTTA
1 TTGTTATTATTTTGCTATTATATTACTACTATTTTA
* * * * *
4606133 TTGTTATTA-TTTGAATCTTGTATAACTATTATTTTA
1 TTGTTATTATTTTG-CTATTATATTACTACTATTTTA
4606169 ---TTATTATTTTGCTATTATATTA
1 TTGTTATTATTTTGCTATTATATTA
4606191 AAGACATTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
33 13 0.28
34 4 0.09
35 4 0.09
36 25 0.54
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.60
Consensus pattern (36 bp):
TTGTTATTATTTTGCTATTATATTACTACTATTTTA
Found at i:4606943 original size:29 final size:30
Alignment explanation
Indices: 4606895--4606954 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
4606885 CGAAGGCAGA
*
4606895 AAATTTTTAAAAGATCAAAATTA-AATTTT
1 AAATTTTTAAAAGATCAAAAATATAATTTT
4606924 AAATTTTTATAATA-AT-AAAAATATAATTTT
1 AAATTTTTA-AA-AGATCAAAAATATAATTTT
4606954 A
1 A
4606955 TTATTCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 15 0.56
30 11 0.41
31 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AAATTTTTAAAAGATCAAAAATATAATTTT
Found at i:4614284 original size:19 final size:18
Alignment explanation
Indices: 4614251--4614286 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4614241 AATTCTCTCA
4614251 TATTTTAATTAGATGTTT
1 TATTTTAATTAGATGTTT
*
4614269 TATTTTCAATTTGATGTT
1 TATTTT-AATTAGATGTT
4614287 CATTTTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (18 bp):
TATTTTAATTAGATGTTT
Found at i:4616118 original size:60 final size:59
Alignment explanation
Indices: 4615985--4616118 Score: 130
Period size: 59 Copynumber: 2.3 Consensus size: 59
4615975 TAAAACCTAC
* * * * * *
4615985 ATTTTTTAAA-TTTTAGAGTTAGAATTAAATTGATAGATTTATAAATATTAAAGGTTAA
1 ATTTATTAAATTTTTAGAGTTAGAAGTAAAATGAAAAATTTATAAATAGTAAAGGTTAA
* * *
4616043 AGTTATT-AATCTTTTAGAGTTAGAAGTAAAATGAAAAATTT-TGAAAATAGTGAGGGTTAA
1 ATTTATTAAAT-TTTTAGAGTTAGAAGTAAAATGAAAAATTTAT--AAATAGTAAAGGTTAA
*
4616103 ATTTGTTAAATTTTTA
1 ATTTATTAAATTTTTA
4616119 TATTTTAGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
57 2 0.03
58 6 0.10
59 26 0.43
60 23 0.38
61 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.43
Consensus pattern (59 bp):
ATTTATTAAATTTTTAGAGTTAGAAGTAAAATGAAAAATTTATAAATAGTAAAGGTTAA
Found at i:4617602 original size:42 final size:42
Alignment explanation
Indices: 4617518--4617609 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
4617508 GGGCTCCCAT
* * *
4617518 GGCCGTGGGGCTAGCTCGTGGGCAGATCTGTCTTGCTTACAC
1 GGCCGTGGGACTAGCTCGTGGGCAGATCTGGCTTGCTCACAC
4617560 GGCCGTGGGACTAGC-CTGTGGGC-GATTCTGGCTTTGC-CACAC
1 GGCCGTGGGACTAGCTC-GTGGGCAGA-TCTGGC-TTGCTCACAC
4617602 GGCC-TGGG
1 GGCCGTGGG
4617610 TATACGCCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 7 0.16
42 33 0.75
43 4 0.09
ACGTcount: A:0.11, C:0.27, G:0.38, T:0.24
Consensus pattern (42 bp):
GGCCGTGGGACTAGCTCGTGGGCAGATCTGGCTTGCTCACAC
Found at i:4618393 original size:46 final size:50
Alignment explanation
Indices: 4618318--4618500 Score: 171
Period size: 52 Copynumber: 3.6 Consensus size: 50
4618308 TCACATATCA
* * *
4618318 CACACCGAAGCCATAGCCCTA-CTATGGTCTTACACGG-ATCAC-ATCA-T
1 CACACCGATGCCATAGCCC-AGATATGGTCTTATACGGAATCACTATCAGT
* *
4618365 -ACACTGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCATGT
1 CACACCGATGCCATAGCCCAGATATGGTCTTATACGGAATCAC--TATCA-GT
* *
4618417 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACATATCACAT
1 CACACCGATGCCATAGCCCAGATATGGTCTTATAC-GGAATCAC-TATCA-GT
** *
4618469 TGCACCGATGCCATAGCCCAGTTATGGTCTTA
1 CACACCGATGCCATAGCCCAGATATGGTCTTA
4618501 AACAGGCGCA
Statistics
Matches: 113, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 29 0.26
47 5 0.04
50 4 0.04
52 36 0.32
53 34 0.30
54 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
CACACCGATGCCATAGCCCAGATATGGTCTTATACGGAATCACTATCAGT
Found at i:4618487 original size:52 final size:53
Alignment explanation
Indices: 4618355--4618500 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 53
4618345 TCTTACACGG
* *
4618355 ATCACATCATACACTGATGCCATATCCCAGATATGGTCTTATACGGAATCACATT
1 ATCACATC--ACACCGATGCCATAGCCCAGATATGGTCTTATACGGAATCACATT
** *
4618410 ATCATGTCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-T
1 ATCACATCACACCGATGCCATAGCCCAGATATGGTCTTATAC-GGAATCACATT
** *
4618462 ATCACATTGCACCGATGCCATAGCCCAGTTATGGTCTTA
1 ATCACATCACACCGATGCCATAGCCCAGATATGGTCTTA
4618501 AACAGGCGCA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 35 0.44
53 35 0.44
54 4 0.05
55 6 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
ATCACATCACACCGATGCCATAGCCCAGATATGGTCTTATACGGAATCACATT
Found at i:4618513 original size:52 final size:52
Alignment explanation
Indices: 4618370--4618517 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 52
4618360 ATCATACACT
* * * ** **
4618370 GATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCATGTCACACC
1 GATGCCATAGCCCAGCTATGGTCTTAAACAGGAA-CACA-TATCACATTGCACC
* *
4618423 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATTGCACC
1 GATGCCATAGCCCAGCTATGGTCTTAAACAGGAACACATATCACATTGCACC
* **
4618475 GATGCCATAGCCCAGTTATGGTCTTAAACAGGCGCACATATCA
1 GATGCCATAGCCCAGCTATGGTCTTAAACAGGAACACATATCA
4618518 TATCTTTTTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 48 0.58
53 31 0.37
54 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTAAACAGGAACACATATCACATTGCACC
Found at i:4623584 original size:30 final size:30
Alignment explanation
Indices: 4623548--4623608 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
4623538 TTATGGATGC
4623548 GAATGTCCGAACTCGTTGAGTTGAGTCCGA
1 GAATGTCCGAACTCGTTGAGTTGAGTCCGA
4623578 GAATGTCCGAACTCGTTGAGTTGAGTCCGA
1 GAATGTCCGAACTCGTTGAGTTGAGTCCGA
4623608 G
1 G
4623609 TTCGTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (30 bp):
GAATGTCCGAACTCGTTGAGTTGAGTCCGA
Found at i:4623703 original size:46 final size:46
Alignment explanation
Indices: 4623631--4623758 Score: 238
Period size: 46 Copynumber: 2.8 Consensus size: 46
4623621 AACTAGGCAT
*
4623631 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
4623677 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
4623723 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4623759 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:4643828 original size:9 final size:9
Alignment explanation
Indices: 4643814--4643842 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4643804 GATTCTCACT
4643814 TTATCAAGA
1 TTATCAAGA
4643823 TTATCAAGA
1 TTATCAAGA
4643832 TTATCAAGA
1 TTATCAAGA
4643841 TT
1 TT
4643843 CGATAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (9 bp):
TTATCAAGA
Found at i:4654008 original size:120 final size:120
Alignment explanation
Indices: 4653795--4654035 Score: 455
Period size: 120 Copynumber: 2.0 Consensus size: 120
4653785 ATTCACATTG
*
4653795 TGTGGGCTATGATTGGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
1 TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
4653860 TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
66 TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
*
4653915 TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACATT
1 TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
*
4653980 TCGACCATTAGTCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
66 TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
4654035 T
1 T
4654036 CTTCTGACCT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (120 bp):
TGTGGGCTATGATTAGAGCTTGAACCTTGTAAAAATATGGGCCCACGTAGATCCTGATTGACACT
TCGACCATTAATCAGTCTCCCAGGAAAAATGACATTTGCTGGCTCAATCCGCCTT
Found at i:4657435 original size:28 final size:28
Alignment explanation
Indices: 4657404--4657462 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
4657394 TCCTACCTTG
4657404 ATTTAAAATATAAATTTTAAAATTATTA
1 ATTTAAAATATAAATTTTAAAATTATTA
** * *
4657432 ATTTTTACTCTAAATTTTAAAATTATTA
1 ATTTAAAATATAAATTTTAAAATTATTA
4657460 ATT
1 ATT
4657463 ATATTCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTAAAATATAAATTTTAAAATTATTA
Found at i:4657436 original size:15 final size:15
Alignment explanation
Indices: 4657405--4657462 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
4657395 CCTACCTTGA
*
4657405 TTTAAAA-TATAAAT
1 TTTAAAATTATTAAT
4657419 TTTAAAATTATTAAT
1 TTTAAAATTATTAAT
* *
4657434 TTT-TACTCTA--AAT
1 TTTAAAAT-TATTAAT
4657447 TTTAAAATTATTAAT
1 TTTAAAATTATTAAT
4657462 T
1 T
4657463 ATATTCAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.24
14 11 0.32
15 15 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAAAATTATTAAT
Found at i:4665525 original size:12 final size:12
Alignment explanation
Indices: 4665510--4665558 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
4665500 GGTTATTTCT
4665510 ATTTCAATTTTA
1 ATTTCAATTTTA
* *
4665522 ATTTCGATTCTA
1 ATTTCAATTTTA
* *
4665534 ATTTCGATTTTG
1 ATTTCAATTTTA
4665546 ATTTCAATTTTA
1 ATTTCAATTTTA
4665558 A
1 A
4665559 AACACTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (12 bp):
ATTTCAATTTTA
Found at i:4665554 original size:18 final size:18
Alignment explanation
Indices: 4665504--4665555 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
4665494 ATTTAGGGTT
* *
4665504 ATTTCTATTTCAATTTTA
1 ATTTCGATTTCAATTTCA
*
4665522 ATTTCGA-TTCTAATTTCG
1 ATTTCGATTTC-AATTTCA
*
4665540 ATTTTGATTTCAATTT
1 ATTTCGATTTCAATTT
4665556 TAAAACACTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCAATTTCA
Found at i:4665578 original size:6 final size:6
Alignment explanation
Indices: 4665567--4665627 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
4665557 AAAACACTCA
*** * * * * *
4665567 TTGATT TTGATT TTGATT CCAATT TTGATC TCGATT TAGATT TAGAAT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT
4665615 TTGATT TTGATT T
1 TTGATT TTGATT T
4665628 CGATCTGGAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.56
Consensus pattern (6 bp):
TTGATT
Found at i:4665609 original size:18 final size:18
Alignment explanation
Indices: 4665588--4665647 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
4665578 TTTGATTCCA
*
4665588 ATTTTGATCTCGATTTAG
1 ATTTAGATCTCGATTTAG
* *
4665606 ATTTAGAAT-TTGATTTTG
1 ATTTAG-ATCTCGATTTAG
* * *
4665624 ATTTCGATCTGGATTTCG
1 ATTTAGATCTCGATTTAG
4665642 ATTTAG
1 ATTTAG
4665648 GGTTATTTCG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 29 0.88
19 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.50
Consensus pattern (18 bp):
ATTTAGATCTCGATTTAG
Found at i:4665836 original size:47 final size:48
Alignment explanation
Indices: 4665700--4665850 Score: 250
Period size: 48 Copynumber: 3.2 Consensus size: 48
4665690 ATTATTTGTT
*
4665700 TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTTTGTATA
1 TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
*
4665748 TCTGCCATTATATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
1 TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
* * *
4665796 TCTGCCATTGTATGAAT-ACATTATCAAACTGATGTTTATTGTGTATA
1 TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
4665843 TCTGCCAT
1 TCTGCCAT
4665851 GATGTTTATT
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 35 0.36
48 62 0.64
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (48 bp):
TCTGCCATTGTATGAATGCCATTATCAAATTGATGTGTATTGTGTATA
Found at i:4666175 original size:15 final size:15
Alignment explanation
Indices: 4666155--4666183 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4666145 GAAGAAAACA
4666155 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
4666170 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
4666184 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:4667916 original size:43 final size:43
Alignment explanation
Indices: 4667825--4668045 Score: 360
Period size: 43 Copynumber: 5.2 Consensus size: 43
4667815 TTGCTGATCA
* *
4667825 CATGCACTGATTGTTGGAAAGCTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
4667867 TATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
4667910 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
4667953 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
4667996 TATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
4668036 CATGCAATGA
1 CATGCAATGA
4668046 GTTTTTTTTA
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
40 29 0.17
41 1 0.01
42 27 0.16
43 113 0.66
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.43
Consensus pattern (43 bp):
CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:4668080 original size:27 final size:26
Alignment explanation
Indices: 4668024--4668083 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
4668014 GTGTTGCCTA
* **
4668024 TTTTTTAATATGCATGCAATGAGTTT
1 TTTTTTAATATGCATGCAATGACTAC
* *
4668050 TTTTTATAATATGCATGTAGTGACTAC
1 TTTTT-TAATATGCATGCAATGACTAC
4668077 TTTTTTA
1 TTTTTTA
4668084 GGGGGTGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (26 bp):
TTTTTTAATATGCATGCAATGACTAC
Found at i:4668735 original size:21 final size:21
Alignment explanation
Indices: 4668709--4668748 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4668699 TATCCGAACC
4668709 CAGCAACAGGCTACCCCAAGT
1 CAGCAACAGGCTACCCCAAGT
* *
4668730 CAGCAAGAGGGTACCCCAA
1 CAGCAACAGGCTACCCCAA
4668749 CTTAACAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.23, T:0.07
Consensus pattern (21 bp):
CAGCAACAGGCTACCCCAAGT
Found at i:4668785 original size:21 final size:21
Alignment explanation
Indices: 4668759--4668812 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
4668749 CTTAACAAGG
*
4668759 TGCCCCAACTCAGCTACCTAC
1 TGCCCCAACTCAGATACCTAC
4668780 TGCCCCAACTCAGATACCTAC
1 TGCCCCAACTCAGATACCTAC
4668801 TGCCCCAACTCA
1 TGCCCCAACTCA
4668813 TCAAGAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.46, G:0.09, T:0.19
Consensus pattern (21 bp):
TGCCCCAACTCAGATACCTAC
Found at i:4669304 original size:59 final size:59
Alignment explanation
Indices: 4669210--4669346 Score: 202
Period size: 59 Copynumber: 2.3 Consensus size: 59
4669200 TATTTATTAT
* * *
4669210 CCAACTGTTAAGCAATTTGTATACCAACTGTTATCTTTTCTAACTAGCAGCCATGTATA
1 CCAACTGTTAAGCAATTTGCATACCAACTGTTATCTTTTCTAACCAACAGCCATGTATA
* * * *
4669269 CTAACTGTTAAGCAATTTGCATATCAATTGTTATCTTTTCTAACCAATAGCCATGTATA
1 CCAACTGTTAAGCAATTTGCATACCAACTGTTATCTTTTCTAACCAACAGCCATGTATA
*
4669328 CCAAGTGTTAAGCAATTTG
1 CCAACTGTTAAGCAATTTG
4669347 TAAACAACAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (59 bp):
CCAACTGTTAAGCAATTTGCATACCAACTGTTATCTTTTCTAACCAACAGCCATGTATA
Found at i:4669541 original size:14 final size:14
Alignment explanation
Indices: 4669522--4669556 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
4669512 TACCAACATA
4669522 AGCAACAATTTACC
1 AGCAACAATTTACC
4669536 AGCAACAATTTACC
1 AGCAACAATTTACC
4669550 AGCAACA
1 AGCAACA
4669557 TAATTACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.17
Consensus pattern (14 bp):
AGCAACAATTTACC
Found at i:4669932 original size:20 final size:20
Alignment explanation
Indices: 4669907--4669946 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4669897 TCCATTTTTC
*
4669907 CTCTT-CTCCTTCTTCTTCTT
1 CTCTTCCTCC-TCCTCTTCTT
4669927 CTCTTCCTCCTCCTCTTCTT
1 CTCTTCCTCCTCCTCTTCTT
4669947 TTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCTTCCTCCTCCTCTTCTT
Found at i:4672364 original size:18 final size:19
Alignment explanation
Indices: 4672325--4672365 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
4672315 TTGACATAAA
*
4672325 ATAA-TAATTCATTAATAT
1 ATAATTAATTCATTAATAG
*
4672343 ATAATTAATT-ATTATTAG
1 ATAATTAATTCATTAATAG
4672361 ATAAT
1 ATAAT
4672366 AACAAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
ATAATTAATTCATTAATAG
Found at i:4675120 original size:37 final size:37
Alignment explanation
Indices: 4675067--4675158 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
4675057 ATTCCAAAAA
*
4675067 TAATA-TTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTTATCTTAATAGTATT-ATATT-AATTTAATAT
*
4675103 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATATTTATCTTAATAGTATTATATTAATTTAATAT
*
4675140 TAAAATGATTATCTTAATA
1 TAATAT--TTATCTTAATA
4675159 TTAAATTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.27
37 22 0.46
38 2 0.04
39 11 0.23
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (37 bp):
TAATATTTATCTTAATAGTATTATATTAATTTAATAT
Found at i:4675142 original size:11 final size:11
Alignment explanation
Indices: 4675067--4675142 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
4675057 ATTCCAAAAA
*
4675067 TAATATTATTT
1 TAATATTAATT
4675078 TAATAGTTTAATAT
1 TAATA--TTAAT-T
4675092 TAA-ATTTAATT
1 TAATA-TTAATT
*
4675103 TAATATTTATCT
1 TAATATTAAT-T
*
4675115 TAATAGT-ATT
1 TAATATTAATT
4675125 T--TATTAATT
1 TAATATTAATT
4675134 TAATATTAA
1 TAATATTAA
4675143 AATGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:4678506 original size:33 final size:32
Alignment explanation
Indices: 4678461--4678522 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
4678451 AATATGTAGA
*
4678461 TTGAATAAAATCAAAGTTTCATATATATATAT
1 TTGAACAAAATCAAAGTTTCATATATATATAT
*
4678493 TTGAACAACAATCAAAGTTTCATGTATATA
1 TTGAACAA-AATCAAAGTTTCATATATATA
4678523 ATTGCACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (32 bp):
TTGAACAAAATCAAAGTTTCATATATATATAT
Found at i:4692113 original size:18 final size:19
Alignment explanation
Indices: 4692063--4692122 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
4692053 ATTAAATTCT
* * *
4692063 AAAAAGTTAAAATAATATAT
1 AAAAAGTTAAAAT-TTAGAA
*
4692083 AAAAATTTGAAAATTTA-AA
1 AAAAAGTT-AAAATTTAGAA
4692102 AAAAAGTTAAAATTTAGAA
1 AAAAAGTTAAAATTTAGAA
4692121 AA
1 AA
4692123 TTACAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.24
19 12 0.35
20 9 0.26
21 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAAAAGTTAAAATTTAGAA
Found at i:4704251 original size:21 final size:21
Alignment explanation
Indices: 4704225--4704276 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
4704215 CATCTAATAG
*
4704225 TGTTCACACACACCATAAACA
1 TGTTCACACACAACATAAACA
** *
4704246 TGTTCACACTTAACATAAAGA
1 TGTTCACACACAACATAAACA
4704267 TGTTCACACA
1 TGTTCACACA
4704277 TAGGTCATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (21 bp):
TGTTCACACACAACATAAACA
Found at i:4705704 original size:18 final size:18
Alignment explanation
Indices: 4705653--4705704 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
4705643 TAGTTGCTCT
*
4705653 ATAACAGTCAATTATACA
1 ATAACAGTCAATTATTCA
*
4705671 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
4705689 ATAACAGTTAATTATT
1 ATAACAGTCAATTATT
4705705 TCGTAGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:4710234 original size:17 final size:15
Alignment explanation
Indices: 4710210--4710252 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 15
4710200 GGGCCCATAC
4710210 AAAAACCAAAAAACAA
1 AAAAACCAAAAAA-AA
4710226 AATAAACCAAAAAAAA
1 AA-AAACCAAAAAAAA
4710242 AAAAACCAAAA
1 AAAAACCAAAA
4710253 TTAAAGTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 6 0.23
17 11 0.42
ACGTcount: A:0.81, C:0.16, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAACCAAAAAAAA
Found at i:4719057 original size:18 final size:18
Alignment explanation
Indices: 4719034--4719085 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
4719024 AATTTATATG
4719034 AAAATCCCTAAAGGATTT
1 AAAATCCCTAAAGGATTT
4719052 AAAATCCCTAAAGGATTT
1 AAAATCCCTAAAGGATTT
* *
4719070 AAAATTCCAAAAGGAT
1 AAAATCCCTAAAGGAT
4719086 ATACAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (18 bp):
AAAATCCCTAAAGGATTT
Found at i:4721186 original size:7 final size:7
Alignment explanation
Indices: 4721174--4721212 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
4721164 AAGTAATCCT
4721174 TACAGGA
1 TACAGGA
4721181 TACAGGA
1 TACAGGA
4721188 TACAGGA
1 TACAGGA
4721195 TACAGGA
1 TACAGGA
4721202 TACAGGA
1 TACAGGA
4721209 TACA
1 TACA
4721213 CGAGCCTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (7 bp):
TACAGGA
Found at i:4723337 original size:1 final size:1
Alignment explanation
Indices: 4723331--4723358 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4723321 ATGAACTAAG
4723331 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
4723359 GGTGTTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4728468 original size:17 final size:17
Alignment explanation
Indices: 4728446--4728479 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4728436 TGATCAAATG
4728446 ATAATTAAAAAAATTAT
1 ATAATTAAAAAAATTAT
**
4728463 ATAATTAGTAAAATTAT
1 ATAATTAAAAAAATTAT
4728480 GTCAATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAATTAAAAAAATTAT
Found at i:4729323 original size:54 final size:54
Alignment explanation
Indices: 4729262--4729369 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
4729252 AATGCAAAGA
4729262 AGACATACCTGAACCCTCTATTGAATCTATCTTTATGAAGCATTCAATTTGATT
1 AGACATACCTGAACCCTCTATTGAATCTATCTTTATGAAGCATTCAATTTGATT
4729316 AGACATACCTGAACCCTCTATTGAATCTATCTTTATGAAGCATTCAATTTGATT
1 AGACATACCTGAACCCTCTATTGAATCTATCTTTATGAAGCATTCAATTTGATT
4729370 TCAACTATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (54 bp):
AGACATACCTGAACCCTCTATTGAATCTATCTTTATGAAGCATTCAATTTGATT
Found at i:4729518 original size:17 final size:17
Alignment explanation
Indices: 4729498--4729531 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4729488 AGGTTTAGGT
4729498 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
4729515 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
4729532 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:4729680 original size:31 final size:29
Alignment explanation
Indices: 4729645--4729704 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
4729635 GTGATCACTT
4729645 CGTAACAAAATAATAATATAAGTGACTAAAA
1 CGTAAC-AAATAAT-ATATAAGTGACTAAAA
** *
4729676 CGTAACATTTCATATATAAGTGACTAAAA
1 CGTAACAAATAATATATAAGTGACTAAAA
4729705 TATAAACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.62
30 4 0.15
31 6 0.23
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (29 bp):
CGTAACAAATAATATATAAGTGACTAAAA
Found at i:4747645 original size:12 final size:12
Alignment explanation
Indices: 4747628--4747653 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4747618 AAGCTACTTA
4747628 TATAGTCAATGT
1 TATAGTCAATGT
4747640 TATAGTCAATGT
1 TATAGTCAATGT
4747652 TA
1 TA
4747654 ACAGCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
TATAGTCAATGT
Found at i:4748723 original size:2 final size:2
Alignment explanation
Indices: 4748716--4748749 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4748706 AAGAACTAAA
4748716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4748750 TAATCAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4762989 original size:15 final size:17
Alignment explanation
Indices: 4762969--4763000 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4762959 CTATGCTTTC
4762969 GTCA-TTGGA-AGCTAT
1 GTCATTTGGACAGCTAT
4762984 GTCATTTGGACAGCTAT
1 GTCATTTGGACAGCTAT
4763001 TGCTGGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (17 bp):
GTCATTTGGACAGCTAT
Found at i:4774122 original size:21 final size:21
Alignment explanation
Indices: 4774098--4774139 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4774088 CTTTTTAATT
*
4774098 AATTGACTAACCAAACGTTAA
1 AATTGACTAACAAAACGTTAA
**
4774119 AATTTTCTAACAAAACGTTAA
1 AATTGACTAACAAAACGTTAA
4774140 TACTAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.29
Consensus pattern (21 bp):
AATTGACTAACAAAACGTTAA
Found at i:4775921 original size:75 final size:73
Alignment explanation
Indices: 4775833--4776004 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
4775823 GGTTTTCCTC
*** * * **
4775833 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
4775897 TCAGTATGG
65 TCAGTATGG
*
4775906 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
4775971 CTCAGTATGG
64 CTCAGTATGG
4775981 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
4776005 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:4776002 original size:35 final size:35
Alignment explanation
Indices: 4775838--4776004 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
4775828 TCCTCATTGA
*** *
4775838 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
4775873 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
4775913 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
4775948 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
4775983 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
4776005 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:4783401 original size:35 final size:35
Alignment explanation
Indices: 4783336--4783501 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
4783326 TCCTCATTGA
** *
4783336 AATACCATACCTACATTT-TTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
4783370 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
4783410 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
4783445 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
4783480 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
4783502 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
34 17 0.14
35 71 0.60
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:4783460 original size:75 final size:72
Alignment explanation
Indices: 4783331--4783503 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 72
4783321 GGTTTTCCTC
* * * **
4783331 ATTGAAATACCATACCTACATTTTTA-ACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACA-TTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACT
4783395 CAGTATGG
65 CAGTATGG
4783403 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACA-CTCAGTATGGGA-AATACCATACCTACATTTCACA
4783467 ACTCAGTATGG
62 ACTCAGTATGG
4783478 A-TG--ATACCATACCTACATTTCACACT
1 ATTGAAATACCATACCTACATTTCACACT
4783504 TTGCCATGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
69 2 0.02
70 21 0.23
72 1 0.01
73 10 0.11
74 19 0.21
75 38 0.42
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
ATTGAAATACCATACCTACATTTCACACTCAGTATGGGAAATACCATACCTACATTTCACAACTC
AGTATGG
Found at i:4786959 original size:15 final size:15
Alignment explanation
Indices: 4786939--4786968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4786929 TATTTTATTT
*
4786939 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4786954 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4786969 TAAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4790735 original size:18 final size:18
Alignment explanation
Indices: 4790657--4790745 Score: 65
Period size: 18 Copynumber: 4.9 Consensus size: 18
4790647 ATATACACAT
*
4790657 TAAAAAATATA-AAAATG
1 TAAAAAATATATAAAATA
*
4790674 GAAATAAATATATAAAATA
1 TAAA-AAATATATAAAATA
** *
4790693 TTCAAAATATTCATAAAATC
1 TAAAAAATA-T-ATAAAATA
*
4790713 T-AAAAATATATAAATTA
1 TAAAAAATATATAAAATA
* *
4790730 TAAAAATTTTATAAAA
1 TAAAAAATATATAAAA
4790746 AAATTACAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
17 10 0.18
18 24 0.44
19 13 0.24
20 8 0.15
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAAATATATAAAATA
Found at i:4793215 original size:20 final size:20
Alignment explanation
Indices: 4793177--4793215 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4793167 GAATCGAGTT
*
4793177 ACAGAATATTATAGTACAAA
1 ACAGAATATTATAGAACAAA
4793197 ACAGAATATTTATA-AACAA
1 ACAGAATA-TTATAGAACAA
4793216 TTTAACAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (20 bp):
ACAGAATATTATAGAACAAA
Found at i:4797446 original size:41 final size:41
Alignment explanation
Indices: 4797391--4797525 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 41
4797381 ACGGTCATTT
* * *
4797391 CACATGCCCGTGGGCTTACCGTGTGTCACACAAGTCCTAGA
1 CACACGCCCATGGGCTTACCGTGTGTCACACAAGGCCTAGA
*
4797432 CACACGCCCATGGGCTTACCGTGTGTCAGA-AACGGCCTAGA
1 CACACGCCCATGGGCTTACCGTGTGTCACACAA-GGCCTAGA
* * *
4797473 CACACGCCCGTGGGCTTACCGTGTGTCATACACGGCCTAGA
1 CACACGCCCATGGGCTTACCGTGTGTCACACAAGGCCTAGA
*
4797514 CACACGCTCATG
1 CACACGCCCATG
4797526 TGTCTAACCA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 2 0.02
41 80 0.96
42 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (41 bp):
CACACGCCCATGGGCTTACCGTGTGTCACACAAGGCCTAGA
Found at i:4799174 original size:50 final size:50
Alignment explanation
Indices: 4799099--4799324 Score: 235
Period size: 50 Copynumber: 4.5 Consensus size: 50
4799089 TGAATACACG
* * *
4799099 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAATTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * ** *
4799149 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * *
4799200 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
4799250 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
*
4799299 TGTGAAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
4799325 TGCGTATCAG
Statistics
Matches: 150, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 32 0.21
50 74 0.49
51 35 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:4801212 original size:16 final size:16
Alignment explanation
Indices: 4801191--4801222 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4801181 AAAGAAAGGG
4801191 TTACATGGGATTTCTT
1 TTACATGGGATTTCTT
4801207 TTACATGGGATTTCTT
1 TTACATGGGATTTCTT
4801223 CCAAGAGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
TTACATGGGATTTCTT
Found at i:4805466 original size:32 final size:33
Alignment explanation
Indices: 4805428--4805490 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
4805418 TATGGTATAC
*
4805428 ACAAAGTATACCTAACCTTTCCAAG-TGTACAT
1 ACAAAGTATACATAACCTTTCCAAGTTGTACAT
* *
4805460 ACAAAGTGTACATAACCTTTTCAAGTTGTAC
1 ACAAAGTATACATAACCTTTCCAAGTTGTAC
4805491 CATTTGGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (33 bp):
ACAAAGTATACATAACCTTTCCAAGTTGTACAT
Found at i:4807447 original size:40 final size:40
Alignment explanation
Indices: 4807368--4807584 Score: 296
Period size: 40 Copynumber: 5.5 Consensus size: 40
4807358 CGGATGATAA
* * *
4807368 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * *
4807408 CCGAGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
*
4807448 CCGGGCTAAGACCCGAATGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
4807488 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
4807528 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
4807568 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
4807585 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 15 0.10
40 138 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:4807853 original size:22 final size:22
Alignment explanation
Indices: 4807813--4807854 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4807803 GAATGTGCAT
*
4807813 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
4807835 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
4807855 TCAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:4809826 original size:17 final size:18
Alignment explanation
Indices: 4809804--4809839 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4809794 ATAAAATAAG
*
4809804 TTTTATTCTAT-TTAATC
1 TTTTATTATATATTAATC
4809821 TTTTATTATATATTAATC
1 TTTTATTATATATTAATC
4809839 T
1 T
4809840 ATTCACTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATTATATATTAATC
Found at i:4813686 original size:14 final size:14
Alignment explanation
Indices: 4813667--4813695 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4813657 CACTTGTTAA
4813667 ATTCTTAATTATTC
1 ATTCTTAATTATTC
4813681 ATTCTTAATTATTC
1 ATTCTTAATTATTC
4813695 A
1 A
4813696 CATTGTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTCTTAATTATTC
Found at i:4814192 original size:20 final size:19
Alignment explanation
Indices: 4814167--4814205 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
4814157 ATTCAAACTC
4814167 AAAAAATGAAAAAGTAAAAA
1 AAAAAATGAAAAAG-AAAAA
4814187 AAAAAATGAAAAAGAAAAA
1 AAAAAATGAAAAAGAAAAA
4814206 TCTCAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (19 bp):
AAAAAATGAAAAAGAAAAA
Found at i:4821528 original size:19 final size:20
Alignment explanation
Indices: 4821486--4821528 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
4821476 TATACATGAC
*
4821486 ATTATACCAAAATAAGTTTGTT
1 ATTATACCAAAATAAG--TCTT
4821508 ATTATACCAAAATAAG-CTT
1 ATTATACCAAAATAAGTCTT
4821527 AT
1 AT
4821529 GGATAGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
22 16 0.80
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
ATTATACCAAAATAAGTCTT
Found at i:4833434 original size:29 final size:29
Alignment explanation
Indices: 4833401--4833532 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
4833391 GTGACGAGAT
4833401 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
4833430 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
4833459 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
4833488 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
4833517 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
4833533 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:4841397 original size:27 final size:29
Alignment explanation
Indices: 4841304--4841433 Score: 192
Period size: 29 Copynumber: 4.6 Consensus size: 29
4841294 GTGACGAGAT
4841304 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
4841333 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
4841362 TGGCACTAAGTGTGCGTGCTGG-AA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
4841389 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
4841418 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
4841434 AGTTCGGAGG
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 23 0.25
28 4 0.04
29 66 0.71
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:4841423 original size:56 final size:58
Alignment explanation
Indices: 4841305--4841433 Score: 190
Period size: 56 Copynumber: 2.3 Consensus size: 58
4841295 TGACGAGATT
** * *
4841305 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATAC
4841363 GGCACTAAGTGTGCGTGCTGG-AA-ATATGGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATAC
**
4841419 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
4841434 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 42 0.65
57 2 0.03
58 21 0.32
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (58 bp):
GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATAC
Found at i:4842972 original size:22 final size:22
Alignment explanation
Indices: 4842946--4842988 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4842936 TATACATGCC
*
4842946 ATTATACCAAAATAAGTTTATT
1 ATTATACCAAAATAAGCTTATT
4842968 ATTATACCAAAATAAGCTTAT
1 ATTATACCAAAATAAGCTTAT
4842989 GGATAGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (22 bp):
ATTATACCAAAATAAGCTTATT
Found at i:4846933 original size:20 final size:20
Alignment explanation
Indices: 4846908--4846946 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4846898 AGTTATGGGT
4846908 TGAATTAGATTT-TAATTAGG
1 TGAATT-GATTTCTAATTAGG
*
4846928 TGAATTTATTTCTAATTAG
1 TGAATTGATTTCTAATTAG
4846947 AAGTAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TGAATTGATTTCTAATTAGG
Found at i:4847162 original size:3 final size:3
Alignment explanation
Indices: 4847154--4847187 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
4847144 AGATATTTAC
4847154 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
4847188 ATTGAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4847527 original size:29 final size:30
Alignment explanation
Indices: 4847476--4847537 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
4847466 ATTTATTTTA
4847476 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
4847506 TTGTTAATTTT-TTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
4847535 TTG
1 TTG
4847538 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:4850326 original size:29 final size:28
Alignment explanation
Indices: 4850294--4850348 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
4850284 GAGATATACC
*
4850294 GATTTGGC-TTCGGTCCATGCATATCAGCT
1 GATTTGGCATT-GGGCCATG-ATATCAGCT
4850323 GATTTGGCATTGGGCCATGATATCAG
1 GATTTGGCATTGGGCCATGATATCAG
4850349 TATTTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 7 0.29
29 15 0.62
30 2 0.08
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (28 bp):
GATTTGGCATTGGGCCATGATATCAGCT
Found at i:4851461 original size:19 final size:22
Alignment explanation
Indices: 4851422--4851461 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
4851412 AGAAACCTAA
4851422 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
4851444 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
4851462 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:4851560 original size:27 final size:26
Alignment explanation
Indices: 4851523--4851637 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
4851513 AGCATGGCTG
* *
4851523 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
4851549 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
4851577 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
4851604 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
4851631 CCAGAAC
1 CCAGAAC
4851638 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4851582 original size:54 final size:54
Alignment explanation
Indices: 4851523--4851637 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
4851513 AGCATGGCTG
*
4851523 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
4851577 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
4851631 CCAGAAC
1 CCAGAAC
4851638 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:4853280 original size:26 final size:26
Alignment explanation
Indices: 4853244--4853353 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4853234 CATGAAATTC
4853244 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4853270 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4853296 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
4853322 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4853348 TTATCA
1 TTATCA
4853354 ATTTGTGTCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4857402 original size:23 final size:26
Alignment explanation
Indices: 4857353--4857403 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 26
4857343 TATATTAGGA
*
4857353 TAATTATTAAGGATTTTATTTAGATT
1 TAATTATTAAGGATTTTATTTACATT
*
4857379 TAATT-TT-AGGA-TTTATTTTCATT
1 TAATTATTAAGGATTTTATTTACATT
4857402 TA
1 TA
4857404 TCTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 4 0.17
25 2 0.09
26 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (26 bp):
TAATTATTAAGGATTTTATTTACATT
Found at i:4857404 original size:10 final size:10
Alignment explanation
Indices: 4857389--4857438 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
4857379 TAATTTTAGG
4857389 ATTTAT-TTT
1 ATTTATCTTT
4857398 CATTTATCTTT
1 -ATTTATCTTT
4857409 ATTTATCTTT
1 ATTTATCTTT
*
4857419 AATTAT-TTGT
1 ATTTATCTT-T
4857429 ATTTATCTTT
1 ATTTATCTTT
4857439 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:4857446 original size:20 final size:20
Alignment explanation
Indices: 4857408--4857446 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4857398 CATTTATCTT
**
4857408 TATTTATCTTTAATTATTTG
1 TATTTATCTTTAAGAATTTG
*
4857428 TATTTATCTTTTAGAATTT
1 TATTTATCTTTAAGAATTT
4857447 CATTAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTATCTTTAAGAATTTG
Found at i:4864427 original size:47 final size:47
Alignment explanation
Indices: 4864358--4864510 Score: 166
Period size: 47 Copynumber: 3.2 Consensus size: 47
4864348 TTTGGAGAAA
* *
4864358 TGTGATATGTGCTTCCGTATAAGACCATAT-TCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCT-GGGATATGGCATCAG
* *
4864405 TGTGATATGTGCTACTGTATAAGATCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCAG
* * ** * * *
4864452 TGTGATATGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCAG
4864498 TATGTGATATGTG
1 --TGTGATATGTG
4864511 ACTATGTGCA
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
46 25 0.28
47 53 0.59
48 12 0.13
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCAG
Found at i:4867050 original size:42 final size:42
Alignment explanation
Indices: 4866991--4867116 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
4866981 TACAGAAGCC
* * * * *
4866991 TAAAGGCTGCACAGAAGCACATAAGTGCTAAACGAAAATCCA
1 TAAAGGTTGAACAGAAGCTCATAAGAGCTAAACGAAAACCCA
* * *
4867033 TAAAGGTTGAACAGAAGCTCGTAAAAGCTTAACGAAAACCCA
1 TAAAGGTTGAACAGAAGCTCATAAGAGCTAAACGAAAACCCA
* * * *
4867075 T-AAGGATTAAACTGAAGCTCAAAAGAGCTAAACGGAAACCCA
1 TAAAGG-TTGAACAGAAGCTCATAAGAGCTAAACGAAAACCCA
4867117 ATAGGGTTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 4 0.06
42 64 0.94
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.15
Consensus pattern (42 bp):
TAAAGGTTGAACAGAAGCTCATAAGAGCTAAACGAAAACCCA
Found at i:4867127 original size:42 final size:42
Alignment explanation
Indices: 4867017--4867137 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
4867007 GCACATAAGT
* * * * *
4867017 GCTAAACGAAAATCCATAAAGG-TTGAACAGAAGCTCGTAAA-A
1 GCTAAACGAAAACCCAT-AAGGATTAAACTGAAACTC-AAAAGA
* *
4867059 GCTTAACGAAAACCCATAAGGATTAAACTGAAGCTCAAAAGA
1 GCTAAACGAAAACCCATAAGGATTAAACTGAAACTCAAAAGA
* *
4867101 GCTAAACGGAAACCCA-ATAGGGTTAAACTGAAACTCA
1 GCTAAACGAAAACCCATA-AGGATTAAACTGAAACTCA
4867138 TACAAGTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 8 0.12
42 59 0.88
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.17
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGATTAAACTGAAACTCAAAAGA
Found at i:4869522 original size:17 final size:18
Alignment explanation
Indices: 4869487--4869524 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4869477 ATTCAAACTC
4869487 AAAAAATAAAAAAGTGAAA
1 AAAAAATAAAAAAG-GAAA
*
4869506 AAAAAATGAAAAA-GAAA
1 AAAAAATAAAAAAGGAAA
4869523 AA
1 AA
4869525 TCTCAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAAAATAAAAAAGGAAA
Found at i:4871100 original size:20 final size:20
Alignment explanation
Indices: 4871075--4871114 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4871065 ATATAATTTG
*
4871075 TAATAAAATATATAAATAAA
1 TAATAAAATAAATAAATAAA
*
4871095 TAATAAAGTAAATAAATAAA
1 TAATAAAATAAATAAATAAA
4871115 AAAAATTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
TAATAAAATAAATAAATAAA
Found at i:4871581 original size:26 final size:24
Alignment explanation
Indices: 4871545--4871592 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 24
4871535 CATAAAAAGA
4871545 AAATATAATTATAGTAATAATAACATT
1 AAATATAATTA-A-TAA-AATAACATT
4871572 AAAT-TAATTAATAAAATAACA
1 AAATATAATTAATAAAATAACA
4871593 AAATAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 1 0.05
26 6 0.29
27 4 0.19
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATAATTAATAAAATAACATT
Found at i:4873432 original size:53 final size:54
Alignment explanation
Indices: 4873300--4873529 Score: 224
Period size: 55 Copynumber: 4.3 Consensus size: 54
4873290 ACACGGGTAC
* * * * *
4873300 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
4873349 CTTACCATTGCGATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
4873402 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
4873457 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAT-AAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
4873510 CCTTACCAATTGCCATGCCT
1 -CTTACCAA-TGCCATGCCT
4873530 GTAACACCCC
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
49 36 0.24
50 1 0.01
52 2 0.01
53 47 0.32
54 10 0.07
55 51 0.34
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:4874759 original size:43 final size:43
Alignment explanation
Indices: 4874712--4874864 Score: 270
Period size: 43 Copynumber: 3.6 Consensus size: 43
4874702 GGCATTACGC
*
4874712 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAAGG
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGG
4874755 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGG
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGG
** *
4874798 CTGCTAGGCACGAAGGCCCGAATACACATCACTAGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGG
4874841 CTGCTAGGCACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
4874865 TAATACCAGC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGG
Found at i:4874904 original size:38 final size:38
Alignment explanation
Indices: 4874857--4874980 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 38
4874847 GGCACGAAGG
* * * * *
4874857 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
4874895 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
4874933 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
4874972 GCCCGGATA
1 -CCCGGATA
4874981 CACATCAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
38 63 0.83
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:4879170 original size:13 final size:13
Alignment explanation
Indices: 4879152--4879176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4879142 AAATCAAACG
4879152 AAATAAAATAAAT
1 AAATAAAATAAAT
4879165 AAATAAAATAAA
1 AAATAAAATAAA
4879177 AAGACAACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:4882211 original size:23 final size:22
Alignment explanation
Indices: 4882166--4882211 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4882156 TTTTCTAATA
* * *
4882166 TTATCATTTTAATCCTAATTTT
1 TTATCACTTTAACCCTAACTTT
4882188 TTATCACTTTAACCCCTAACTTT
1 TTATCACTTTAA-CCCTAACTTT
4882211 T
1 T
4882212 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATCACTTTAACCCTAACTTT
Found at i:4891368 original size:18 final size:18
Alignment explanation
Indices: 4891353--4891399 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4891343 GTCATCCATG
4891353 TATCCTCCACCATCCACA
1 TATCCTCCACCATCCACA
*
4891371 TATCCTCCACC-TCCTGCA
1 TATCCTCCACCATCC-ACA
*
4891389 TACCCTCCACC
1 TATCCTCCACC
4891400 TCCCTTGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.21, C:0.53, G:0.02, T:0.23
Consensus pattern (18 bp):
TATCCTCCACCATCCACA
Found at i:4894319 original size:19 final size:17
Alignment explanation
Indices: 4894285--4894320 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
4894275 CTAAAATAGT
4894285 AATAAAATTAACAATAA
1 AATAAAATTAACAATAA
4894302 AATAAGAATTATACAATAA
1 AATAA-AATTA-ACAATAA
4894321 CAACAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (17 bp):
AATAAAATTAACAATAA
Found at i:4894345 original size:28 final size:28
Alignment explanation
Indices: 4894279--4894348 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 28
4894269 ATATCCCTAA
* *
4894279 AATAGTAATA-AA-ATTAACAATAAAAT
1 AATAGTAATATAACAATAACAACAAAAT
4894305 -A-AG-AAT-TATACAATAACAACAAAAT
1 AATAGTAATATA-ACAATAACAACAAAAT
4894330 AATAGTAATATAACAATAA
1 AATAGTAATATAACAATAA
4894349 AATAGTAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
23 4 0.11
24 3 0.09
25 13 0.37
26 1 0.03
27 2 0.06
28 10 0.29
29 2 0.06
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (28 bp):
AATAGTAATATAACAATAACAACAAAAT
Found at i:4896924 original size:85 final size:85
Alignment explanation
Indices: 4896819--4897027 Score: 357
Period size: 85 Copynumber: 2.5 Consensus size: 85
4896809 TTAAGCAATA
* *
4896819 TGATATATGAGA-TATGTGTATATATAGACTCATGAATAGATTTGTAGTTTGTTCCTAAATAATG
1 TGATATAT-AGACAATGTGTATATATAGACTCATGAATAGATTTGCAGTTTGTTCCTAAATAATG
4896883 TGAGATTGCTTCCTTAAATTG
65 TGAGATTGCTTCCTTAAATTG
4896904 TGATATATAGACAATGTGTATATATAGACTCATGAATAGATTTGCAGTTTGTTCCTAAATAATGT
1 TGATATATAGACAATGTGTATATATAGACTCATGAATAGATTTGCAGTTTGTTCCTAAATAATGT
*
4896969 GGGATTGCTTCCTTAAATTG
66 GAGATTGCTTCCTTAAATTG
* *
4896989 TGATATATAGACAATGTATATATATAAACTCATGAATAG
1 TGATATATAGACAATGTGTATATATAGACTCATGAATAG
4897028 GTGTTGCTAC
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
84 3 0.03
85 115 0.97
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (85 bp):
TGATATATAGACAATGTGTATATATAGACTCATGAATAGATTTGCAGTTTGTTCCTAAATAATGT
GAGATTGCTTCCTTAAATTG
Found at i:4902993 original size:13 final size:13
Alignment explanation
Indices: 4902975--4902999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4902965 AATTATATAC
4902975 ATCAAAACTTTAT
1 ATCAAAACTTTAT
4902988 ATCAAAACTTTA
1 ATCAAAACTTTA
4903000 ATTAATTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ATCAAAACTTTAT
Found at i:4905658 original size:26 final size:26
Alignment explanation
Indices: 4905628--4905690 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
4905618 CATGTTTTCA
4905628 CTATTTTCATTATTGAAAACAAATTT
1 CTATTTTCATTATTGAAAACAAATTT
4905654 CTATTTTCATTATTGAAAACAAATTT
1 CTATTTTCATTATTGAAAACAAATTT
4905680 CTATTTTCATT
1 CTATTTTCATT
4905691 TACCAAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.35, C:0.13, G:0.03, T:0.49
Consensus pattern (26 bp):
CTATTTTCATTATTGAAAACAAATTT
Found at i:4905704 original size:25 final size:26
Alignment explanation
Indices: 4905628--4905704 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
4905618 CATGTTTTCA
**
4905628 CTATTTTCATTATTGAAAACAAATTT
1 CTATTTTCATTATACAAAACAAATTT
**
4905654 CTATTTTCATTATTGAAAACAAATTT
1 CTATTTTCATTATACAAAACAAATTT
* *
4905680 CTATTTTCATT-TACCAAACATATTT
1 CTATTTTCATTATACAAAACAAATTT
4905705 TTCAGCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 10 0.21
26 37 0.79
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (26 bp):
CTATTTTCATTATACAAAACAAATTT
Found at i:4917778 original size:101 final size:101
Alignment explanation
Indices: 4917603--4917828 Score: 452
Period size: 101 Copynumber: 2.2 Consensus size: 101
4917593 AGTTATAGCA
4917603 AATAAAACATGTATGATCATCAATTAAAAAGGAAAGTCCATCATACCAGTAATGTTCTTGTTTCT
1 AATAAAACATGTATGATCATCAATTAAAAAGGAAAGTCCATCATACCAGTAATGTTCTTGTTTCT
4917668 TGGAACATCAACTACTAGAACAGGACCTACACAAAC
66 TGGAACATCAACTACTAGAACAGGACCTACACAAAC
4917704 AATAAAACATGTATGATCATCAATTAAAAAGGAAAGTCCATCATACCAGTAATGTTCTTGTTTCT
1 AATAAAACATGTATGATCATCAATTAAAAAGGAAAGTCCATCATACCAGTAATGTTCTTGTTTCT
4917769 TGGAACATCAACTACTAGAACAGGACCTACACAAAC
66 TGGAACATCAACTACTAGAACAGGACCTACACAAAC
4917805 AATAAAACATGTATGATCATCAAT
1 AATAAAACATGTATGATCATCAAT
4917829 AATATCTCCA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 125 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (101 bp):
AATAAAACATGTATGATCATCAATTAAAAAGGAAAGTCCATCATACCAGTAATGTTCTTGTTTCT
TGGAACATCAACTACTAGAACAGGACCTACACAAAC
Found at i:4919203 original size:18 final size:19
Alignment explanation
Indices: 4919160--4919212 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
4919150 AGAGTTTTAA
4919160 AAAATTTATAAA-AT-TTG
1 AAAATTTATAAATATATTG
*
4919177 AAATTTTTATAAATATATT-
1 AAA-ATTTATAAATATATTG
*
4919196 AAAATTTAAAAAT-TATT
1 AAAATTTATAAATATATT
4919213 TTGATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 7 0.23
18 16 0.53
19 5 0.17
20 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAATTTATAAATATATTG
Found at i:4919645 original size:3 final size:3
Alignment explanation
Indices: 4919637--4919667 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4919627 TCTTATTTTT
4919637 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4919668 ATAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4919672 original size:4 final size:4
Alignment explanation
Indices: 4919663--4919693 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4919653 TAATAATAAT
4919663 AATA AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AAT
4919694 TATCAACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Done.