Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 190 of 221
Found at i:55925824 original size:51 final size:51
Alignment explanation
Indices: 55925749--55925869 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 51
55925739 ATATTTCATC
* * * * *
55925749 TCAATTTTCTCTAAATTTCCTTCCAAAATTCTCAT-AAATCCATAATTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTC-TCAAACCCATAATTAATT
*
55925800 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATATTTAATT
1 TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATAATTAATT
*
55925851 TCAATTTGCTCTCAATTTC
1 TCAATTTCCTCTCAATTTC
55925870 CTTTTTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 61 0.98
ACGTcount: A:0.32, C:0.25, G:0.01, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAACCCATAATTAATT
Found at i:55930470 original size:124 final size:123
Alignment explanation
Indices: 55930249--55930611 Score: 503
Period size: 124 Copynumber: 2.9 Consensus size: 123
55930239 CCCAAACATG
* * * * * * *
55930249 CTACTGTAGCAAAAGCGCGTCCTCGAGGGCGCAAATTTCACAAATTCTTTTCAAATAGCATCCTG
1 CTACTGTAGCAAGACCGCGTCCACAAGGGCAC-GATTTCACAAATTCTTCTCAAATAGCATCCTG
*
55930314 CTAGAAGCGATTTTATACTATTTGCTCGGAAAGGTAAAAAAAAATTATTTCATCCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAAGGT-AAAAAAAATTATTTCATCCATGAC
** * *
55930374 CTACTGTAGCAATTCCGCGTCCACAAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAGACCGCGTCCACAAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
55930439 TAGAAGCGAATTTATACTATTTTCTCAGAAAGGTCAAAAAAAATTATTTCATCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAGGT-AAAAAAAATTATTTCATCCATGAC
* * *
55930498 CTACTGTAGCAAGAGCGCGTCCACGAGGGCGCGATTTCA-AAATTTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAGACCGCGTCCACAAGGGCACGATTTCACAAA-TTCTTCTCAAATAGCATCCTG
* * *
55930562 CTATATGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAATTATTTC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAAGGTAAAAAAAATTATTTC
55930612 TTCCCAGACC
Statistics
Matches: 211, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
123 17 0.08
124 168 0.80
125 26 0.12
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAGACCGCGTCCACAAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAAGGTAAAAAAAATTATTTCATCCATGAC
Found at i:55933334 original size:19 final size:19
Alignment explanation
Indices: 55933310--55933356 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
55933300 TCTCTTTCTT
55933310 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
55933329 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
55933348 TATGCATTA
1 TTTGCATTA
55933357 GATTTTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:55936118 original size:10 final size:9
Alignment explanation
Indices: 55936091--55936141 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
55936081 ACTCCAGAAT
55936091 AATT-TAAA
1 AATTATAAA
55936099 AATTATAAA
1 AATTATAAA
*
55936108 AATTTTCAAA
1 AATTAT-AAA
*
55936118 AAATATAAA
1 AATTATAAA
55936127 AAGTTCATAAA
1 AA-TT-ATAAA
55936138 AATT
1 AATT
55936142 CAATAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 4 0.11
9 14 0.40
10 10 0.29
11 7 0.20
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:55936138 original size:19 final size:20
Alignment explanation
Indices: 55936095--55936140 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55936085 CAGAATAATT
*
55936095 TAAAAATTATAAAAATTTTCA
1 TAAAAA-TATAAAAATGTTCA
55936116 -AAAAATATAAAAA-GTTCA
1 TAAAAATATAAAAATGTTCA
55936134 TAAAAAT
1 TAAAAAT
55936141 TCAATAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAAAATATAAAAATGTTCA
Found at i:55938070 original size:97 final size:97
Alignment explanation
Indices: 55937886--55938071 Score: 257
Period size: 97 Copynumber: 1.9 Consensus size: 97
55937876 TTCGTTATTT
* *
55937886 TTATTTTTATAAAACATTTTTAGTGAAAACAATGTTTTTTTTGTTTTCTCATTTTTCACAAATTT
1 TTATTTTTATAAAACATTTTTAGTAAAAACAATGTTTTTATTGTTTTCTCATTTTTCACAAATTT
** **
55937951 TTATTTTATTTTTTTTTAAAAAAATGTAAACA
66 TTATTCAATTTTTCATTAAAAAAATGTAAACA
* * *
55937983 TTATTTTTGTAAAATATTTTTAGTAAAAACAATGTTTTTATTGTTTTCTCATTTTTCACATA-TT
1 TTATTTTTATAAAACATTTTTAGTAAAAACAATGTTTTTATTGTTTTCTCATTTTTCACAAATTT
*
55938047 TTCTTCAATGTTTTCCATTAAAAAA
66 TTATTCAAT-TTTT-CATTAAAAAA
55938072 CCGTAAACGA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 8 0.10
97 61 0.79
98 8 0.10
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (97 bp):
TTATTTTTATAAAACATTTTTAGTAAAAACAATGTTTTTATTGTTTTCTCATTTTTCACAAATTT
TTATTCAATTTTTCATTAAAAAAATGTAAACA
Found at i:55938418 original size:21 final size:23
Alignment explanation
Indices: 55938394--55938444 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
55938384 TTGACTTTTA
55938394 TTTTATTAGGATT-T-TAATTTGT
1 TTTTATTA-GATTATATAATTTGT
*
55938416 TTTTAGTAGATTATATAATTT-T
1 TTTTATTAGATTATATAATTTGT
55938438 TTTTATT
1 TTTTATT
55938445 TATGTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 15 0.60
23 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (23 bp):
TTTTATTAGATTATATAATTTGT
Found at i:55938940 original size:19 final size:19
Alignment explanation
Indices: 55938916--55938982 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
55938906 CCGAAATAAT
55938916 AAATATTTTTTTAATTTTA
1 AAATATTTTTTTAATTTTA
* *
55938935 AAATATTTTTACATACTTTT-
1 AAATATTTTT--TTAATTTTA
**
55938955 TTA-ATTTTTTTAATTTTA
1 AAATATTTTTTTAATTTTA
55938973 AAATATTTTT
1 AAATATTTTT
55938983 AAAATACTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
17 6 0.17
18 1 0.03
19 22 0.61
20 1 0.03
21 6 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
AAATATTTTTTTAATTTTA
Found at i:55938945 original size:17 final size:17
Alignment explanation
Indices: 55938923--55938984 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
55938913 AATAAATATT
55938923 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
** *
55938940 TTTTTACATACTTTTTTAATT
1 TTTTT--A-A-TTTTAAAATA
55938961 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
55938978 TTTTTAA
1 TTTTTAA
55938985 AATACTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 19 0.54
18 1 0.03
19 2 0.06
20 1 0.03
21 12 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:55938990 original size:39 final size:39
Alignment explanation
Indices: 55938920--55939041 Score: 196
Period size: 38 Copynumber: 3.2 Consensus size: 39
55938910 AATAATAAAT
*
55938920 ATTTTTTTAATTTTAAAATATTTTT-ACATACTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
55938958 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
55938997 A-TTTTTTAATTTTAAAA-ATATTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATAT-TTTTAAAATAC-TTTTTTA
55939036 ATTTTT
1 ATTTTT
55939042 AAAAATTTTT
Statistics
Matches: 79, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
37 2 0.03
38 52 0.66
39 21 0.27
40 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:55939036 original size:31 final size:31
Alignment explanation
Indices: 55938998--55939057 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
55938988 ACTTTTTTAA
55938998 TTTTTTAA-TTTTAAAAATATTTTAAAATACT
1 TTTTTTAATTTTTAAAAAT-TTTTAAAATACT
55939029 TTTTTTAATTTTTAAAAATTTTTAAAATA
1 TTTTTTAATTTTTAAAAATTTTTAAAATA
55939058 AAAATGGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTTTAATTTTTAAAAATTTTTAAAATACT
Found at i:55943989 original size:31 final size:31
Alignment explanation
Indices: 55943954--55944020 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
55943944 AATCTATTAT
* *
55943954 CCCGGATTGCCCGACAACGATGACTTGCCAC
1 CCCGGATTACCCGACAACGATGACTTACCAC
*
55943985 CCCGGATTACCCGACAACGATGACTTACCAT
1 CCCGGATTACCCGACAACGATGACTTACCAC
55944016 CCCGG
1 CCCGG
55944021 GTTGTTTAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.16
Consensus pattern (31 bp):
CCCGGATTACCCGACAACGATGACTTACCAC
Found at i:55949387 original size:26 final size:26
Alignment explanation
Indices: 55949358--55949410 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55949348 CAAAACTGTC
55949358 TTGCAAGAGAACATTAAAAATATCAT
1 TTGCAAGAGAACATTAAAAATATCAT
55949384 TTGCAAGAGAACATTAAAAATATCAT
1 TTGCAAGAGAACATTAAAAATATCAT
55949410 T
1 T
55949411 CTTCAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (26 bp):
TTGCAAGAGAACATTAAAAATATCAT
Found at i:55951139 original size:9 final size:10
Alignment explanation
Indices: 55951120--55951144 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
55951110 CTGATATACG
55951120 AAAAAGAAAA
1 AAAAAGAAAA
55951130 AAAAAGAAAA
1 AAAAAGAAAA
55951140 AAAAA
1 AAAAA
55951145 TTTTGGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:55951372 original size:105 final size:103
Alignment explanation
Indices: 55951248--55951614 Score: 495
Period size: 109 Copynumber: 3.4 Consensus size: 103
55951238 AAAAAAAAAA
*
55951248 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATTTCTTTTTTTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-ATTAAAAAAAAAA-TTCTTTTTTTT
*
55951313 CGTGTCAGATATAAATATACAAAAAAAATTAAAAATTTTT
64 CGTGTCAGATATAAATATACGAAAAAAATTAAAAATTTTT
*
55951353 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATAAATTAAAAAAAAAATTCTTTTTTTTTC
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATTC-TTTTTTTTC
*
55951418 GTGTCAGAGTCAAATATAAATATACGAAAAAAATT-TAAATTTTT
65 GTGTC--AG----ATATAAATATACGAAAAAAATTAAAAATTTTT
*
55951462 TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-AAAAAAAAATTCTTTTTTTTCG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATTCTTTTTTTTC-
55951526 TGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTT
65 -GT----GTCAGATATAAATATACGAAAAAAATT---AAAAATTTTT
* *
55951573 TTTGGGTGCTGGCCTATCAATGGCCTGCACCCAGTACAAATT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT
55951615 TAAATTTTTT
Statistics
Matches: 235, Mismatches: 10, Indels: 28
0.86 0.04 0.10
Matches are distributed among these distances:
103 3 0.01
104 26 0.11
105 38 0.16
106 2 0.01
107 31 0.13
108 12 0.05
109 50 0.21
110 21 0.09
111 49 0.21
113 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (103 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATTCTTTTTTTTCG
TGTCAGATATAAATATACGAAAAAAATTAAAAATTTTT
Found at i:55951677 original size:111 final size:107
Alignment explanation
Indices: 55951248--55951662 Score: 466
Period size: 104 Copynumber: 3.9 Consensus size: 107
55951238 AAAAAAAAAA
* *
55951248 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATTTCTTTTTTTT
1 TTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAA-ATT-----AAAAA-TTCTTTTTTTT
*
55951313 CGTGTC--AG----ATATAAATATACAAAAAAAATT---AAAAATTTTT
59 CGTGTCAGAGTCAAATATAAATATACGAAAAAAATTAAAAAAAATTTTT
* *
55951353 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTATAAATTAAAAAAAAAATTCTTTTTTTTTC
1 TTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATT-----AAAAATTC-TTTTTTTTC
*
55951418 GTGTCAGAGTCAAATATAAATATACGAAAAAAATT----TAAATTTTT
60 GTGTCAGAGTCAAATATAAATATACGAAAAAAATTAAAAAAAATTTTT
* *
55951462 TTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATTCTTTTTTTTCGT
1 TTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATT----AAAAATTCTTTTTTTTCGT
*
55951527 GTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTT
62 GTCAGAGTCAAATATAAATATACGAAAAAAATTAAAAAAAATTTTT
* *
55951573 TTTGGGTGCTGGCCTATCAATGGCCTGCACCCAGTACAAATT-TAAA-T-TTTTTTTTCGTGTCA
1 TTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAATTCTTTTTTTTCGTGTCA
55951635 GAGTCAAATATAAATATACGAAAAAAAT
66 GAGTCAAATATAAATATACGAAAAAAAT
55951663 AATTTTTTTA
Statistics
Matches: 286, Mismatches: 13, Indels: 23
0.89 0.04 0.07
Matches are distributed among these distances:
103 3 0.01
104 68 0.24
105 39 0.14
106 5 0.02
107 43 0.15
108 12 0.04
109 48 0.17
110 21 0.07
111 47 0.16
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (107 bp):
TTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAATTCTTTTTTTTCGTGTCA
GAGTCAAATATAAATATACGAAAAAAATTAAAAAAAATTTTT
Found at i:55951801 original size:111 final size:110
Alignment explanation
Indices: 55951655--55951947 Score: 396
Period size: 110 Copynumber: 2.6 Consensus size: 110
55951645 TAAATATACG
*
55951655 AAAAAAA-TAATTTTTTTAAAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
1 AAAAAAAGAAATTTTTTT--AAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
** * * **
55951719 TTTTTTTTTTAGTTTTTTTCGTATATTTATATCTGACTTTGATGCGAAA
63 TTTTTTTTAAAATTTTTTTCGTATATTTATATCTGACTCTGACACG-AA
55951768 AAAAAAAGAAATTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TT
1 AAAAAAAGAAATTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
55951832 TTTTTAAAATTTTTTTCGTATATTTATATCTGACTCTGACACGAA
66 TTTTTAAAATTTTTTTCGTATATTTATATCTGACTCTGACACGAA
*** *
55951877 AAAAAAAGCAAAATTTTTTTTTTTACTGT--TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
1 AAAAAAAG--AAA-TTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
55951940 TTTTTTTT
63 TTTTTTTT
55951948 CTTTTTCGTA
Statistics
Matches: 164, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
109 10 0.06
110 73 0.45
111 50 0.30
112 15 0.09
113 7 0.04
114 9 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (110 bp):
AAAAAAAGAAATTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
TTTTTAAAATTTTTTTCGTATATTTATATCTGACTCTGACACGAA
Found at i:55960770 original size:16 final size:16
Alignment explanation
Indices: 55960722--55960773 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
55960712 TTTGGTTCGC
* *
55960722 TGTATTAGATTAGACG
1 TGTATTGGATTAGAGG
* *
55960738 CGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
55960754 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
55960770 TGTA
1 TGTA
55960774 ATAGCAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:55961029 original size:18 final size:17
Alignment explanation
Indices: 55961008--55961042 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55960998 TTATTATTAA
*
55961008 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
55961026 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
55961043 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:55961098 original size:157 final size:156
Alignment explanation
Indices: 55960902--55961210 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 156
55960892 CCCTTAACAT
* *
55960902 AAATTTGTTTTGGTAAATGATTATGGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGATAAATGATTATGGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
55960967 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
55961032 TTTAATAAAATTCTTAATAATTAGCAG
131 -TTAATAAAATTCTTAATAATTAGCAG
* *
55961059 AAATTTGTTTTGATAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGATAAATGATTATGGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
55961124 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
55961189 TTAATAAAATTCTTAATAATTA
131 TTAATAAAATTCTTAATAATTA
55961211 ATATTCTTAT
Statistics
Matches: 146, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 22 0.15
157 124 0.85
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
AAATTTGTTTTGATAAATGATTATGGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTAATAAAATTCTTAATAATTAGCAG
Found at i:55961182 original size:16 final size:16
Alignment explanation
Indices: 55961145--55961186 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55961135 TTAATCATAT
*
55961145 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
55961161 TT-AAATATATTATAA
1 TTAAAATATATTATAA
55961176 TTAAAATATAT
1 TTAAAATATAT
55961187 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:55961189 original size:13 final size:15
Alignment explanation
Indices: 55961154--55961192 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
55961144 TTTAAACATA
*
55961154 ATTATTATTAAATAT
1 ATTATAATTAAATAT
55961169 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
55961183 A-TATAATTAA
1 ATTATAATTAA
55961193 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:55961312 original size:14 final size:15
Alignment explanation
Indices: 55961263--55961314 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
55961253 ATAAAATATA
55961263 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
55961278 TATTAAATATATTAT
1 AATTAAATATATTAT
55961293 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
55961306 AATTTAATA
1 AATTAAATA
55961315 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:55961360 original size:120 final size:120
Alignment explanation
Indices: 55961148--55961661 Score: 928
Period size: 120 Copynumber: 4.3 Consensus size: 120
55961138 ATCATATTTA
55961148 AACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
55961212 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
55961267 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
55961332 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
55961387 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
55961452 TATTCTTATATGAATTTACTCTAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
55961507 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
55961572 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAAA-TT
* *
55961627 GAA-ATAATTAATATTAAATATATTTTAATTAAAAT
1 -AACATAATTATTATTAAATATATTATAATTAAAAT
55961662 TTATTGTTTA
Statistics
Matches: 385, Mismatches: 6, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
119 48 0.12
120 335 0.87
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:55961432 original size:14 final size:15
Alignment explanation
Indices: 55961383--55961554 Score: 60
Period size: 15 Copynumber: 11.6 Consensus size: 15
55961373 GTAAAATATA
55961383 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
55961398 TATTAAATATATTAT
1 AATTAAATATATTAT
*
55961413 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
55961431 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
55961446 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* * * *
55961461 -A-TGAATTTACTCT
1 AATTAAATATATTAT
* *
55961474 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
55961490 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
55961503 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
55961518 TATTAAATATATTAT
1 AATTAAATATATTAT
55961533 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
55961546 AATTTAATA
1 AATTAAATA
55961555 AAATTCTTAA
Statistics
Matches: 115, Mismatches: 24, Indels: 37
0.65 0.14 0.21
Matches are distributed among these distances:
12 3 0.03
13 17 0.15
14 23 0.20
15 38 0.33
16 24 0.21
17 5 0.04
18 5 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:55963246 original size:6 final size:6
Alignment explanation
Indices: 55963237--55963366 Score: 260
Period size: 6 Copynumber: 21.7 Consensus size: 6
55963227 ACATACACAC
55963237 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
55963285 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
55963333 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
55963367 ATATTGATCA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 124 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:55970420 original size:11 final size:11
Alignment explanation
Indices: 55970398--55970441 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
55970388 AACTAATCCT
55970398 CTCTCAAATTTC
1 CTCTC-AATTTC
55970410 CTCTCAATTTC
1 CTCTCAATTTC
* *
55970421 TTCTAAATTTC
1 CTCTCAATTTC
*
55970432 CTTTCAATTT
1 CTCTCAATTT
55970442 TGGTGTTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:55979013 original size:12 final size:12
Alignment explanation
Indices: 55978996--55979020 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55978986 ACTAGTTTTT
55978996 AAGAGTTTTTAC
1 AAGAGTTTTTAC
55979008 AAGAGTTTTTAC
1 AAGAGTTTTTAC
55979020 A
1 A
55979021 CTAGCAGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGAGTTTTTAC
Found at i:55979552 original size:13 final size:13
Alignment explanation
Indices: 55979536--55979560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55979526 AATGGTGGCA
55979536 AACAACAACAAAC
1 AACAACAACAAAC
55979549 AACAACAACAAA
1 AACAACAACAAA
55979561 ATTAGGCAAA
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:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (13 bp):
AACAACAACAAAC
Found at i:55980668 original size:19 final size:18
Alignment explanation
Indices: 55980627--55980671 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
55980617 ATAATATCTT
55980627 TTTTTATATTTATATAAA
1 TTTTTATATTTATATAAA
*
55980645 TTTTTATTTTTA-ATAAGA
1 TTTTTATATTTATATAA-A
55980663 TATTTTATA
1 T-TTTTATA
55980672 AATAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTATATTTATATAAA
Found at i:55983458 original size:15 final size:15
Alignment explanation
Indices: 55983438--55983467 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55983428 GACCCGCCCA
*
55983438 TATTATTTTTTATAT
1 TATTATTATTTATAT
55983453 TATTATTATTTATAT
1 TATTATTATTTATAT
55983468 AAAAGTATAT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTATTTATAT
Found at i:55983674 original size:11 final size:11
Alignment explanation
Indices: 55983660--55983717 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
55983650 ATACCCAAAC
55983660 AATAATAACAA
1 AATAATAACAA
* *
55983671 AATAGTAGCAA
1 AATAATAACAA
*
55983682 TATAATAACAA
1 AATAATAACAA
* *
55983693 AATGACAACAA
1 AATAATAACAA
* *
55983704 AACAATATCAA
1 AATAATAACAA
55983715 AAT
1 AAT
55983718 GGTGGCAAAC
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.19
Consensus pattern (11 bp):
AATAATAACAA
Found at i:55983743 original size:13 final size:13
Alignment explanation
Indices: 55983725--55983749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55983715 AATGGTGGCA
55983725 AACAACAACAAAC
1 AACAACAACAAAC
55983738 AACAACAACAAA
1 AACAACAACAAA
55983750 ATTAGGCAAA
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:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (13 bp):
AACAACAACAAAC
Found at i:55985408 original size:46 final size:46
Alignment explanation
Indices: 55985355--55985442 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
55985345 AAGTAGTATT
55985355 AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAATTATC
1 AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAATTATC
* * *
55985401 AAATCAAAATGGGTCCTACCTACAAAACTTACCAAAATTAAT
1 AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAAT
55985443 AATTTTTCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.24
Consensus pattern (46 bp):
AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAATTATC
Found at i:55987747 original size:47 final size:47
Alignment explanation
Indices: 55987678--55987974 Score: 531
Period size: 47 Copynumber: 6.3 Consensus size: 47
55987668 ATGCCCATCT
*
55987678 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
55987725 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--C
* *
55987774 ACATATATACACTTTCACATTCATCACATCGGCCATTTGGCCTTACC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
55987821 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
55987868 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
*
55987915 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
55987962 ACATATATACACT
1 ACATATATACACT
55987975 ATCTTGGCTG
Statistics
Matches: 240, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 195 0.81
49 45 0.19
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
Found at i:55987970 original size:143 final size:142
Alignment explanation
Indices: 55987678--55987974 Score: 551
Period size: 143 Copynumber: 2.1 Consensus size: 142
55987668 ATGCCCATCT
55987678 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
55987743 ATTCATCACATCGGCCATTAGGCCTTATCACACATATATACACTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTTAT-ACACATATATACACTTTCACATTCATCACATCGGCC
*
55987808 ATTTGGCCTTACC
130 ATTAGGCCTTACC
55987821 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
1 ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
*
55987886 ATTCATCACATCGGCCATTAGGCCTTAT-CACATATATACACTTTCACATTCATCACATCGGCTA
66 ATTCATCACATCGGCCATTAGGCCTTATACACATATATACACTTTCACATTCATCACATCGGCCA
*
55987950 TTAGGCCTTATC
131 TTAGGCCTTACC
55987962 ACATATATACACT
1 ACATATATACACT
55987975 ATCTTGGCTG
Statistics
Matches: 151, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
141 58 0.38
143 93 0.62
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (142 bp):
ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTATACACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTACC
Found at i:55994734 original size:24 final size:24
Alignment explanation
Indices: 55994707--55994758 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55994697 TTAGTAAGTC
*
55994707 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
55994731 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
55994755 AAAT
1 AAAT
55994759 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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:55996703 original size:24 final size:24
Alignment explanation
Indices: 55996676--55996727 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55996666 TTAGTAAGTC
*
55996676 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
55996700 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
55996724 AAAT
1 AAAT
55996728 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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:55997857 original size:24 final size:25
Alignment explanation
Indices: 55997828--55997878 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
55997818 AATTATAAAT
*
55997828 AAAATAA-TTAAACATATCTATTAA
1 AAAATAACTTAAACACATCTATTAA
* *
55997852 AAAATAACTTTAACACCTCTATTAA
1 AAAATAACTTAAACACATCTATTAA
55997877 AA
1 AA
55997879 CATTCTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATAACTTAAACACATCTATTAA
Found at i:56004936 original size:24 final size:24
Alignment explanation
Indices: 56004907--56004968 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
56004897 TCAGAATCTT
56004907 ACATGCGAACCCTAATTGCTTACA
1 ACATGCGAACCCTAATTGCTTACA
*
56004931 ACATGCGAACCCTAATTGCTTATA
1 ACATGCGAACCCTAATTGCTTACA
56004955 ACATGCGAACCCTA
1 ACATGCGAACCCTA
56004969 GGTTATTACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (24 bp):
ACATGCGAACCCTAATTGCTTACA
Found at i:56004989 original size:21 final size:21
Alignment explanation
Indices: 56004950--56004989 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56004940 CCCTAATTGC
*
56004950 TTATAACATGCGAACCCTAGG
1 TTATAACATGCAAACCCTAGG
* *
56004971 TTATTACATGCAAATCCTA
1 TTATAACATGCAAACCCTA
56004990 TTTATCTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (21 bp):
TTATAACATGCAAACCCTAGG
Found at i:56005339 original size:15 final size:15
Alignment explanation
Indices: 56005321--56005357 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
56005311 TTATATGTTA
*
56005321 TTTTATTATTTCGCG
1 TTTTATTATTCCGCG
56005336 TTTTATTATTCCGCG
1 TTTTATTATTCCGCG
*
56005351 TCTTATT
1 TTTTATT
56005358 TTAGGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTTATTATTCCGCG
Found at i:56005717 original size:49 final size:49
Alignment explanation
Indices: 56005654--56005750 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
56005644 ATATAAATTG
*
56005654 AAAAACAAAGAGTATATATAAAAATTGAAAATAAAAATAACAAATTTAC
1 AAAAACAAAGAGTATATATAAAAATTGAAAACAAAAATAACAAATTTAC
* *
56005703 AAAAACAAAGAGTATATATATAAATTGAAAACAAAATTAACAAATTTA
1 AAAAACAAAGAGTATATATAAAAATTGAAAACAAAAATAACAAATTTA
56005751 GTTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (49 bp):
AAAAACAAAGAGTATATATAAAAATTGAAAACAAAAATAACAAATTTAC
Found at i:56005795 original size:16 final size:16
Alignment explanation
Indices: 56005776--56005810 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
56005766 AAATTCAAAA
* *
56005776 AAAAATAAATATGTTT
1 AAAAATAAAAATGGTT
56005792 AAAAATAAAAATGGTT
1 AAAAATAAAAATGGTT
56005808 AAA
1 AAA
56005811 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAAATAAAAATGGTT
Found at i:56017354 original size:110 final size:109
Alignment explanation
Indices: 56017151--56017531 Score: 453
Period size: 110 Copynumber: 3.4 Consensus size: 109
56017141 AAAAATTTTT
*
56017151 TTTCATTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATTAAAAAATTTTTTTTGGG
1 TTTCTTTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATT--AAAATTTTTTTT-GG
* * **
56017216 TGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTTTTTTAAAAAAAA
63 TGTTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TTTAAAAAAAAAA
* * *
56017265 -TTCTTTTTTTTTGTGTCAGAGTCAGATATAATTATATGAAAAAAATTAAAATTTTTTTTTGTGT
1 TTTCTTTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATTAAAATTTTTTTTGGTGT
56017329 TGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAAA
66 TGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAAA
* *** *
56017373 TTTCTTTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATAAAAAAAAATTTTGGGTG
1 TTTCTTTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAAT-TAAAATTTTTTTTGGTG
* * ***
56017438 TAGGCCTGTCAATGGCCGACACCCAGTAC-AA-TTAAAAAAATTTTTT
65 TTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAA---AAA
* * * *
56017484 TTTCCATTTTTTTCGTTTTAGAGTCAGATATAAATATACGAAAAAAAT
1 TTT-CTTTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAAT
56017532 AATTTTTTTT
Statistics
Matches: 236, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
108 20 0.08
109 46 0.19
110 71 0.30
111 15 0.06
112 40 0.17
113 44 0.19
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (109 bp):
TTTCTTTTTTTTCGTGTCAGAGTCAGATATAATTATACGAAAAAAATTAAAATTTTTTTTGGTGT
TGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAAA
Found at i:56017661 original size:111 final size:108
Alignment explanation
Indices: 56017523--56017909 Score: 506
Period size: 111 Copynumber: 3.6 Consensus size: 108
56017513 ATAAATATAC
* *
56017523 GAAAAAAATAATTTTTTTTTAAAATTTGTACTGGGTGCCTGCCATTGACAGGCCAGCACCCAAAA
1 GAAAAAAAAAATTTTTTTTT-AAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
56017588 TTTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACAT
64 TTTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACAT
*
56017633 GGAAAAAAAGAAATTTTTTTTTAAATTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACCCAAA
1 -GAAAAAAA-AAATTTTTTTTTAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
*
56017698 ATTTTTTTTTAAAATTTTTTTTCGTATAATTATATCTGACTCTGACAT
63 A-TTTTTTTTATAA-TTTTTTTCGTATAATTATATCTGACTCTGACAT
*
56017746 GAAAAAAAAAGATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCTAAAT
1 GAAAAAAAAA-ATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAT
* * * * *
56017810 TTTTTTT-T-ACTTTTTTCGTATATTTATATATTATTCTGACA-
65 TTTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACAT
* *
56017851 -AAAAAAAAGGAA-TTTTTTTT--ACTGTA--GGGTGCCGACCATTGACAGGCCAGCACCCAAAA
1 GAAAAAAAA--AATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
56017910 AATAAATTTT
Statistics
Matches: 254, Mismatches: 15, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
100 25 0.10
101 5 0.02
102 5 0.02
104 16 0.06
105 1 0.00
106 28 0.11
107 1 0.00
109 8 0.03
110 5 0.02
111 84 0.33
112 43 0.17
113 33 0.13
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (108 bp):
GAAAAAAAAAATTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATT
TTTTTTATAATTTTTTTCGTATAATTATATCTGACTCTGACAT
Found at i:56017728 original size:15 final size:13
Alignment explanation
Indices: 56017695--56017719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56017685 GCCAGCACCC
56017695 AAAATTTTTTTTT
1 AAAATTTTTTTTT
56017708 AAAATTTTTTTT
1 AAAATTTTTTTT
56017720 CGTATAATTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AAAATTTTTTTTT
Found at i:56024262 original size:31 final size:31
Alignment explanation
Indices: 56024222--56024284 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
56024212 AAAATGTCGC
* *
56024222 TGAACTATTCAAAAACT-TTCATTTAAGTCAT
1 TGAACTATTCAAAAA-TATTAATTCAAGTCAT
* *
56024253 TGAATTATTCGAAAATATTAATTCAAGTCAT
1 TGAACTATTCAAAAATATTAATTCAAGTCAT
56024284 T
1 T
56024285 CAGCTGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (31 bp):
TGAACTATTCAAAAATATTAATTCAAGTCAT
Found at i:56025800 original size:12 final size:13
Alignment explanation
Indices: 56025783--56025811 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56025773 AATTTATCCC
56025783 AAAAAAA-TTATA
1 AAAAAAATTTATA
56025795 AAAAAAATTTATA
1 AAAAAAATTTATA
56025808 AAAA
1 AAAA
56025812 TTACAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAAATTTATA
Found at i:56025901 original size:18 final size:17
Alignment explanation
Indices: 56025861--56025903 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
56025851 TAAAAATAAT
56025861 TTAAAAAT-TAAAATTA
1 TTAAAAATATAAAATTA
56025877 -TAGAAAATATAATAATTA
1 TTA-AAAATATAA-AATTA
56025895 TTAAAAATA
1 TTAAAAATA
56025904 ATTAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 5 0.22
17 3 0.13
18 11 0.48
19 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
TTAAAAATATAAAATTA
Found at i:56026433 original size:19 final size:20
Alignment explanation
Indices: 56026411--56026449 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
56026401 ATTTTCTATA
*
56026411 TTTTTCTGATTTT-TAAACT
1 TTTTTCAGATTTTCTAAACT
*
56026430 TTTTTGAGATTTTCTAAACT
1 TTTTTCAGATTTTCTAAACT
56026450 CTTTGCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTTTCAGATTTTCTAAACT
Found at i:56026589 original size:21 final size:21
Alignment explanation
Indices: 56026551--56026591 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56026541 TTTATGCTTT
* *
56026551 TTTTATTTTTGGATATTTTTA
1 TTTTATTTTTGAAAATTTTTA
*
56026572 TTTTATTTTTTAAAATTTTT
1 TTTTATTTTTGAAAATTTTT
56026592 TGGAAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTATTTTTGAAAATTTTTA
Found at i:56026646 original size:20 final size:22
Alignment explanation
Indices: 56026609--56026652 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
56026599 TATATATATA
56026609 TTTTTATGATTTCCTAAA-TTT
1 TTTTTATGATTTCCTAAAGTTT
**
56026630 TTTTTA-GATTTTTTAAAGTTT
1 TTTTTATGATTTCCTAAAGTTT
56026651 TT
1 TT
56026653 GCTTCCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTTTATGATTTCCTAAAGTTT
Found at i:56026908 original size:13 final size:13
Alignment explanation
Indices: 56026892--56026919 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56026882 AAAATTGAAA
56026892 AAACCATAATCCT
1 AAACCATAATCCT
56026905 AAACCATAATCCT
1 AAACCATAATCCT
56026918 AA
1 AA
56026920 CTTTCCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (13 bp):
AAACCATAATCCT
Found at i:56028878 original size:25 final size:25
Alignment explanation
Indices: 56028850--56028899 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
56028840 TTCCTGATGC
* *
56028850 TTGGCTCTCATGAGCTTCTCGATAT
1 TTGGCTCGCAAGAGCTTCTCGATAT
56028875 TTGGCTCGCAAGAGCTTCTCGATAT
1 TTGGCTCGCAAGAGCTTCTCGATAT
56028900 ACAGCTCGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TTGGCTCGCAAGAGCTTCTCGATAT
Found at i:56032840 original size:540 final size:539
Alignment explanation
Indices: 56031823--56032906 Score: 1936
Period size: 540 Copynumber: 2.0 Consensus size: 539
56031813 CTTTTGACCG
* *
56031823 TATCATTAACATTGTTACTGAAATAAATTAGTGACTTCTTGAAATTCATCATCTGACTTGATATC
1 TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
56031888 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGTCCCTCCACTGTTGCTTTTCCAACTAAG
66 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGTCCCTCCACTGTTGCTTTTCCAACTAAG
* * *
56031953 ATGCTATCATTAGAGAAAAAGAAGTGGGTTATGGATAAACCACATCTTCCAATTCTTGCTTTTAA
131 ATGCTATCATTAGAGAAAAAGAAATGGGTTATGGATAAACCACATCTCCCAATTCTTGCTTCTAA
56032018 TATTCTTCCTTCACTTCATGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAAA
196 TATTCTTCCTTCACTTCATGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAAA
* *
56032083 CATATGGGCTTAAGGGGTCTCATTGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCCT
261 CATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCCT
*
56032148 CCATTAAACACAATAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTATC
326 CCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTATC
*
56032213 GTGGAAACTAGGCTTCCTCATCATATTTTCAACGAAAGTCCACTCTACCCTATCGTATGCTTTTC
391 GCGGAAACTAGGCTTCCTCATCATATTTTCAACGAAAGTCCACTCTACCCTATCGTATGCTTTTC
* *
56032278 TCGTGTCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACAAT
456 TCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACAAT
56032343 TTGTATGCCACTAATACGT
521 TTGTATGCCACTAATACGT
56032362 TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
1 TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
*
56032427 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGCTCCCTCCACTGTTGTTTTTCCAACTAA
66 TTTTCGTATTCATTGACCACTGACCTTATGGCTAATG-TCCCTCCACTGTTGCTTTTCCAACTAA
* * * *
56032492 GATGCTATCATTAGCGAAAAAGAAATGGGTTATTGATAAACCACCTCTCCCAATTCTTTCTTCTA
130 GATGCTATCATTAGAGAAAAAGAAATGGGTTATGGATAAACCACATCTCCCAATTCTTGCTTCTA
* * *
56032557 ATATTCTTCCTTCACTTCGTGCGTTATTTAGGAGTCTTGATAACCCCTCCATGCAAAGGATGAAA
195 ATATTCTTCCTTCACTTCATGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAA
* *
56032622 ACATATGGGCTTAAGAGGTCTCAATGCGTTATTCCTCTAGAAGGGTTTAATCCAATCGTTTTCCC
260 ACATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCC
* *
56032687 TCCATTAAACACAACAGAATATGAGACACTTTTAATGTAACGCATGATTAAAGAAACCCACTTAT
325 TCCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTAT
56032752 CGCGGAAACTAGGCTTCCTCATCATATTTTCAACGAAAGTCCACTCTACCCTATCGTATGCCTTT
390 CGCGGAAACTAGGCTTCCTCATCATATTTTCAACGAAAGTCCACTCTACCCTATCGTATG-CTTT
56032817 T-TCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACA
454 TCTCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACA
56032881 ATTTGTATGCCACTAATACGT
519 ATTTGTATGCCACTAATACGT
56032902 TATCA
1 TATCA
56032907 ATAATTTGTC
Statistics
Matches: 520, Mismatches: 23, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
539 100 0.19
540 415 0.80
541 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (539 bp):
TATCATTAACATTGTTACTGAAATAAATTAGTGACTACTTGAAATTCACCATCTGACTTGATATC
TTTTCGTATTCATTGACCACTGACCTTATGGCTAATGTCCCTCCACTGTTGCTTTTCCAACTAAG
ATGCTATCATTAGAGAAAAAGAAATGGGTTATGGATAAACCACATCTCCCAATTCTTGCTTCTAA
TATTCTTCCTTCACTTCATGCGTTATTTAGGAGTCTTGATAACCCCTCAACGCAAAGGATGAAAA
CATATGGGCTTAAGAGGTCTCAATGCCTTATTCCTCTAGAAGGGTTTAATCCAATCGCTTTCCCT
CCATTAAACACAACAGAATATGAGACACTTTTAATGCAACACATGATTAAAGAAACCCACTTATC
GCGGAAACTAGGCTTCCTCATCATATTTTCAACGAAAGTCCACTCTACCCTATCGTATGCTTTTC
TCATGCCTAGTTTTAGGGAAAAATTTCCAATCCCATATCGTTTCTTCTTAAAGGAATGCAACAAT
TTGTATGCCACTAATACGT
Found at i:56036409 original size:21 final size:21
Alignment explanation
Indices: 56036383--56036429 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
56036373 AATAAAACAC
56036383 AAATAATATTTATTTAATAGA
1 AAATAATATTTATTTAATAGA
56036404 AAATAATATTTATTTAATAGA
1 AAATAATATTTATTTAATAGA
56036425 AAATA
1 AAATA
56036430 CCCTTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AAATAATATTTATTTAATAGA
Found at i:56037652 original size:125 final size:125
Alignment explanation
Indices: 56037430--56037682 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 125
56037420 ACATTTGGTT
*
56037430 AATTATCTATTTAAACTCAGGCTTTTACTTATATTAATGTATGACACACTGTGAACGTCACAAGT
1 AATTATCTATTTAAACTCAAGCTTTTACTTATATTAATGTATGACACACTGTGAACGTCACAAGT
56037495 GAATAAATCCATAAATGGATTTAGGGTCTATTCTACTTGGGTTATGTACGATATACTATC
66 GAATAAATCCATAAATGGATTTAGGGTCTATTCTACTTGGGTTATGTACGATATACTATC
56037555 AATTATCTATTTAAACTCAAGCTTTTACTTATATTAATGTATGACACACTGTGAACGTCACAAGT
1 AATTATCTATTTAAACTCAAGCTTTTACTTATATTAATGTATGACACACTGTGAACGTCACAAGT
56037620 GAATAAATCCATAAATGGATTTAGGGTCTATTCTACTTGGGTTATGTACGATATACTATC
66 GAATAAATCCATAAATGGATTTAGGGTCTATTCTACTTGGGTTATGTACGATATACTATC
56037680 AAT
1 AAT
56037683 CTAGTTAATC
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (125 bp):
AATTATCTATTTAAACTCAAGCTTTTACTTATATTAATGTATGACACACTGTGAACGTCACAAGT
GAATAAATCCATAAATGGATTTAGGGTCTATTCTACTTGGGTTATGTACGATATACTATC
Found at i:56047997 original size:97 final size:96
Alignment explanation
Indices: 56047818--56047999 Score: 296
Period size: 98 Copynumber: 1.9 Consensus size: 96
56047808 AGGGTTTAGG
* * *
56047818 TTAATTATAAATTTTAAAAAATTAGATTGGGGTTTAGTGTTTATGGTTTTTAAGGAAAAAATCAA
1 TTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGTGTTTATGGTTTTTAAAGAAAAAATCAA
56047883 ATAAATTAGGGTTTGGGGTTACTTGAGTAAA
66 ATAAATTAGGGTTTGGGGTTACTTGAGTAAA
56047914 TTAATTATAAATTTTTAAAAAAATTAGATTAGGATTTAGTGTTT-TGGGTTTTTAAAG-AAAAAT
1 TTAATTATAAA-TTTT-AAAAAATTAGATTAGGATTTAGTGTTTAT-GGTTTTTAAAGAAAAAAT
56047977 CAAATAAATTAGGGTTTGGGGTT
63 CAAATAAATTAGGGTTTGGGGTT
56048000 TAGGGTTACT
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
96 11 0.14
97 34 0.43
98 35 0.44
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.41
Consensus pattern (96 bp):
TTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGTGTTTATGGTTTTTAAAGAAAAAATCAA
ATAAATTAGGGTTTGGGGTTACTTGAGTAAA
Found at i:56048275 original size:126 final size:126
Alignment explanation
Indices: 56048050--56048294 Score: 411
Period size: 126 Copynumber: 1.9 Consensus size: 126
56048040 TCCCATGTGG
*
56048050 ACGCTCTTTTGCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
1 ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
* * *
56048115 TCAAAAACGCTTTAACTAGGATGCAGTGTTAGCAAAAGTACTAAAAGAAGCTCTCACGTAA
66 TCAAAAACGCTTCAACTAGGATGCAATGTCAGCAAAAGTACTAAAAGAAGCTCTCACGTAA
* *
56048176 ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAATATGTTTCTGAGCAAATAGTG
1 ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
*
56048241 TCAAAAACGCTTCAAGC-AGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
66 TCAAAAACGCTTCAA-CTAGGATGCAATGTCAGCAAAAGTACTAAAAGAAGCTCT
56048295 TTTACTACAG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
126 110 0.99
127 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (126 bp):
ACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTG
TCAAAAACGCTTCAACTAGGATGCAATGTCAGCAAAAGTACTAAAAGAAGCTCTCACGTAA
Found at i:56052319 original size:7 final size:7
Alignment explanation
Indices: 56052309--56052348 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
56052299 TTATATACAT
56052309 AATACTA
1 AATACTA
56052316 AATACTA
1 AATACTA
56052323 AATACTA
1 AATACTA
56052330 AATACTA
1 AATACTA
56052337 AATACTA
1 AATACTA
56052344 AATAC
1 AATAC
56052349 GAATCGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:56061315 original size:231 final size:231
Alignment explanation
Indices: 56060904--56061370 Score: 855
Period size: 231 Copynumber: 2.0 Consensus size: 231
56060894 CGAATTCGTA
56060904 TCAA-TTCAACCTTTGTAGCTGTATACACGCTTTCATATTTCAAATAGCAATTCATATACATTTT
1 TCAATTTCAACCTTTGTAGCTGTATACACGCTTTCATATTTCAAATAGCAATTCATATACATTTT
56060968 AACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCAT
66 AACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCAT
*
56061033 TCAACTACACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTAA
131 TCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTAA
56061098 CCCATATCATATAACATGCAACCATTTATAATCCAT
196 CCCATATCATATAACATGCAACCATTTATAATCCAT
**
56061134 TCAATTTCAACCTTTGTAGCTGTATACACTTTTTCATATTTCAAATAGCAATTCATATACATTTT
1 TCAATTTCAACCTTTGTAGCTGTATACACGCTTTCATATTTCAAATAGCAATTCATATACATTTT
*
56061199 AACCATGTAATATCAATATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCAT
66 AACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCAT
* *
56061264 TCAACTAAACTAATGTACTTCAAAATGGTACCTAAATCATACCAGTTCAATTTATACAAATCTAA
131 TCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTAA
* *
56061329 CCTATATCATATAACATTCAACCATTTATAATCCAT
196 CCCATATCATATAACATGCAACCATTTATAATCCAT
56061365 TCAATT
1 TCAATT
56061371 CCATAGTATT
Statistics
Matches: 228, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
230 4 0.02
231 224 0.98
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (231 bp):
TCAATTTCAACCTTTGTAGCTGTATACACGCTTTCATATTTCAAATAGCAATTCATATACATTTT
AACCATGTAATATCAACATATACATATCAATTTCATAATCAATCATAACATCCACTAATTTCCAT
TCAACTAAACTAATGTACCTCAAAATGGTACCTAAATCATACCAATTCAATTTATACAAATCTAA
CCCATATCATATAACATGCAACCATTTATAATCCAT
Found at i:56072713 original size:95 final size:98
Alignment explanation
Indices: 56072558--56072769 Score: 247
Period size: 96 Copynumber: 2.2 Consensus size: 98
56072548 TGAAAAGCTC
* ** * *
56072558 TCAAACTTTTTC-AAAAAAATCAATTAAGCTCTTACTCTTTTTTCTTTTTTGTATTCAATTGGGC
1 TCAAACTTTTTCAAAAAAAAGCAATTAAGCTCTTACTCTTTTTAATTTTTTGCACTCAATTGGGC
* * * *
56072622 ACTTGTACT-TTCAAAGTGCA-TAAAAAAGGCCT
66 ACTTGAACTACT-AAAATGCACAAAAAAAGGCCT
* *
56072654 TCAAATTTTTTCAAAAAAAAGCAATTAAG-TCCTTGC-C-TTTTAATTTTTTGCACTCAATTGGG
1 TCAAACTTTTTCAAAAAAAAGCAATTAAGCT-CTTACTCTTTTTAATTTTTTGCACTCAATTGGG
* *
56072716 TACTTGAACTACTAAAATGCACAAAAAAAGGTCT
65 CACTTGAACTACTAAAATGCACAAAAAAAGGCCT
56072750 TCAAACTTTTTCAAAAAAAA
1 TCAAACTTTTTCAAAAAAAA
56072770 AATTATTGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
95 36 0.37
96 43 0.44
97 19 0.19
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (98 bp):
TCAAACTTTTTCAAAAAAAAGCAATTAAGCTCTTACTCTTTTTAATTTTTTGCACTCAATTGGGC
ACTTGAACTACTAAAATGCACAAAAAAAGGCCT
Found at i:56072843 original size:50 final size:49
Alignment explanation
Indices: 56072788--56072887 Score: 141
Period size: 49 Copynumber: 2.0 Consensus size: 49
56072778 TTATATGAAA
* *
56072788 TTTAAATTTA-TTATTATATTTTTTGAAAATATTTATGTA-TTTTATATATT
1 TTTAAATTTATTTA-TATA-TATTT-AAAACATTTATGTATTTTTATATATT
56072838 TTTAAATTTATTTATATATATTTAAAACATTTATGTATTTTTATATATT
1 TTTAAATTTATTTATATATATTTAAAACATTTATGTATTTTTATATATT
56072887 T
1 T
56072888 CTTTGAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 13 0.28
49 16 0.35
50 14 0.30
51 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (49 bp):
TTTAAATTTATTTATATATATTTAAAACATTTATGTATTTTTATATATT
Found at i:56072849 original size:29 final size:28
Alignment explanation
Indices: 56072796--56072861 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
56072786 AATTTAAATT
*
56072796 TATTATTATATTTTTTGAAAATATTTATG
1 TATT-TTATATTTTTTGAAAATATTTATA
*
56072825 TATTTTATATATTTTT-AAATTTATTTATA
1 TATTTTATAT-TTTTTGAAA-ATATTTATA
56072854 TATATTTA
1 TAT-TTTA
56072862 AAACATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 9 0.28
29 19 0.59
30 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TATTTTATATTTTTTGAAAATATTTATA
Found at i:56072873 original size:48 final size:51
Alignment explanation
Indices: 56072788--56072887 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 51
56072778 TTATATGAAA
* *
56072788 TTTAAATTTATTATTATATTTTTTGAAAATATTTATGTA-TTTTATATATT
1 TTTAAATTTATTATTATATTATTTGAAAACATTTATGTATTTTTATATATT
56072838 TTTAAATTTA-T-TTATATATATTT-AAAACATTTATGTATTTTTATATATT
1 TTTAAATTTATTATTATAT-TATTTGAAAACATTTATGTATTTTTATATATT
56072887 T
1 T
56072888 CTTTGAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 19 0.41
49 17 0.37
50 10 0.22
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (51 bp):
TTTAAATTTATTATTATATTATTTGAAAACATTTATGTATTTTTATATATT
Found at i:56074704 original size:13 final size:13
Alignment explanation
Indices: 56074686--56074711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56074676 CGTGTTTCCA
56074686 AAAACCATTTGTT
1 AAAACCATTTGTT
56074699 AAAACCATTTGTT
1 AAAACCATTTGTT
56074712 TGCGTAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:56076847 original size:2 final size:2
Alignment explanation
Indices: 56076840--56076869 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
56076830 CTACTTGGAC
*
56076840 CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
56076870 TAATTGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:56077382 original size:71 final size:71
Alignment explanation
Indices: 56077295--56077439 Score: 254
Period size: 71 Copynumber: 2.0 Consensus size: 71
56077285 CCAGAAATGA
56077295 CATTACACCCACATGAGAAGTGTGCTCATAAAAACCTCAAGTGATAGCCCCTCAGTAAATGGATC
1 CATTACACCCACATGAGAAGTGTGCTCATAAAAACCTCAAGTGATAGCCCCTCAGTAAATGGATC
56077360 CACAAT
66 CACAAT
* ** *
56077366 CATTACACCCATATGAGAAGTGTGCTCATAAAAACCTCAAGTGATAGTTCCTTAGTAAATGGATC
1 CATTACACCCACATGAGAAGTGTGCTCATAAAAACCTCAAGTGATAGCCCCTCAGTAAATGGATC
56077431 CACAAT
66 CACAAT
56077437 CAT
1 CAT
56077440 GGAGTTAGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (71 bp):
CATTACACCCACATGAGAAGTGTGCTCATAAAAACCTCAAGTGATAGCCCCTCAGTAAATGGATC
CACAAT
Found at i:56082506 original size:69 final size:68
Alignment explanation
Indices: 56082384--56082511 Score: 168
Period size: 69 Copynumber: 1.9 Consensus size: 68
56082374 TCAAAAGTGG
* * *
56082384 TATAAGGTGTAAGGCCATAGCTCGACTATGGAAACTAATACAGTTCGTTGGGACAATAAATATGG
1 TATAAGGTGTAAGACCATAGCTCGACTATGGAAACCAATACAGTTCCTTGGGAC-ATAAATATGG
56082449 GGAT
65 GGAT
* * * *
56082453 TATAAGGTGTAAGACCATGGCTCGGCTATGGCAACCAATAGAG-TCCTTCGGGACATAAA
1 TATAAGGTGTAAGACCATAGCTCGACTATGGAAACCAATACAGTTCCTT-GGGACATAAA
56082512 ACACAAGATA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
68 9 0.18
69 42 0.82
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (68 bp):
TATAAGGTGTAAGACCATAGCTCGACTATGGAAACCAATACAGTTCCTTGGGACATAAATATGGG
GAT
Found at i:56094261 original size:30 final size:28
Alignment explanation
Indices: 56094221--56094278 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
56094211 CGGCCAGAAA
* *
56094221 CATGGGCGTATGTCTAGGCCGTGTGAATGG
1 CATGGCCGTATGGC-AGGCCGTGT-AATGG
56094251 CATGGCCGTATGGCAGGCCGTGTAATGG
1 CATGGCCGTATGGCAGGCCGTGTAATGG
56094279 GACATGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 9 0.35
30 12 0.46
ACGTcount: A:0.17, C:0.19, G:0.40, T:0.24
Consensus pattern (28 bp):
CATGGCCGTATGGCAGGCCGTGTAATGG
Found at i:56104710 original size:9 final size:9
Alignment explanation
Indices: 56104698--56104758 Score: 86
Period size: 9 Copynumber: 6.8 Consensus size: 9
56104688 ATTCAATTTT
*
56104698 GTTAATTTG
1 GTTAATTCG
*
56104707 GTTAATTTG
1 GTTAATTCG
56104716 GTTAATTCG
1 GTTAATTCG
*
56104725 GGTAATTCG
1 GTTAATTCG
*
56104734 GGTAATTCG
1 GTTAATTCG
56104743 GTTAATTCG
1 GTTAATTCG
56104752 GTTAATT
1 GTTAATT
56104759 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.46
Consensus pattern (9 bp):
GTTAATTCG
Found at i:56113495 original size:20 final size:20
Alignment explanation
Indices: 56113470--56113530 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
56113460 AATAAATTGC
56113470 GTATAACAATTTATTATTAT
1 GTATAACAATTTATTATTAT
*** *
56113490 GTATAATTTTTTGTTATTAAT
1 GTATAACAATTTATTATT-AT
56113511 -TATAACAATATTA-TATTAT
1 GTATAACAAT-TTATTATTAT
56113530 G
1 G
56113531 GGTTAATATT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
19 2 0.07
20 24 0.80
21 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (20 bp):
GTATAACAATTTATTATTAT
Found at i:56125248 original size:25 final size:23
Alignment explanation
Indices: 56125220--56125455 Score: 131
Period size: 25 Copynumber: 9.6 Consensus size: 23
56125210 AGGGAATAGA
56125220 AAGCTCATATGAGCCATGTAACGAG
1 AAGCTCATA-GAGCCAT-TAACGAG
*
56125245 AAGCTCATAAGAGCTA-TAATC-AG
1 AAGCTCAT-AGAGCCATTAA-CGAG
* * *
56125268 AAAGCTCATGTGAGCCATTATCGGG
1 -AAGCTCAT-AGAGCCATTAACGAG
*
56125293 AAGCTTCAGAGAGCCATTAATC-ATG
1 AAGC-TCATAGAGCCATTAA-CGA-G
* *
56125318 AAGCTCATGAGAGCCAATTATCGGG
1 AAGCTCAT-AGAGCC-ATTAACGAG
* *
56125343 AAGCTC-TGGAGAGCCAATTATCAAG
1 AAGCTCAT--AGAGCC-ATTAACGAG
* *
56125368 AAGCTCATACGAGCCATAAACGGG
1 AAGCTCATA-GAGCCATTAACGAG
*
56125392 AAGCTCA-AGAGACCCAATTATCGAG
1 AAGCTCATAGAG--CC-ATTAACGAG
56125417 AAGCTCATGAGAGCCATATAACGAG
1 AAGCTCAT-AGAGCCAT-TAACGAG
*
56125442 ATGCTCATAAGAGC
1 AAGCTCAT-AGAGC
56125456 TAAATAATGG
Statistics
Matches: 166, Mismatches: 25, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
22 3 0.02
23 6 0.04
24 49 0.30
25 98 0.59
26 6 0.04
27 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
AAGCTCATAGAGCCATTAACGAG
Found at i:56125282 original size:49 final size:48
Alignment explanation
Indices: 56125217--56125455 Score: 170
Period size: 49 Copynumber: 4.9 Consensus size: 48
56125207 GCCAGGGAAT
* *
56125217 AGAAAGCTCAT-ATGAGCCATGTAACGAGAAGCTCATAAGAGCTATAATC
1 AGAAAGCTCATGA-GAGCCAT-TAACGGGAAGCTCATAAGAGCAATAATC
* * * *
56125266 AGAAAGCTCATGTGAGCCATTATCGGGAAGCTTCA-GAGAGCCATTAATC
1 AGAAAGCTCATGAGAGCCATTAACGGGAAGC-TCATAAGAG-CAATAATC
* * *
56125315 ATG-AAGCTCATGAGAGCCAATTATCGGGAAGCTC-TGGAGAGCCAATTATC
1 A-GAAAGCTCATGAGAGCC-ATTAACGGGAAGCTCAT-AAGAG-CAATAATC
* * *
56125365 A-AGAAGCTCAT-ACGAGCCATAAACGGGAAGCTCA-AGAGACCCAATTATC
1 AGA-AAGCTCATGA-GAGCCATTAACGGGAAGCTCATA-AGA-GCAATAATC
* *
56125414 -GAGAAGCTCATGAGAGCCATATAACGAGATGCTCATAAGAGC
1 AGA-AAGCTCATGAGAGCCAT-TAACGGGAAGCTCATAAGAGC
56125456 TAAATAATGG
Statistics
Matches: 156, Mismatches: 17, Indels: 34
0.75 0.08 0.16
Matches are distributed among these distances:
48 13 0.08
49 87 0.56
50 55 0.35
51 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (48 bp):
AGAAAGCTCATGAGAGCCATTAACGGGAAGCTCATAAGAGCAATAATC
Found at i:56125448 original size:74 final size:74
Alignment explanation
Indices: 56125317--56125455 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
56125307 CATTAATCAT
* * * * *
56125317 GAAGCTCATGAGAGCCAATTATCGGGAAGCTCTGGAGAGCCAATTATCAAGAAGCTCATACGAGC
1 GAAGCTCAAGAGACCCAATTATCGAGAAGCTCTGGAGAGCCAATTAACAAGAAGCTCATAAGAGC
56125382 CATAAACGG
66 CATAAACGG
* *
56125391 GAAGCTCAAGAGACCCAATTATCGAGAAGCTCAT-GAGAGCC-ATATAACGAGATGCTCATAAGA
1 GAAGCTCAAGAGACCCAATTATCGAGAAGCTC-TGGAGAGCCAAT-TAACAAGAAGCTCATAAGA
56125454 GC
64 GC
56125456 TAAATAATGG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
73 2 0.04
74 53 0.95
75 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (74 bp):
GAAGCTCAAGAGACCCAATTATCGAGAAGCTCTGGAGAGCCAATTAACAAGAAGCTCATAAGAGC
CATAAACGG
Found at i:56129571 original size:3 final size:3
Alignment explanation
Indices: 56129563--56129603 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
56129553 GATTTTTCTT
56129563 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56129604 CAAACTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:56134798 original size:3 final size:3
Alignment explanation
Indices: 56134790--56134823 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
56134780 GATAGGAGTA
56134790 AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
56134824 TAAATTTATT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:56136588 original size:45 final size:44
Alignment explanation
Indices: 56136487--56136880 Score: 229
Period size: 45 Copynumber: 8.7 Consensus size: 44
56136477 TTTTAATCCA
* * **
56136487 CTCCACTGCAAATTTAGGGAGATAAGACTTG-TATCTTCAACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTT-AGTTTG
* **
56136531 CCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATTAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATC-TTAGTTTG
* * * * *
56136576 CTCCACTGCAACTTCAAGGAGATAAGACTTGTTAGCTACAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCT-TAGTTTG
* ** *
56136621 CTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAAT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTAG-TTT--G
* * * * ** * * *
56136668 CTGACCTATTGCAACTTTAGAGG-TATATGA-TTCGTCGTTTTAATCTG
1 CT--CC-ACTGCAACTTCAG-GGAGATAAGACTT-GTTATCTTAGTTTG
* * * * **
56136715 CTCCACTACAAATTCAGGGAGATAGGACTT-ATATCTTTAACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATC-TTAGTTTG
* * ** * *
56136759 CCCCACTGCAACTTTAGGGAGATAAGGTTTGTTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTT-AGTTTG
* ****
56136804 CTCCACTGTAACTTCAGGGAGATAAGACTTGTTATCTTCAGCCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTT-AGTTTG
* * *
56136849 CTCTACTGCAACCTCAGTGAGATAAGACTTGT
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGT
56136881 AGCCTCAACT
Statistics
Matches: 264, Mismatches: 70, Indels: 31
0.72 0.19 0.08
Matches are distributed among these distances:
43 3 0.01
44 74 0.28
45 153 0.58
46 2 0.01
47 4 0.02
49 6 0.02
50 20 0.08
51 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTAGTTTG
Found at i:56136765 original size:228 final size:228
Alignment explanation
Indices: 56136383--56136880 Score: 714
Period size: 228 Copynumber: 2.2 Consensus size: 228
56136373 GATCCACTAT
* * * *
56136383 CTACAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCTT
1 CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCTT
* * *
56136448 CTGCAACTTCAGAGGTATAGGATTCATTGTTTTAATCCACTCCACTGCAAATTTAGGGAGATAAG
66 CTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTACAAATTCAGGGAGATAAG
* * *
56136513 ACTTGTATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCATT-AGTTTGC
131 ACTTATATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATC-TTCAGTCTAC
56136577 TCCACTGCAACTTCAAGGAGATAAGACTTGTTAG
195 TCCACTGCAACTTCAAGGAGATAAGACTTGTTAG
56136611 CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCTA
1 CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCT-
* * * ** *
56136676 T-TGCAACTTTAGAGGTATATGATTCGTCGTTTTAATCTGCTCCACTACAAATTCAGGGAGATAG
65 TCTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTACAAATTCAGGGAGATAA
* *
56136740 GACTTATATCTTTAACTTGCCCCACTGCAACTTTAGGGAGATAAGGTTTGTTATCTTCAGTCTAC
130 GACTTATATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTTCAGTCTAC
* * *
56136805 TCCACTGTAACTTCAGGGAGATAAGACTTGTTAT
195 TCCACTGCAACTTCAAGGAGATAAGACTTGTTAG
* * * * *
56136839 CTTCAGCCCACTCTACTGCAACC-TCAGTGAGATAAGACTTGT
1 CTACAGTCTACTCCACTGC-ACCTTCAGGGAGATAAGACTTGT
56136881 AGCCTCAACT
Statistics
Matches: 241, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
227 2 0.01
228 235 0.98
229 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (228 bp):
CTACAGTCTACTCCACTGCACCTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCTT
CTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTACAAATTCAGGGAGATAAG
ACTTATATCTTCAACTTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTTCAGTCTACT
CCACTGCAACTTCAAGGAGATAAGACTTGTTAG
Found at i:56137219 original size:45 final size:46
Alignment explanation
Indices: 56137131--56137441 Score: 339
Period size: 45 Copynumber: 6.9 Consensus size: 46
56137121 AAGGCTGGTG
* * * * * * *
56137131 CTTTTGATCTGCTTCACTGCCAGTATAGGAAGGCAAAATCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * *
56137177 CTTTAG-TCTACTTTGCTGCCAATATAGGAAGACAAGACCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * * *
56137222 CTTTA-ATCAACTTTGCTGCCAATATAGGAAGACAAGATCTGTTAT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * *
56137267 CTTCAG-TCTACTTCGCTGCCGATACAGGAAGATAAGA-CATGCTAT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTAT
* * *
56137312 C-TTCGATCTACTTCGTTGCCAATACAGGAAGACAAGATATGCTAT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * *
56137357 C-TTCGATTTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTAT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* *
56137402 CTTT-GATATACTTCGCTGCCAATACAGGAAGTCAAGATCT
1 CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCT
56137442 ACTGCTTTCA
Statistics
Matches: 228, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.01
45 218 0.96
46 7 0.03
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (46 bp):
CTTTAGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
Found at i:56138746 original size:3 final size:3
Alignment explanation
Indices: 56138733--56138769 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
56138723 CCTCTCTTTT
56138733 TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
56138770 TTTTGAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:56143207 original size:3 final size:3
Alignment explanation
Indices: 56143199--56143232 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
56143189 GATATGAGTA
*
56143199 AAT AAT AAT AAT AAT AATT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
56143233 GGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:56143222 original size:16 final size:16
Alignment explanation
Indices: 56143201--56143232 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56143191 TATGAGTAAA
56143201 TAATAATAATAATAAT
1 TAATAATAATAATAAT
*
56143217 TAATAATAATGATAAT
1 TAATAATAATAATAAT
56143233 GGTATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATAATAATAATAAT
Found at i:56146849 original size:14 final size:14
Alignment explanation
Indices: 56146830--56146869 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56146820 TTGATAGCCA
56146830 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
56146844 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
56146858 GGAAAATGTTTT
1 GTAAAATGTTTT
56146870 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:56146878 original size:20 final size:20
Alignment explanation
Indices: 56146853--56146892 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56146843 CGTAAAATGA
*
56146853 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
56146873 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
56146893 GGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:56146882 original size:34 final size:35
Alignment explanation
Indices: 56146838--56146904 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
56146828 CAGTAAAATG
*
56146838 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
56146872 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
56146905 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:56146908 original size:14 final size:15
Alignment explanation
Indices: 56146832--56146908 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
56146822 GATAGCCAGT
* *
56146832 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
56146846 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
56146860 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
56146880 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
56146895 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
56146909 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:56150502 original size:16 final size:16
Alignment explanation
Indices: 56150481--56150549 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
56150471 TTTGGTTCGC
56150481 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56150497 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56150513 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
56150530 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56150546 TGTA
1 TGTA
56150550 ATAGCAAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:56150527 original size:33 final size:32
Alignment explanation
Indices: 56150481--56150549 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
56150471 TTTGGTTCGC
56150481 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
56150513 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
56150546 TGTA
1 TGTA
56150550 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:56150805 original size:16 final size:16
Alignment explanation
Indices: 56150765--56150819 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
56150755 TTAATCATAT
*
56150765 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
56150781 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
56150796 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
56150814 -TAAAAT
1 TTAAAAT
56150820 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:56150812 original size:18 final size:17
Alignment explanation
Indices: 56150785--56150819 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56150775 TTTTTATTAA
*
56150785 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56150803 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56150820 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56150929 original size:120 final size:116
Alignment explanation
Indices: 56150734--56151420 Score: 691
Period size: 120 Copynumber: 5.8 Consensus size: 116
56150724 AATAAGATTA
* * * *
56150734 TTATTATCAATAATAAATAATTT--AATCAT-ATTTAAACATAATTTTTATTAAATATATTTTAA
1 TTATTATAAACAATAAATAATTTAAAAT-ATAATTTAAA-ATAATTATTATTAAATATAATTTAA
* * ** *
56150796 TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATT-TGT-TTTGGTAAA
64 TAAAAATATATAATTTAATAAAATTCTTAATAATTA--A-ATATTCT-TAAAT-G-AAT
* * *
56150853 TTATTATTAACAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATA
1 TTATTATAAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
*
56150918 AAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATGAAT
66 AAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
* * * *
56150968 TTAATAAAATTATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TTATTATAA--ACAATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAATT
* *
56151033 TAATAGAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAAT
61 TAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
* *
56151089 TTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAAT
1 TTATTATAAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAAT
*
56151153 TTAACAAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTAAATGAAT
60 TTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
* *
56151209 TTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATA
1 TTATTATAAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATT--AAATATA
*
56151273 ATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT-ATTAAATATTCTT--A-GAAT
58 ATTTAATAAAAATATATAATTTAATAAAATTC-TTAATAATTAAATATTCTTAAATGAAT
* * * *
56151329 TTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATTTTTAAATATAAT
1 TTATTATAAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAAT
* *
56151393 TTAATAATAATATATAATTTAATCAAAT
60 TTAATAAAAATATATAATTTAATAAAAT
56151421 CATTATATTC
Statistics
Matches: 519, Mismatches: 32, Indels: 35
0.89 0.05 0.06
Matches are distributed among these distances:
115 8 0.02
116 6 0.01
117 14 0.03
118 35 0.07
119 26 0.05
120 258 0.50
121 117 0.23
122 37 0.07
123 18 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (116 bp):
TTATTATAAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
AAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTAAATGAAT
Found at i:56150980 original size:19 final size:18
Alignment explanation
Indices: 56150905--56151060 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 18
56150895 TTATTATTAA
*
56150905 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
56150923 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
56150941 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
56150960 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
56150979 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
56150999 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
56151023 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
56151043 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
56151061 CTTAATATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
17 8 0.08
18 41 0.39
19 16 0.15
20 12 0.11
21 9 0.08
22 4 0.04
23 2 0.02
24 4 0.04
25 1 0.01
26 9 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:56151013 original size:22 final size:23
Alignment explanation
Indices: 56150971--56151013 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
56150961 TATGAATTTA
*
56150971 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
56150994 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
56151014 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:56151186 original size:241 final size:239
Alignment explanation
Indices: 56150875--56151420 Score: 925
Period size: 241 Copynumber: 2.3 Consensus size: 239
56150865 ATAAATAATT
* *
56150875 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* *
56150940 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTATAAAATATAA
66 TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
56151005 TTTAAAATAATTATTATT-AAATATAATTTAATAGAAATATATAATTTAATAAAATTC-TTAATA
131 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATA
56151068 TTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
196 -TTAAATATTCTT--A-GAATTTACTAAAATCATAATATATAATACTA
*
56151116 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
*
56151181 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
*
56151246 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT
131 TTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAAT
56151311 ATTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
195 ATTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
* * * *
56151356 TAAAATATAATTTAAATTAATTATTTTTAAATATAATTTAATAATAATATATAATTTAATCAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
56151421 CATTATATTC
Statistics
Matches: 289, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
240 91 0.31
241 143 0.49
243 49 0.17
244 6 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (239 bp):
TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
TCTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTTAATA
TTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTA
Found at i:56151283 original size:15 final size:16
Alignment explanation
Indices: 56151237--56151301 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
56151227 ATAATACTAT
56151237 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
56151252 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
56151265 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
56151282 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
56151299 AAA
1 AAA
56151302 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:56151289 original size:18 final size:17
Alignment explanation
Indices: 56151264--56151301 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
56151254 AATTATTATT
*
56151264 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
56151281 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
56151299 AAA
1 AAA
56151302 TTCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:56151618 original size:25 final size:25
Alignment explanation
Indices: 56151544--56151622 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
56151534 ATTGCAAAAA
56151544 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
*
56151569 GAAATTACT-T---TTTGAAGCATAT
1 GAAATTACTGTAAGTTAG-AGCATAT
56151591 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
56151616 GAAATTA
1 GAAATTA
56151623 AGCAAAGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.06
22 16 0.34
23 1 0.02
24 1 0.02
25 23 0.49
26 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.34
Consensus pattern (25 bp):
GAAATTACTGTAAGTTAGAGCATAT
Found at i:56153284 original size:14 final size:14
Alignment explanation
Indices: 56153265--56153299 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
56153255 GTTGTTCTCT
56153265 ACTTAAACTGTCAA
1 ACTTAAACTGTCAA
56153279 ACTTAAACTGTCAA
1 ACTTAAACTGTCAA
56153293 ACTTAAA
1 ACTTAAA
56153300 AATAAATTTA
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:0.20, G:0.06, T:0.29
Consensus pattern (14 bp):
ACTTAAACTGTCAA
Found at i:56155669 original size:173 final size:174
Alignment explanation
Indices: 56155351--56155670 Score: 410
Period size: 173 Copynumber: 1.8 Consensus size: 174
56155341 ACTCGATCAA
* * * *
56155351 ATTCAACTTTTTTTTATAATCACAAGTGTCTTTATTCATTTTATACTATGAATTTAATCATGTTT
1 ATTCAACTTTTTTTTATAATCACAAATGTCTTTATTCATTTAACACTATGAATTTAATCATGTTC
** ** *
56155416 GAACTAGAGTGATACTCAAATAAAACTCTTCCAATAATGCTGACTTCAAAATTAAAAACTGGGTC
66 GAACTAGAGCAATACTCAAATAAAACTCTTCCAATAATGCCAACTCCAAAATTAAAAACTGGGTC
* * *
56155481 CAAGACTATATTACTATAGTAAAGTGTTAGGTATCATTTACATT
131 AAAAACTAAATTACTATAGTAAAGTGTTAGGTATCATTTACATT
* * *
56155525 ATTCAA-TTTTTTTTATAATCGCAAATGTCTTTATTCATTTAACACTCTGAATTTAATCTTGTTC
1 ATTCAACTTTTTTTTATAATCACAAATGTCTTTATTCATTTAACACTATGAATTTAATCATGTTC
* * * * ** * *
56155589 GAACTGGAGCAATATTCAAATAAAA-TCGTTCCAATAATTCCAACTCCAAAATTAAGATTTTGTT
66 GAACTAGAGCAATACTCAAATAAAACTC-TTCCAATAATGCCAACTCCAAAATTAAAAACTGGGT
56155653 CAAAAACTAAATTACTAT
130 CAAAAACTAAATTACTAT
56155671 GGTATTATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
172 2 0.02
173 114 0.93
174 6 0.05
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (174 bp):
ATTCAACTTTTTTTTATAATCACAAATGTCTTTATTCATTTAACACTATGAATTTAATCATGTTC
GAACTAGAGCAATACTCAAATAAAACTCTTCCAATAATGCCAACTCCAAAATTAAAAACTGGGTC
AAAAACTAAATTACTATAGTAAAGTGTTAGGTATCATTTACATT
Found at i:56162754 original size:23 final size:23
Alignment explanation
Indices: 56162724--56162814 Score: 85
Period size: 23 Copynumber: 3.8 Consensus size: 23
56162714 TGCGCTAGAT
56162724 AGTAAGCTCATACGAGCTGAAAC
1 AGTAAGCTCATACGAGCTGAAAC
56162747 AGTAAGCTC-TAACGAGCTGAAAAC
1 AGTAAGCTCAT-ACGAGCTG-AAAC
* * * * *
56162771 AATAGGCTCTTACGAGCTAAAAT
1 AGTAAGCTCATACGAGCTGAAAC
56162794 ATTGGTAAGCTCATACGAGCT
1 A---GTAAGCTCATACGAGCT
56162815 ATGGTGAGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
22 1 0.02
23 21 0.38
24 18 0.33
25 1 0.02
26 14 0.25
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (23 bp):
AGTAAGCTCATACGAGCTGAAAC
Found at i:56162779 original size:24 final size:24
Alignment explanation
Indices: 56162726--56162792 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
56162716 CGCTAGATAG
*
56162726 TAAGCTC-ATACGAGCTG-AAACAG
1 TAAGCTCTA-ACGAGCTGAAAACAA
56162749 TAAGCTCTAACGAGCTGAAAACAA
1 TAAGCTCTAACGAGCTGAAAACAA
* *
56162773 TAGGCTCTTACGAGCT-AAAA
1 TAAGCTCTAACGAGCTGAAAA
56162793 TATTGGTAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (24 bp):
TAAGCTCTAACGAGCTGAAAACAA
Found at i:56166009 original size:86 final size:86
Alignment explanation
Indices: 56165908--56166069 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 86
56165898 TGTCGAAGGA
* *
56165908 TGAGTTTTTACTCTTAATGAATTCATA-GCCATAATTTGGGCGGTCATATTGAAACGGACTTGAT
1 TGAGTTTTTACTCTTAATGAATTCATATCCCAGAATTTGGGCGGTCATATTGAAACGGACTTGAT
56165972 GAATTCACCAAGATGAGAGGT
66 GAATTCACCAAGATGAGAGGT
* * * * * * *
56165993 TGAGTTTATTACTCTTAATGACTTCATATCCCGGAGTTTGGGTGGTCTTATTGAGATGGACTTGA
1 TGAGTTT-TTACTCTTAATGAATTCATATCCCAGAATTTGGGCGGTCATATTGAAACGGACTTGA
56166058 TGAATTCACCAA
65 TGAATTCACCAA
56166070 AATTAAATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
85 7 0.11
86 19 0.29
87 40 0.61
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATATCCCAGAATTTGGGCGGTCATATTGAAACGGACTTGAT
GAATTCACCAAGATGAGAGGT
Found at i:56168380 original size:28 final size:28
Alignment explanation
Indices: 56168339--56168411 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
56168329 ATACAACAAA
*
56168339 TTTTTCTCTACATTTAATGTCTTAATAG
1 TTTTTCTATACATTTAATGTCTTAATAG
* *
56168367 TTTTTCTATGCATTTAATGTTTTAAT-G
1 TTTTTCTATACATTTAATGTCTTAATAG
56168394 TCTTTTTCT-TACATTTAA
1 --TTTTTCTATACATTTAA
56168412 CTTTTTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 31 0.79
29 7 0.18
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTTTCTATACATTTAATGTCTTAATAG
Found at i:56169080 original size:13 final size:13
Alignment explanation
Indices: 56169062--56169086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56169052 TTAATCTTAA
56169062 CTTTTTCTAAAGG
1 CTTTTTCTAAAGG
56169075 CTTTTTCTAAAG
1 CTTTTTCTAAAG
56169087 TCAATAATGA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CTTTTTCTAAAGG
Found at i:56169713 original size:29 final size:29
Alignment explanation
Indices: 56169680--56169759 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
56169670 AAGTGCAATT
* * *
56169680 CAAAGTGGCGGAC-AGTCTAAAGAGTAAGC
1 CAAAGTGGCGAACAAG-CCAAAAAGTAAGC
*
56169709 TAAAGTGGCGAACAAGCCAAAAAGTAAGC
1 CAAAGTGGCGAACAAGCCAAAAAGTAAGC
**
56169738 CAAAGTGGCGTGCAAGCCAAAA
1 CAAAGTGGCGAACAAGCCAAAA
56169760 GTGGTGTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 41 0.95
30 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (29 bp):
CAAAGTGGCGAACAAGCCAAAAAGTAAGC
Found at i:56169776 original size:17 final size:18
Alignment explanation
Indices: 56169734--56169776 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
56169724 GCCAAAAAGT
56169734 AAGCC-AAAGTGGCGTGC
1 AAGCCAAAAGTGGCGTGC
*
56169751 AAGCCAAAAGTGGTGT-C
1 AAGCCAAAAGTGGCGTGC
56169768 AAGCCAAAA
1 AAGCCAAAA
56169777 CTATAAGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.40, C:0.21, G:0.28, T:0.12
Consensus pattern (18 bp):
AAGCCAAAAGTGGCGTGC
Found at i:56171369 original size:50 final size:50
Alignment explanation
Indices: 56171310--56171420 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
56171300 GTTGTATATA
* * *
56171310 AAAGGTGCAACCGTGGATGATTGCAACCC-GAAATTACACAGTAGAATGCC
1 AAAGGTGCAACCATGGATGATTACAACCCAG-AATTACACAATAGAATGCC
* ** * * *
56171360 AAAGGTGCAACCATTGATTCTTACAACCCAGATTTACATAATAGAATGTC
1 AAAGGTGCAACCATGGATGATTACAACCCAGAATTACACAATAGAATGCC
56171410 AAAGGTGCAAC
1 AAAGGTGCAAC
56171421 TATTGTCAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAGGTGCAACCATGGATGATTACAACCCAGAATTACACAATAGAATGCC
Found at i:56174020 original size:13 final size:13
Alignment explanation
Indices: 56173970--56174033 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
56173960 TTCTTCATTG
* *
56173970 CTTTTGAAAATTG
1 CTTTTGAAAAGTA
*
56173983 TTTTTGAAAAGTA
1 CTTTTGAAAAGTA
* *
56173996 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
*
56174009 CTTTTGAGAAGTA
1 CTTTTGAAAAGTA
*
56174022 CTTTTAAAAAGT
1 CTTTTGAAAAGT
56174034 TTAGTTTAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:56180179 original size:58 final size:58
Alignment explanation
Indices: 56180085--56180231 Score: 143
Period size: 58 Copynumber: 2.5 Consensus size: 58
56180075 CTAGAGGGAA
* * *** * **
56180085 AAAAAAGGAAGTGCTACAGTTATGTTGCACATTCTAGGAGTCTATTTAAGTTC-TCAAGG
1 AAAAAA-GAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTACCTAAGTTCTTCAA-G
* * *
56180144 GAAAAAGAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTGCCTAAGTTCTTGAAG
1 AAAAAAGAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTACCTAAGTTCTTCAAG
***
56180202 AAAAAAGAATTGCTACTCATTTGTTGCATG
1 AAAAAAGAATTGCTACAGTTTTGTTGCATG
56180232 TTCTTTCTTC
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
58 64 0.89
59 8 0.11
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (58 bp):
AAAAAAGAATTGCTACAGTTTTGTTGCATGGTCTAGGAATCTACCTAAGTTCTTCAAG
Found at i:56182495 original size:102 final size:102
Alignment explanation
Indices: 56182375--56182573 Score: 292
Period size: 102 Copynumber: 2.0 Consensus size: 102
56182365 GGTTTGCTTA
* * * *
56182375 AAATGAAAATTTCAATGGAAGTGTTAGTCTACAGTTG-CTGTTATGACTTGTGACTGTGAAAAAT
1 AAATGAAAATTTCAATGGAAGTGTTAGTCTACA-ATGACTATTATGACTTGTCACTGCGAAAAAT
* *
56182439 TGTGCAAACAAAATAAAAATAACATAGAGATTTACTCT
65 TGTGCAAACAAAACAAAAATAACACAGAGATTTACTCT
* *
56182477 AAATGAAAATTTCAATGGAAGTGTTAGTCTGCAATGACTATTATGGCTTGTCACTGCGAAAAATT
1 AAATGAAAATTTCAATGGAAGTGTTAGTCTACAATGACTATTATGACTTGTCACTGCGAAAAATT
* *
56182542 GTGCAAGCAAAACAGAAATAACACAGAGATTT
66 GTGCAAACAAAACAAAAATAACACAGAGATTT
56182574 GTTTCCGTAG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 2 0.02
102 84 0.98
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (102 bp):
AAATGAAAATTTCAATGGAAGTGTTAGTCTACAATGACTATTATGACTTGTCACTGCGAAAAATT
GTGCAAACAAAACAAAAATAACACAGAGATTTACTCT
Found at i:56188053 original size:51 final size:51
Alignment explanation
Indices: 56187994--56188126 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
56187984 GTAACTAATA
*
56187994 TTAGAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATC
1 TTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGAATC
* * * ** * * **
56188045 TTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGGAATC
1 TTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGAATC
*
56188096 TTAGAAGATATGATATTATATTCTTAGAGAT
1 TTAGAAGATATGATATTATAATCTTAGAGAT
56188127 TTGATGGTAG
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (51 bp):
TTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGAATC
Found at i:56191068 original size:51 final size:51
Alignment explanation
Indices: 56191012--56191148 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 51
56191002 TATGGTAACT
* *
56191012 AATCTTAGAGGATATGATATTATAATCTTAGAGATCTTAGATATGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
* * * *** * * **
56191063 AATCTTATAAGATATTATTTTATAAGAATACATATCTTATCTAAGATATGG
1 AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
*
56191114 AATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 AATCTTAGAAGATATGATATTATAATCTTAGAGAT
56191149 TTGATGGTAG
Statistics
Matches: 65, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (51 bp):
AATCTTAGAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGG
Found at i:56193491 original size:22 final size:22
Alignment explanation
Indices: 56193451--56193507 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
56193441 GTGAATCGTG
*
56193451 TTTA-TTTT-TTTCATTTTTTA
1 TTTATTTTTATTTTATTTTTTA
56193471 TTCT-TTTTTATTTTATTTTTTA
1 TT-TATTTTTATTTTATTTTTTA
*
56193493 TTTATTTTTAATTTA
1 TTTATTTTTATTTTA
56193508 AAATATAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 6 0.19
22 23 0.74
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTTTTATTTTATTTTTTA
Found at i:56193496 original size:11 final size:11
Alignment explanation
Indices: 56193451--56193507 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
56193441 GTGAATCGTG
56193451 TTTA-TTTTT-
1 TTTATTTTTTA
*
56193460 TTCATTTTTTA
1 TTTATTTTTTA
*
56193471 -TTCTTTTTTA
1 TTTATTTTTTA
56193481 TTTTATTTTTTA
1 -TTTATTTTTTA
*
56193493 TTTATTTTTAA
1 TTTATTTTTTA
56193504 TTTA
1 TTTA
56193508 AAATATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 3 0.08
10 13 0.33
11 14 0.36
12 9 0.23
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:56206758 original size:28 final size:28
Alignment explanation
Indices: 56206713--56206767 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
56206703 AACCAATATG
* * *
56206713 AATCACATGTGATCAAATTCTAAGAATC
1 AATCACATGCGATAAAATGCTAAGAATC
56206741 AATCACATGCGATAAAATGCTAAGAAT
1 AATCACATGCGATAAAATGCTAAGAAT
56206768 TTCGTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (28 bp):
AATCACATGCGATAAAATGCTAAGAATC
Found at i:56208797 original size:44 final size:46
Alignment explanation
Indices: 56208692--56208799 Score: 125
Period size: 46 Copynumber: 2.4 Consensus size: 46
56208682 ATCAGGGTAC
* * *
56208692 GTTTGGTTCACTGTAATGGAATAAAGCTGTAATCAGTAATTCAATT
1 GTTTGGTTGAATGGAATGGAATAAAGCTGTAATCAGTAATTCAATT
* *
56208738 GTTTGGTAGAATGGAATGGAATAGAA-CTGTAAT-AGT-ATTC-TTGT
1 GTTTGGTTGAATGGAATGGAATA-AAGCTGTAATCAGTAATTCAAT-T
56208782 GTTTGGTTGAATGGAATG
1 GTTTGGTTGAATGGAATG
56208800 ATGTTGTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 22 0.41
45 3 0.06
46 26 0.48
47 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (46 bp):
GTTTGGTTGAATGGAATGGAATAAAGCTGTAATCAGTAATTCAATT
Found at i:56209873 original size:35 final size:37
Alignment explanation
Indices: 56209828--56209920 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 37
56209818 ATATAATTAT
* *
56209828 TTTTATATTAAAATAATTAAAATA-TATTTTTTAA-A
1 TTTTATATTAAAATAATTAAAATATTATATTTAAAGA
*
56209863 TTTTATATTAAAATATTTAAAATATTATATTTAAAGA
1 TTTTATATTAAAATAATTAAAATATTATATTTAAAGA
56209900 TTTAATATATTAAAAT-ATTAA
1 TTT--TATATTAAAATAATTAA
56209921 TAATTCAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
35 23 0.46
36 8 0.16
37 4 0.08
38 4 0.08
39 11 0.22
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (37 bp):
TTTTATATTAAAATAATTAAAATATTATATTTAAAGA
Found at i:56209878 original size:8 final size:8
Alignment explanation
Indices: 56209867--56209920 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
56209857 TTTAAATTTT
56209867 ATATTAAA
1 ATATTAAA
56209875 ATATTTAAA
1 ATA-TTAAA
*
56209884 ATATT-AT
1 ATATTAAA
56209891 AT-TTAAA
1 ATATTAAA
*
56209898 GAT-TTAAT
1 -ATATTAAA
56209906 ATATTAAA
1 ATATTAAA
56209914 ATATTAA
1 ATATTAA
56209921 TAATTCAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.16
8 22 0.58
9 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (8 bp):
ATATTAAA
Done.