Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 40 of 218
Found at i:12514314 original size:24 final size:23
Alignment explanation
Indices: 12514278--12514322 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
12514268 TGTTATTTTA
12514278 TTTTAATATTTAATAAATTTATAT
1 TTTTAATATTTAA-AAATTTATAT
*
12514302 TTTTAAT-TATTAAAATTTTAT
1 TTTTAATAT-TTAAAAATTTAT
12514323 TTATAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTTAAAAATTTATAT
Found at i:12514923 original size:17 final size:18
Alignment explanation
Indices: 12514891--12514925 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12514881 TTTGTGCTAT
*
12514891 AAATTACATAATATATAA
1 AAATAACATAATATATAA
12514909 AAATAACAT-ATATATAA
1 AAATAACATAATATATAA
12514926 CATTACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:12519054 original size:154 final size:154
Alignment explanation
Indices: 12518774--12519067 Score: 572
Period size: 154 Copynumber: 1.9 Consensus size: 154
12518764 AACCATTCCC
12518774 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
1 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
12518839 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
66 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
12518904 AAAAAAAAAAAGACAAATTCCACA
131 AAAAAAAAAAAGACAAATTCCACA
12518928 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
1 CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
12518993 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGGCT-TTCATTT
66 CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCA-GCTCTTCATTT
12519057 AAAAAAAAAAA
130 AAAAAAAAAAA
12519068 GACCAATATC
Statistics
Matches: 139, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
154 136 0.98
155 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (154 bp):
CTATTAACATGTCTACCCATCAGTGTGTCAGCACCACAAGGTGCTTTGTGATGGTTTAATGTTAA
CTAGTGCTTTTGTTTACAATTAAGTTCAAAAGCATGCACTATGCTGTGCTTCAGCTCTTCATTTA
AAAAAAAAAAAGACAAATTCCACA
Found at i:12524866 original size:4 final size:4
Alignment explanation
Indices: 12524859--12524902 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
12524849 TATGTAGTGG
* *
12524859 ATAA ATAA ATAA ATAA ATGA ATAA ATAA ATCAA ACAA ATGAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT-AA AT
12524903 TATAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:12524941 original size:16 final size:16
Alignment explanation
Indices: 12524920--12524950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12524910 AATGCAAGAA
12524920 ATGTATGGATGTACAC
1 ATGTATGGATGTACAC
*
12524936 ATGTATGTATGTACA
1 ATGTATGGATGTACA
12524951 TATAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (16 bp):
ATGTATGGATGTACAC
Found at i:12527066 original size:21 final size:21
Alignment explanation
Indices: 12527040--12527082 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
12527030 CGTTACCTTC
12527040 TTCTTTCACTATATACATATA
1 TTCTTTCACTATATACATATA
*
12527061 TTCTTTCACTATATAGATATA
1 TTCTTTCACTATATACATATA
12527082 T
1 T
12527083 AGTATAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (21 bp):
TTCTTTCACTATATACATATA
Found at i:12529192 original size:19 final size:19
Alignment explanation
Indices: 12529146--12529192 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
12529136 AAACATATTT
12529146 TTTTATAAAATTCTAAAATA
1 TTTT-TAAAATTCTAAAATA
* *
12529166 ATTATAAAATTCTAAAA-A
1 TTTTTAAAATTCTAAAATA
12529184 GTTTTTAAA
1 -TTTTTAAA
12529193 TTACTTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.05
19 19 0.86
20 2 0.09
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTTAAAATTCTAAAATA
Found at i:12538971 original size:19 final size:20
Alignment explanation
Indices: 12538935--12538972 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12538925 GTTTTTGAAA
*
12538935 AAAAATATTTTTTTTATTTT
1 AAAAATATTTTTTATATTTT
12538955 AAAAATA-TTTTTATATTT
1 AAAAATATTTTTTATATTT
12538973 ATTTTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AAAAATATTTTTTATATTTT
Found at i:12541287 original size:18 final size:17
Alignment explanation
Indices: 12541256--12541305 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 17
12541246 CTTAAAACAT
12541256 AATATAATATTTATTATAGA
1 AATA-AATA-TTATTAT-GA
12541276 AATAAATATTATT-TGA
1 AATAAATATTATTATGA
*
12541292 AA-AAAAATTATTAT
1 AATAAATATTATTAT
12541306 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 1 0.04
18 5 0.18
19 4 0.14
20 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
AATAAATATTATTATGA
Found at i:12541412 original size:43 final size:43
Alignment explanation
Indices: 12541340--12541525 Score: 239
Period size: 43 Copynumber: 4.3 Consensus size: 43
12541330 GTTTTTCTAA
* * * * *
12541340 AAAGCGCCGCTAAAGGT-TTATTCTATAGCGGTGTTTGAGGGA
1 AAAGCGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGG
* * *
12541382 AAAACGCCGCTAATGGTCATAGTCTTTAGCGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGG
* * *
12541425 AAAGCGCAGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGG
* * *
12541468 AAAGCGTCGCTAAAGGTCTTGGTATTTAGCGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGG
12541511 AAAGCGCCGCTAAAG
1 AAAGCGCCGCTAAAG
12541526 TTAGCGACGC
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 15 0.12
43 109 0.88
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTAGTCTTTAGCGGCGTTTGTGGGG
Found at i:12543044 original size:44 final size:44
Alignment explanation
Indices: 12542995--12543311 Score: 148
Period size: 44 Copynumber: 7.2 Consensus size: 44
12542985 CACTATTGCT
* *
12542995 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTACC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACC
* * * ** *
12543039 CAGGGA-AGT-AGAATTTCT-GGCTTCAATGTACTCCACTG-TAACC
1 TAGGGAGA-TAAG-ATCTGTAATCTTCAATCTACTCCACTGCT-ACC
* * * ** * * * *
12543082 ATAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACT
1 -TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACC
** * *
12543127 TAGGGAGATAAGATCTGTGGT-TTTAATCTATTCCACTGCTACC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACC
* * * * **
12543170 CAGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACTG-TAATAT
1 TAGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCT-A-CC
* * ** * * * * *
12543214 TAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCT
1 TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACC
* * *
12543258 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGATGCC
1 TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACC
12543302 TAGGGAGATA
1 TAGGGAGATA
12543312 GAACTACCGG
Statistics
Matches: 191, Mismatches: 65, Indels: 34
0.66 0.22 0.12
Matches are distributed among these distances:
40 2 0.01
42 6 0.03
43 61 0.32
44 85 0.45
45 34 0.18
46 2 0.01
47 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TAGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACC
Found at i:12543047 original size:132 final size:132
Alignment explanation
Indices: 12542883--12543375 Score: 706
Period size: 132 Copynumber: 3.7 Consensus size: 132
12542873 TTTCGTCTGC
** * *
12542883 TCTTCAATCTATTCCACTGTTGTCCAGGGA-AGTAGAACTACTGGCTTTAATGTACTCTACTGTA
1 TCTTCAATCTATTCCACTGTTACCCAGGGAGA-TAGAACTACTGGCTTCAATGTACTCCACTGTA
* * * *
12542947 ATCTCAGAGAGGTAAAAGCTGTCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTG
65 ATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
12543012 TAA
130 TAA
* *
12543015 TCTTCAATCTATTCCACTGTTACCCAGGGA-AGTAGAATTTCTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGTTACCCAGGGAGA-TAGAACTACTGGCTTCAATGTACTCCACTGTA
* * *
12543079 ACCAT-AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCT
65 ATC-TCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
**
12543143 GTGG
129 GTAA
* *
12543147 T-TTTAATCTATTCCACTGCTACCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGTTACCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAA
* *
12543211 TATTAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 TCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
12543276 AA
131 AA
* * * *
12543278 TCTTCAATCTATTCCACTGATGCCTAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGTTACCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAA
* *
12543343 TCTCAGGGAGGTAAAATCCGCCATCTTCAATCT
66 TCTCAGGGAGGTAAAATCTGCCATCTTCGATCT
12543376 TCAATCTATT
Statistics
Matches: 323, Mismatches: 34, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
130 1 0.00
131 117 0.36
132 204 0.63
133 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGTTACCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGTAA
TCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AA
Found at i:12543355 original size:263 final size:263
Alignment explanation
Indices: 12542888--12543375 Score: 757
Period size: 263 Copynumber: 1.9 Consensus size: 263
12542878 TCTGCTCTTC
* ** * * *
12542888 AATCTATTCCACTGTTGTCCAGGGAAGTAGAACTACTGGCTTTAATGTACTCTACTGTAATCTCA
1 AATCTATTCCACTGCTACCCAGGGAAGTAGAACTACTGGCTTCAATGTACTCCACTGTAATATCA
* *
12542953 GAGAGGTAAAAGCTGTCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCT
66 GAGAGGTAAAAGCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCT
* * * *
12543018 TCAATCTATTCCACTGTTACCCAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTGTAACCA
131 TCAATCTATTCCACTGATACCCAGGGAAGTAGAACTACCGGCTTCAATGTACTCCACTGTAACCA
*
12543083 TAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGT
196 TAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGT
12543148 TTT
261 TTT
*
12543151 AATCTATTCCACTGCTACCCAGGG-AGATAGAACTACTGGCTTCAATGTACTCCACTGTAATATT
1 AATCTATTCCACTGCTACCCAGGGAAG-TAGAACTACTGGCTTCAATGTACTCCACTGTAATATC
* *
12543215 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
65 AGAGAGGTAAAAGCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC
* * *
12543280 TTCAATCTATTCCACTGATGCCTAGGG-AGATAGAACTACCGGCTTCAATGTACTCCACTGTAAT
130 TTCAATCTATTCCACTGATACCCAGGGAAG-TAGAACTACCGGCTTCAATGTACTCCACTGTAAC
12543344 C-TCAGGGAGGTAAAATCCGCCATCTTCAATCT
194 CAT-AGGGAGGTAAAATCCGCCATCTTCAATCT
12543376 TCAATCTATT
Statistics
Matches: 203, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
262 5 0.02
263 198 0.98
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (263 bp):
AATCTATTCCACTGCTACCCAGGGAAGTAGAACTACTGGCTTCAATGTACTCCACTGTAATATCA
GAGAGGTAAAAGCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCT
TCAATCTATTCCACTGATACCCAGGGAAGTAGAACTACCGGCTTCAATGTACTCCACTGTAACCA
TAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGT
TTT
Found at i:12543447 original size:96 final size:95
Alignment explanation
Indices: 12543276--12543456 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 95
12543266 TAAGATCTGT
* * *
12543276 AATCTTCAATCTATTCCACTGATGCCTAGGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGATACCCAAGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
12543341 AATCTCAGGGAGGTAAAATCCGCCATCTTC
66 AATCTCAGGGAGGTAAAATCCGCCATCTTC
* *
12543371 AATCTTCAATCTATTCCACTG-TCAACCCAAGGAGATAGAATTATCGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGAT--ACCCAAGGAGATAGAACTACCGGCTTCAATGTACTCCACT
* *
12543435 GTAGTCTTAGGGAGGTAAAATC
64 GTAATCTCAGGGAGGTAAAATC
12543457 TACCATATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 1 0.01
95 21 0.27
96 55 0.71
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (95 bp):
AATCTTCAATCTATTCCACTGATACCCAAGGAGATAGAACTACCGGCTTCAATGTACTCCACTGT
AATCTCAGGGAGGTAAAATCCGCCATCTTC
Found at i:12543536 original size:45 final size:46
Alignment explanation
Indices: 12543487--12543601 Score: 139
Period size: 44 Copynumber: 2.6 Consensus size: 46
12543477 GCTGTCGATG
* * * *
12543487 CAGGAGGGTAAGATCTGCTATCTTTAG-TCTGCTCCACTGTTAGTA
1 CAGGAAGGCAAGATCTGCTATCTTTAGATCTGCTCCACCGTCAGTA
* *
12543532 CAGGAAGGCAAGA-CTGGCT-TC-TTCGATCTGCTTCACCGTCAGTA
1 CAGGAAGGCAAGATCT-GCTATCTTTAGATCTGCTCCACCGTCAGTA
12543576 CAGGAAGGCAAGATCTGCTATCTTTA
1 CAGGAAGGCAAGATCTGCTATCTTTA
12543602 ACCAGCTCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
43 3 0.05
44 35 0.60
45 18 0.31
46 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (46 bp):
CAGGAAGGCAAGATCTGCTATCTTTAGATCTGCTCCACCGTCAGTA
Found at i:12543950 original size:45 final size:44
Alignment explanation
Indices: 12543819--12543954 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 44
12543809 TGTGTTTTCG
* * * *
12543819 ACCTGCTTCGCTGTCAATACAGGAAGGAAAGATCTATTGTCTTTA
1 ACCTGCTTCGCTGTCAAT-GAGGAAGGCAAGATCTGTTGTCTTCA
* * * * * * * *
12543864 ACCAGCTCCACT-ACAAACGAGGGAGGCAAGGTTTG-TGTCTTCA
1 ACCTGCTTCGCTGTC-AATGAGGAAGGCAAGATCTGTTGTCTTCA
*
12543907 ATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCA
1 ACCTGCTTCGCTGTCAATG-AGGAAGGCAAGATCTGTTGTCTTCA
12543952 ACC
1 ACC
12543955 AGCTCCACTA
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
43 18 0.28
44 26 0.40
45 21 0.32
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
ACCTGCTTCGCTGTCAATGAGGAAGGCAAGATCTGTTGTCTTCA
Found at i:12543979 original size:44 final size:43
Alignment explanation
Indices: 12543847--12543981 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
12543837 ACAGGAAGGA
* * *
12543847 AAGATCTATTGTCTTTAACCAGCTCCACTACAAACGAGGGAGGC
1 AAGATCTGTTGTCTTCAACCAGCTCCACTAC-AACGATGGAGGC
* * * * * * * *
12543891 AAGGTTTG-TGTCTTCAATCTGCTTCGCTGTCAATG-TAGGAAGGC
1 AAGATCTGTTGTCTTCAACCAGCTCCACT-ACAACGAT-GG-AGGC
12543935 AAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGATGGAGGC
1 AAGATCTGTTGTCTTCAACCAGCTCCACTACAA-CGATGGAGGC
12543979 AAG
1 AAG
12543982 GTTTTGTTTT
Statistics
Matches: 66, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 20 0.30
44 26 0.39
45 19 0.29
46 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (43 bp):
AAGATCTGTTGTCTTCAACCAGCTCCACTACAACGATGGAGGC
Found at i:12544512 original size:87 final size:87
Alignment explanation
Indices: 12543553--12544504 Score: 1375
Period size: 87 Copynumber: 10.9 Consensus size: 87
12543543 GACTGGCTTC
* * * * *
12543553 TTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
12543618 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
*
12543640 TTCGATCTGCTTCGCTATTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
12543705 CCGATGAAGGTAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* * * * *
12543727 TTCGATCTGCTTTGTTGTTAATGCAGGAAGGCAAGATCTACTATTTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
12543792 CCGA-GAGAGGCAAGGTTTGTGTT
66 CCGATG-GAGGCAAGGTTT-TGTT
* * * * ** * *
12543815 TTCGACCTGCTTCGCTGTCAATACAGGAAGGAAAGATCTATTGTCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * *
12543880 ACGAGGGAGGCAAGGTTTGTGTC
66 CCGATGGAGGCAAGGTTT-TGTT
* * * * * * *
12543903 TTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
12543968 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* *
12543990 TTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* *
12544055 CCGATAGAGGCAATGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* *
12544077 TTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
12544142 CCGATGGAGGCAATGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* * *
12544164 TTCGATCTGCTTCGCTATTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCATTGCAG
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
12544229 CTGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* * *
12544251 TTTGATTTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAG
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
12544316 CTGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* *
12544338 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAATATCTGCTATCTTTAACCAGCTCCACTGCAG
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
12544403 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGTTTTGTT
* * * * * *
12544425 TTTGATCTACTTCGCTGTTAATGCAGGAAGGTAAGATCTACTATCTTTGACCAGCTCTACTGCAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
12544490 CTGATGGAGGCAAGG
66 CCGATGGAGGCAAGG
12544505 ATCTGTTTCT
Statistics
Matches: 787, Mismatches: 75, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
86 1 0.00
87 632 0.80
88 153 0.19
89 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGTTTTGTT
Found at i:12545136 original size:108 final size:108
Alignment explanation
Indices: 12544947--12545142 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 108
12544937 GAAAAATGCT
* *
12544947 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTATTGAGAGCAAAGCTCTAAACAAACAAAT
*
12545012 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATCAAGATAACAAATTTTGCTGAGATACGAGATGTATAAGA
* * * * **
12545055 TGAAAAAGATTATCACAATGGATAAGATGAAAATTTATTGAGAGCAAAGCTCTACATGAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTATTGAGAGCAAAGCTCTAAACAAACAAAT
*
12545120 TAATCAAGATAACAAATTTTGCT
66 CAATCAAGATAACAAATTTTGCT
12545143 AGAATACAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 78 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTATTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAACAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:12546013 original size:25 final size:25
Alignment explanation
Indices: 12545971--12546025 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
12545961 CCCGGTAGAG
*
12545971 GTTTTTTTCTTTTATTTTTGTTTTT
1 GTTTTTTTCTTTTATTTTTGTTATT
*
12545996 GTTTTTTTGTTATT-TTTTTGTTATT
1 GTTTTTTTCTT-TTATTTTTGTTATT
12546021 -TTTTT
1 GTTTTT
12546026 GCCTCCACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 20 0.74
26 2 0.07
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (25 bp):
GTTTTTTTCTTTTATTTTTGTTATT
Found at i:12546024 original size:12 final size:11
Alignment explanation
Indices: 12545982--12546026 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
12545972 TTTTTTTCTT
*
12545982 TTATTTTTGTTT
1 TTATTTTT-TTG
*
12545994 TTGTTTTTTTG
1 TTATTTTTTTG
12546005 TTATTTTTTTG
1 TTATTTTTTTG
12546016 TTATTTTTTTG
1 TTATTTTTTTG
12546027 CCTCCACTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.82
Consensus pattern (11 bp):
TTATTTTTTTG
Found at i:12555734 original size:16 final size:16
Alignment explanation
Indices: 12555701--12555734 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12555691 GGAGATTGTT
* *
12555701 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
12555717 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
12555733 AA
1 AA
12555735 TAGAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:12559670 original size:9 final size:9
Alignment explanation
Indices: 12559656--12559728 Score: 65
Period size: 9 Copynumber: 7.7 Consensus size: 9
12559646 ACTTATTTTT
12559656 ATTTTTAAA
1 ATTTTTAAA
12559665 ATTTTTAAATA
1 ATTTTT-AA-A
*
12559676 ATTTTTACA
1 ATTTTTAAA
12559685 ATTTTTATAA
1 ATTTTTA-AA
*
12559695 ATTTTTATA
1 ATTTTTAAA
* *
12559704 AGTTTTATA
1 ATTTTTAAA
*
12559713 AGTTTTAAA
1 ATTTTTAAA
12559722 AGTTTTT
1 A-TTTTT
12559729 CTAATATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
9 32 0.59
10 15 0.28
11 7 0.13
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:12559690 original size:10 final size:10
Alignment explanation
Indices: 12559656--12559739 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 10
12559646 ACTTATTTTT
12559656 ATTTTTA-AA
1 ATTTTTATAA
*
12559665 ATTTTTAAATA
1 ATTTTTATA-A
*
12559676 ATTTTTA-CA
1 ATTTTTATAA
12559685 ATTTTTATAA
1 ATTTTTATAA
12559695 ATTTTTAT-A
1 ATTTTTATAA
*
12559704 AGTTTTAT-A
1 ATTTTTATAA
*
12559713 AGTTTTA-AA
1 ATTTTTATAA
*
12559722 AGTTTTTCTAA
1 A-TTTTTATAA
12559733 TATTTTT
1 -ATTTTT
12559740 TTTATAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
9 33 0.52
10 14 0.22
11 15 0.24
12 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:12559697 original size:19 final size:19
Alignment explanation
Indices: 12559656--12559739 Score: 80
Period size: 19 Copynumber: 4.3 Consensus size: 19
12559646 ACTTATTTTT
*
12559656 ATTTTTAAAATTTTTAAATA
1 ATTTTTAAAATTTTTATA-A
*
12559676 ATTTTTACAATTTTTATAA
1 ATTTTTAAAATTTTTATAA
* *
12559695 ATTTTTATAAGTTTTAT-A
1 ATTTTTAAAATTTTTATAA
* *
12559713 AGTTTTAAAAGTTTTTCTAA
1 ATTTTTAAAA-TTTTTATAA
12559733 TATTTTT
1 -ATTTTT
12559740 TTTATAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
18 9 0.17
19 21 0.40
20 17 0.33
21 5 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTTTAAAATTTTTATAA
Found at i:12559842 original size:11 final size:10
Alignment explanation
Indices: 12559779--12559854 Score: 56
Period size: 10 Copynumber: 8.1 Consensus size: 10
12559769 TTTCTTTTCA
*
12559779 TTTATATAAT
1 TTTATATATT
*
12559789 TTTGTA-ATT
1 TTTATATATT
12559798 TTTATA-A--
1 TTTATATATT
12559805 TTTATATATT
1 TTTATATATT
*
12559815 TATT-TCTATT
1 T-TTATATATT
12559825 TTTATATATT
1 TTTATATATT
12559835 TTTA-ATATT
1 TTTATATATT
* *
12559844 TATATACATT
1 TTTATATATT
12559854 T
1 T
12559855 GATAAAAGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 18 0.34
10 26 0.49
11 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTATATATT
Found at i:12562643 original size:45 final size:45
Alignment explanation
Indices: 12562538--12562666 Score: 179
Period size: 45 Copynumber: 2.9 Consensus size: 45
12562528 TCCAAATTTA
* *
12562538 CAGACAAGCTACCATGTAGGTTGTGGA-TAAACTACCAATATTCG
1 CAGACAAGCTACCATGTAGGTTGTGGACGAAACCACCAATATTCG
* * * *
12562582 TAGGCAAGCTATCATGTAGGTTATGGACGAAACCACCAATATTCG
1 CAGACAAGCTACCATGTAGGTTGTGGACGAAACCACCAATATTCG
* *
12562627 CAGACAAGTTGCCATGTAGGTTGTGGACGAAACCACCAAT
1 CAGACAAGCTACCATGTAGGTTGTGGACGAAACCACCAAT
12562667 TCTTCTCATT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 23 0.32
45 49 0.68
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (45 bp):
CAGACAAGCTACCATGTAGGTTGTGGACGAAACCACCAATATTCG
Found at i:12564115 original size:15 final size:15
Alignment explanation
Indices: 12564097--12564126 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12564087 AGGGAAATGG
*
12564097 AAAAAAGGAAAGAAA
1 AAAAAAGAAAAGAAA
12564112 AAAAAAGAAAAGAAA
1 AAAAAAGAAAAGAAA
12564127 TGAATGTGGA
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAA
Found at i:12568336 original size:12 final size:12
Alignment explanation
Indices: 12568321--12568345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12568311 ACTTTCCACC
12568321 ACAATCATCAGA
1 ACAATCATCAGA
12568333 ACAATCATCAGA
1 ACAATCATCAGA
12568345 A
1 A
12568346 ACTCCCTCAG
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:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAATCATCAGA
Found at i:12573254 original size:12 final size:12
Alignment explanation
Indices: 12573237--12573291 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
12573227 GCAGTCATCC
12573237 TTTCTTCTTCTT
1 TTTCTTCTTCTT
*
12573249 TTTCTTTTTCTT
1 TTTCTTCTTCTT
*
12573261 TTCCTTCTTC--
1 TTTCTTCTTCTT
* * *
12573271 CTTCATCTTTTT
1 TTTCTTCTTCTT
12573283 TTTCTTCTT
1 TTTCTTCTT
12573292 TCAATAATTC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
10 6 0.19
12 26 0.81
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCTTCTTCTT
Found at i:12581105 original size:16 final size:16
Alignment explanation
Indices: 12581084--12581134 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
12581074 TGAATTACTG
12581084 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
12581100 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
12581116 ATTACTGCTCTATTTC
1 ATTACAGCTCTATTCC
12581132 ATT
1 ATT
12581135 CCACTGAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:12585282 original size:44 final size:45
Alignment explanation
Indices: 12585171--12585285 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
12585161 TAATTTATAG
* *
12585171 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATCTGATAT
* * * *
12585216 TTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-CTGATGA-
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATCTGAT-AT
*
12585260 CTTCAATCTGTTCCACTACAACTTCA
1 CTTCAATCTGTTCCACTGCAACTTCA
12585286 AAAAGATAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (45 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATCTGATAT
Found at i:12585382 original size:143 final size:143
Alignment explanation
Indices: 12585161--12585939 Score: 1063
Period size: 143 Copynumber: 5.4 Consensus size: 143
12585151 ATAAGATCTG
* * * ** * * * *
12585161 TAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAATCTG
1 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
* * * * * * **
12585226 CTCCACTGCAACTTTAGGGAGATAAGACTGATGACTTCAATCTGTTCCACTACAACTTCAAAAAG
66 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
* *
12585291 ATAAGATTCACCA
131 ATAAGATCCGCCA
* * * * *
12585304 TAATTTTTAGCTTTAATATGTTCCACTGTAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTA
1 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
* * * * *
12585369 CTCTGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCATTGCAACTTCAAGAAG
66 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
12585434 ATAAGATCCGCCA
131 ATAAGATCCGCCA
* *
12585447 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCTAGGGAAATAAGATTTGATGTCTTCAGTCTG
1 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
* * * ** *
12585512 CTCCGCTACAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGTTCCACTGTAACTTCGGGAAG
66 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
12585577 ATAAGATCCGCCA
131 ATAAGATCCGCCA
* *
12585590 TAATTTGTAGTTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
1 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
* * *
12585655 CTCCGCTGCCACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACAACTTCTGGAAG
66 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
*
12585720 ATAAGATCCGCTA
131 ATAAGATCCGCCA
* * * * *
12585733 TAATTTGTAGCTTTAATCTATTCCACTGTAACGCCAGGAAAATAAGATTCGTTGTCTTCAGTCTG
1 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
* * * *
12585798 CTCTGCTACAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAA
66 CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
*
12585863 ATAAGATCTGCCA
131 ATAAGATCCGCCA
* *
12585876 TAATTTGTATCTTTAATATGTTCCACTACAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCT
1 TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCT
12585940 AGAGGTGCTC
Statistics
Matches: 563, Mismatches: 73, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 563 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
TAATTTGTAGCTTTAATATGTTCCACTGCAACGCCAGGGAAATAAGATTTGTTGTCTTCAGTCTG
CTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAG
ATAAGATCCGCCA
Found at i:12585713 original size:44 final size:44
Alignment explanation
Indices: 12585645--12585868 Score: 124
Period size: 44 Copynumber: 4.8 Consensus size: 44
12585635 GATTTGTTGT
* * * * * *
12585645 CTTCAGTCTGCTCCGCTGCCACTTCAGGGAGATAAGGCTGATGG
1 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACTGATGG
* *
12585689 CTTCAATCTGCTCCACTACAACTTCTGGAAGATAAGATCCGCTATAATTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGA----C--TGA--TG--G
* ** ** ** * * * *
12585743 CTTTAATCTATTCCACTGTAACGCCAGGAAAATAAGATTCGTTGT
1 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACT-GATGG
* ** * *
12585788 CTTCAGTCTGCTCTGCTACAACTTCAGGGAGATAAGACTGGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACTGATGG
*
12585832 CTTCAATCTGCTCCACTACAACTTCAGGAAAATAAGA
1 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGA
12585869 TCTGCCATAA
Statistics
Matches: 128, Mismatches: 41, Indels: 22
0.67 0.21 0.12
Matches are distributed among these distances:
44 65 0.51
45 26 0.20
47 2 0.02
48 2 0.02
50 2 0.02
52 2 0.02
54 29 0.23
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGACTGATGG
Found at i:12586160 original size:38 final size:40
Alignment explanation
Indices: 12586095--12586171 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 40
12586085 ACCAAAATTT
*
12586095 TATTTTAAAAATAAAAAAATTTAAAAAAGTACTTTAAAAA
1 TATTTTAAAAATAAAAAAATTAAAAAAAGTACTTTAAAAA
*
12586135 TATTTTAAAAAT-AAAAAA-TAAAAAAAGTATTTTAAAA
1 TATTTTAAAAATAAAAAAATTAAAAAAAGTACTTTAAAA
12586172 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 17 0.49
39 6 0.17
40 12 0.34
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (40 bp):
TATTTTAAAAATAAAAAAATTAAAAAAAGTACTTTAAAAA
Found at i:12586168 original size:27 final size:27
Alignment explanation
Indices: 12586130--12586210 Score: 114
Period size: 26 Copynumber: 3.0 Consensus size: 27
12586120 AAAGTACTTT
12586130 AAAAA-TATTTTAAAAATAAAAAATAA
1 AAAAAGTATTTTAAAAATAAAAAATAA
12586156 AAAAAGTATTTT-AAAATAAAAAA-ATA
1 AAAAAGTATTTTAAAAATAAAAAATA-A
*
12586182 AAAAAGTATTTTAAAATTAAAAAAATAA
1 AAAAAGTATTTTAAAAAT-AAAAAATAA
12586210 A
1 A
12586211 TATATTTATT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
25 1 0.02
26 29 0.59
27 10 0.20
28 8 0.16
29 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAAGTATTTTAAAAATAAAAAATAA
Found at i:12586715 original size:143 final size:143
Alignment explanation
Indices: 12586389--12586811 Score: 670
Period size: 143 Copynumber: 3.0 Consensus size: 143
12586379 AGCACCTCTA
* *
12586389 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGTTCCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
* * * * *
12586454 CTTCAGGAAAATAAGATCCGCCACAATTTGTAGCTTT-ATTTGTTCCACTACAATGCTAAGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAA
12586518 TAAGATTCAATGT
131 TAAGATTCAATGT
* *
12586531 CTTCAGTCTGCTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
12586596 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAA
***
12586661 TAAGATTTGCTGT
131 TAAGATTCAATGT
* * *
12586674 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTACTCCACTACAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
* *
12586739 CTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCT-GGGAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACG-CTAAGGAA
12586803 ATAAGATTC
130 ATAAGATTC
12586812 GCTATGATGA
Statistics
Matches: 259, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
142 96 0.37
143 161 0.62
144 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (143 bp):
CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAA
CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAA
TAAGATTCAATGT
Found at i:12587727 original size:20 final size:20
Alignment explanation
Indices: 12587694--12587732 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12587684 TGGCCTCTCT
12587694 TTTTCCTTTTTTTGTTTTTC
1 TTTTCCTTTTTTTGTTTTTC
12587714 TTTT-CTTTTCTTTGTTTTT
1 TTTTCCTTTT-TTTGTTTTT
12587733 TTTAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTTCCTTTTTTTGTTTTTC
Found at i:12590331 original size:19 final size:19
Alignment explanation
Indices: 12590309--12590348 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12590299 TGTAAAATTT
*
12590309 AATGCATATG-ATGAAATGC
1 AATGCAGATGCATG-AATGC
12590328 AATGCAGATGCATGAATGC
1 AATGCAGATGCATGAATGC
12590347 AA
1 AA
12590349 AAAAAGGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (19 bp):
AATGCAGATGCATGAATGC
Found at i:12595913 original size:19 final size:20
Alignment explanation
Indices: 12595889--12595932 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12595879 TATATAAATA
* *
12595889 ATATAATAAATATGTA-ATT
1 ATATAATAAAAATATATATT
12595908 ATATAATAAAAATATATATT
1 ATATAATAAAAATATATATT
12595928 ATATA
1 ATATA
12595933 TATCATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATAATAAAAATATATATT
Found at i:12596367 original size:44 final size:45
Alignment explanation
Indices: 12596274--12596373 Score: 139
Period size: 44 Copynumber: 2.2 Consensus size: 45
12596264 TTTGTATGTG
* * * *
12596274 TATTTAAAATAATTATTTGAAATATTTAACATATAAACATAATGA
1 TATTTGAAATAATTAATTGAAATATTTAACATATAAAAATAATAA
* *
12596319 TATTTGAAATAATTAATTGAAAT-TTTCATATATAAAAATAATAA
1 TATTTGAAATAATTAATTGAAATATTTAACATATAAAAATAATAA
12596363 TATTTGAAATA
1 TATTTGAAATA
12596374 TTTTACATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 28 0.57
45 21 0.43
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (45 bp):
TATTTGAAATAATTAATTGAAATATTTAACATATAAAAATAATAA
Found at i:12596384 original size:32 final size:31
Alignment explanation
Indices: 12596326--12596395 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
12596316 TGATATTTGA
*
12596326 AATAATTAATTGAAATTTTCATATATAAAAAT
1 AATAA-TAATTGAAATTTTCACATATAAAAAT
* *
12596358 AATAATATTTGAAATATTTTACATATAAAAAT
1 AATAATAATTGAAAT-TTTCACATATAAAAAT
12596390 AATAAT
1 AATAAT
12596396 GATGTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 9 0.26
32 25 0.74
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
AATAATAATTGAAATTTTCACATATAAAAAT
Found at i:12596762 original size:15 final size:16
Alignment explanation
Indices: 12596724--12596754 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12596714 AATTAAAAAG
*
12596724 ATAAATTAAAAATAAA
1 ATAATTTAAAAATAAA
12596740 ATAATTTAAAAATAA
1 ATAATTTAAAAATAA
12596755 CATGTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAATTTAAAAATAAA
Found at i:12604942 original size:25 final size:25
Alignment explanation
Indices: 12604865--12604944 Score: 115
Period size: 25 Copynumber: 3.2 Consensus size: 25
12604855 GACACACCAT
*
12604865 AGCTCTTATGAGCTTACCGATTCTC
1 AGCTCATATGAGCTTACCGATTCTC
* * *
12604890 AACTCGTATAAGCTTACCGATTCTC
1 AGCTCATATGAGCTTACCGATTCTC
*
12604915 AGCTCATATGAGCTTACCGATTCAC
1 AGCTCATATGAGCTTACCGATTCTC
12604940 AGCTC
1 AGCTC
12604945 GCAAAAGCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCGATTCTC
Found at i:12604977 original size:50 final size:50
Alignment explanation
Indices: 12604865--12604962 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
12604855 GACACACCAT
* * * * *
12604865 AGCTCTTATGAGCTTACCGATTCTCAACTCGTATAAGCTTACCGATTCTC
1 AGCTCATATGAGCTTACCGATTCACAACTCGCAAAAGCATACCGATTCTC
* *
12604915 AGCTCATATGAGCTTACCGATTCACAGCTCGCAAAAGCATACTGATTC
1 AGCTCATATGAGCTTACCGATTCACAACTCGCAAAAGCATACCGATTC
12604963 ATAGTTTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (50 bp):
AGCTCATATGAGCTTACCGATTCACAACTCGCAAAAGCATACCGATTCTC
Found at i:12609031 original size:40 final size:39
Alignment explanation
Indices: 12608966--12609143 Score: 160
Period size: 40 Copynumber: 4.4 Consensus size: 39
12608956 ACTATGTTTA
* ** *
12608966 GCACTTAGTGTACGATCCGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTAGA-ATAGCTTCGGCTATATATG
*
12609006 GCACTTAGTGTGCGATTAGGAATAGCTTCGGCCATATATG
1 GCACTTAGTGTGCGATTA-GAATAGCTTCGGCTATATATG
* * * *
12609046 GCACTTAGTGTGCGA-AACTGAGATAGCTTTGGCTATGTAAG
1 GCACTTAGTGTGCGATTA--GA-ATAGCTTCGGCTATATATG
* **
12609087 GCACTTAGTGTGCGGGATTATAATAGCTTCGGCTATGCGATG
1 GCACTTAGTGTGC--GATTAGAATAGCTTCGGCTAT-ATATG
*
12609129 GCATTTAGTGTGCGA
1 GCACTTAGTGTGCGA
12609144 AACATTGAGT
Statistics
Matches: 113, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 51 0.45
41 43 0.38
42 15 0.13
43 2 0.02
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (39 bp):
GCACTTAGTGTGCGATTAGAATAGCTTCGGCTATATATG
Found at i:12609100 original size:81 final size:82
Alignment explanation
Indices: 12608966--12609146 Score: 224
Period size: 81 Copynumber: 2.2 Consensus size: 82
12608956 ACTATGTTTA
* * * *
12608966 GCACTTAGTGTACG-ATCCGAGATAGCTTCGGCTATTTATGGCACTTAGTGTGC-GATTAGGAAT
1 GCACTTAGTGTGCGAAACCGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGGATTA-GAAT
*
12609029 AGCTTCGGCCAT-ATATG
65 AGCTTCGGCCATGAGATG
* * *
12609046 GCACTTAGTGTGCGAAACTGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGGGATTATAAT
1 GCACTTAGTGTGCGAAACCGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGC-GGATTAGAAT
* *
12609111 AGCTTCGGCTATGCGATG
65 AGCTTCGGCCATGAGATG
*
12609129 GCATTTAGTGTGCGAAAC
1 GCACTTAGTGTGCGAAAC
12609147 ATTGAGTATT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 13 0.15
81 34 0.40
82 14 0.16
83 25 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (82 bp):
GCACTTAGTGTGCGAAACCGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGGATTAGAATA
GCTTCGGCCATGAGATG
Found at i:12609113 original size:41 final size:39
Alignment explanation
Indices: 12608987--12609142 Score: 152
Period size: 41 Copynumber: 3.8 Consensus size: 39
12608977 ACGATCCGAG
*
12608987 ATAGCTTCGGCTATTTATGGCACTTAGTGTGC-GATTAGGA
1 ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGGATTA--A
* * * * *
12609027 ATAGCTTCGGCCATATATGGCACTTAGTGTGCGAAACTGAG
1 ATAGCTTCGGCTATGTATGGCACTTAGTGTGCG-GA-TTAA
* *
12609068 ATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGGGATTATA
1 ATAGCTTCGGCTATGTATGGCACTTAGTGTGC-GGATTA-A
* *
12609109 ATAGCTTCGGCTATGCGATGGCATTTAGTGTGCG
1 ATAGCTTCGGCTATG-TATGGCACTTAGTGTGCG
12609143 AAACATTGAG
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
40 32 0.34
41 44 0.47
42 16 0.17
43 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (39 bp):
ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGGATTAA
Found at i:12615257 original size:25 final size:25
Alignment explanation
Indices: 12615198--12615258 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
12615188 CTCCTAAATT
*
12615198 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
12615223 TTTATAAAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
12615248 TTAATTAAATT
1 TTAATTAAATT
12615259 TTTGAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:12639769 original size:13 final size:13
Alignment explanation
Indices: 12639736--12639769 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
12639726 AATTCTGACG
12639736 TCGATTTTCTTCT
1 TCGATTTTCTTCT
12639749 TC-ACTTTTCTTCT
1 TCGA-TTTTCTTCT
12639762 TCGATTTT
1 TCGATTTT
12639770 TCGCGGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 17 0.89
14 1 0.05
ACGTcount: A:0.09, C:0.24, G:0.06, T:0.62
Consensus pattern (13 bp):
TCGATTTTCTTCT
Found at i:12641854 original size:18 final size:18
Alignment explanation
Indices: 12641810--12641857 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
12641800 GCAATAAAAA
12641810 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
12641828 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
12641846 AATGTTTTGAAA
1 AATGTTTTGAAA
12641858 ACGAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:12645583 original size:34 final size:33
Alignment explanation
Indices: 12645541--12645607 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
12645531 ATTTGGGTTG
* *
12645541 GTTTGGGTTTGAAA-CTGATTCGAGAATCGATTA
1 GTTTGGGTTAGAAATC-GATTCAAGAATCGATTA
*
12645574 GTTTAGGGTTAGAAATCGATTCAATAATCGATTA
1 GTTT-GGGTTAGAAATCGATTCAAGAATCGATTA
12645608 ACAAGGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 4 0.14
34 24 0.83
35 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (33 bp):
GTTTGGGTTAGAAATCGATTCAAGAATCGATTA
Found at i:12645821 original size:6 final size:6
Alignment explanation
Indices: 12645806--12645953 Score: 128
Period size: 6 Copynumber: 24.7 Consensus size: 6
12645796 ATTTTGGGTT
* * *
12645806 ATTTCA ATTTCG ATTTCA ATTTTG ATTTCG ATTAT-G ATTAT-G ATTTCG
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATT-TCG ATT-TCG ATTTCG
* *
12645854 ATTTCG ATTTCG ATTTTG ATTTCG ATTTTG ATTTCG A-TTCTG A-TTCTG
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTC-G ATTTC-G
* * *
12645902 A-TTCTG A-TTCTG ATTTAG ATTTAG ATTTTG ATTTCG ATTTCG ATTTCG
1 ATTTC-G ATTTC-G ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
12645950 ATTT
1 ATTT
12645954 TAATTTAGGG
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.03
6 119 0.94
7 3 0.02
ACGTcount: A:0.21, C:0.11, G:0.15, T:0.53
Consensus pattern (6 bp):
ATTTCG
Found at i:12645833 original size:18 final size:18
Alignment explanation
Indices: 12645812--12645959 Score: 142
Period size: 18 Copynumber: 8.2 Consensus size: 18
12645802 GGTTATTTCA
*
12645812 ATTTCGATTTCAATTTTG
1 ATTTCGATTTCGATTTTG
*
12645830 ATTTCGATTAT-GATTATG
1 ATTTCGATT-TCGATTTTG
*
12645848 ATTTCGATTTCGATTTCG
1 ATTTCGATTTCGATTTTG
*
12645866 ATTTTGATTTCGATTTTG
1 ATTTCGATTTCGATTTTG
*
12645884 ATTTCGA-TTCTGATTCTG
1 ATTTCGATTTC-GATTTTG
*
12645902 A-TTCTGA-TTCTGATTTAG
1 ATTTC-GATTTC-GATTTTG
* * *
12645920 ATTTAGATTTTGATTTCG
1 ATTTCGATTTCGATTTTG
*
12645938 ATTTCGATTTCGATTTTA
1 ATTTCGATTTCGATTTTG
12645956 ATTT
1 ATTT
12645960 AGGGTTATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.07
18 95 0.89
19 5 0.05
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (18 bp):
ATTTCGATTTCGATTTTG
Found at i:12646329 original size:62 final size:61
Alignment explanation
Indices: 12646232--12646368 Score: 238
Period size: 62 Copynumber: 2.2 Consensus size: 61
12646222 GTTAAAATAT
*
12646232 TTGGTTATTGCCTGCCACATGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTTGTA
1 TTGGTTATTGTCTGCCACATGCATGACAAAAATGGTTGTGTTTGTATTAAATTA-TTTTGTA
**
12646294 TTGGTTATTGTCTGCCATGTGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTGTA
1 TTGGTTATTGTCTGCCACATGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTGTA
12646355 TTGGTTATTGTCTG
1 TTGGTTATTGTCTG
12646369 ATAAAAATGG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
61 21 0.29
62 51 0.71
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.46
Consensus pattern (61 bp):
TTGGTTATTGTCTGCCACATGCATGACAAAAATGGTTGTGTTTGTATTAAATTATTTTGTA
Found at i:12648262 original size:25 final size:25
Alignment explanation
Indices: 12648204--12648285 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 25
12648194 TTGGTGTGTA
* **
12648204 TGACTATTTTTTAATATACATGTTG
1 TGACTATTTTTTAATATGCATGCAG
12648229 TTGACTATTTTTTAATATGCATGCAG
1 -TGACTATTTTTTAATATGCATGCAG
*
12648255 TGAGTATTTTTTAATAATATGCATGCAG
1 TGACTA-TTTTT--TAATATGCATGCAG
12648283 TGA
1 TGA
12648286 TTGTTGGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.10
26 27 0.55
28 17 0.35
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (25 bp):
TGACTATTTTTTAATATGCATGCAG
Found at i:12648327 original size:95 final size:95
Alignment explanation
Indices: 12648174--12648352 Score: 331
Period size: 95 Copynumber: 1.9 Consensus size: 95
12648164 GAATGTTTTT
**
12648174 TAATATGCATGCAATGATTGTTGGTGTGTATGACTATTTTTTAATATACATGTTGTTGACTATTT
1 TAATATGCATGCAATGATTGTTGGTGTGTATGACTATTTTTTAATATACATGCAGTTGACTATTT
12648239 TTTAATATGCATGCAGTGAGTATTTTTTAA
66 TTTAATATGCATGCAGTGAGTATTTTTTAA
*
12648269 TAATATGCATGCAGTGATTGTTGGTGTGTATGACTATTTTTTAATATACATGCAGTTGACTATTT
1 TAATATGCATGCAATGATTGTTGGTGTGTATGACTATTTTTTAATATACATGCAGTTGACTATTT
12648334 TTTAATATGCATGCAGTGA
66 TTTAATATGCATGCAGTGA
12648353 TTGTCGGTGT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (95 bp):
TAATATGCATGCAATGATTGTTGGTGTGTATGACTATTTTTTAATATACATGCAGTTGACTATTT
TTTAATATGCATGCAGTGAGTATTTTTTAA
Found at i:12648335 original size:26 final size:26
Alignment explanation
Indices: 12648299--12648350 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
12648289 TTGGTGTGTA
12648299 TGACTATTTTTTAATATACATGCAGT
1 TGACTATTTTTTAATATACATGCAGT
*
12648325 TGACTATTTTTTAATATGCATGCAGT
1 TGACTATTTTTTAATATACATGCAGT
12648351 GATTGTCGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (26 bp):
TGACTATTTTTTAATATACATGCAGT
Found at i:12648366 original size:67 final size:67
Alignment explanation
Indices: 12648230--12648419 Score: 265
Period size: 67 Copynumber: 2.8 Consensus size: 67
12648220 TACATGTTGT
* * *
12648230 TGACTATTTTTTAATATGCATGCAG-TGAGTATTTTTTAATAATATGCATGCAGTGATTGTTGGT
1 TGACTATTTTTTAATATACATGCAGTTGACTA-TTTTT--TAATATGCATGCAGTGATTGTCGGT
12648294 GTGTA
63 GTGTA
12648299 TGACTATTTTTTAATATACATGCAGTTGACTATTTTTTAATATGCATGCAGTGATTGTCGGTGTG
1 TGACTATTTTTTAATATACATGCAGTTGACTATTTTTTAATATGCATGCAGTGATTGTCGGTGTG
12648364 TA
66 TA
* * * ** *
12648366 TGATTGTTTTTTAATATACATACTTTTGACTATTTTTTAATATGAATGCAGTGA
1 TGACTATTTTTTAATATACATGCAGTTGACTATTTTTTAATATGCATGCAGTGA
12648420 GTATTTTTTA
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
67 77 0.69
69 29 0.26
70 5 0.05
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.46
Consensus pattern (67 bp):
TGACTATTTTTTAATATACATGCAGTTGACTATTTTTTAATATGCATGCAGTGATTGTCGGTGTG
TA
Found at i:12649181 original size:18 final size:18
Alignment explanation
Indices: 12649125--12649184 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
12649115 CCCAAATTAG
*
12649125 CAACAGGCTACCCCAAAT
1 CAACAGGCTACCCCAACT
* * *
12649143 CAGCAAGAGAGTACCCTAACT
1 CAAC-AG-G-CTACCCCAACT
12649164 CAACAGGCTACCCCAACT
1 CAACAGGCTACCCCAACT
12649182 CAA
1 CAA
12649185 TTACAAACTG
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 15 0.47
19 3 0.09
20 3 0.09
21 11 0.34
ACGTcount: A:0.38, C:0.37, G:0.13, T:0.12
Consensus pattern (18 bp):
CAACAGGCTACCCCAACT
Found at i:12649200 original size:21 final size:22
Alignment explanation
Indices: 12649174--12649225 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
12649164 CAACAGGCTA
*
12649174 CCCCAACTCAAT-TACAAACTG
1 CCCCAACTCAATCAACAAACTG
*
12649195 CCCCAACTC-ATCAACAAGCTG
1 CCCCAACTCAATCAACAAACTG
12649216 CCCCAACTCA
1 CCCCAACTCA
12649226 CCAAAAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.35, C:0.44, G:0.06, T:0.15
Consensus pattern (22 bp):
CCCCAACTCAATCAACAAACTG
Found at i:12649245 original size:24 final size:22
Alignment explanation
Indices: 12649191--12649245 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
12649181 TCAATTACAA
* *
12649191 ACTGCCCCAACTCATCAACAAG
1 ACTGCCCCAACTCACCAAAAAG
12649213 -CTGCCCCAACTCACCAAAAAG
1 ACTGCCCCAACTCACCAAAAAG
12649234 ATACTGCCCCAA
1 --ACTGCCCCAA
12649246 GAGAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 19 0.68
24 9 0.32
ACGTcount: A:0.36, C:0.42, G:0.09, T:0.13
Consensus pattern (22 bp):
ACTGCCCCAACTCACCAAAAAG
Found at i:12649668 original size:23 final size:24
Alignment explanation
Indices: 12649637--12649682 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
12649627 TTCTAACATA
*
12649637 TGAGTATTGA-AAAAACAAATGTG
1 TGAGAATTGAGAAAAACAAATGTG
*
12649660 TGAGAATTGAGAAATACAAATGT
1 TGAGAATTGAGAAAAACAAATGT
12649683 TTCTTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (24 bp):
TGAGAATTGAGAAAAACAAATGTG
Found at i:12650802 original size:6 final size:6
Alignment explanation
Indices: 12650791--12650821 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
12650781 TGCTTCGTTT
12650791 CCACCG CCACCG CCACCG CCACCG CCACCG C
1 CCACCG CCACCG CCACCG CCACCG CCACCG C
12650822 TGAGAACCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.68, G:0.16, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:12656904 original size:31 final size:31
Alignment explanation
Indices: 12656854--12656914 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
12656844 GAGTTATATA
*
12656854 ACTCACTTAACTATTCGAAATATTTCATTTT
1 ACTCACTTAACTATCCGAAATATTTCATTTT
* * * *
12656885 ACTCACTTCATTATCCGAAATTTTTTATTT
1 ACTCACTTAACTATCCGAAATATTTCATTT
12656915 AAATTATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.48
Consensus pattern (31 bp):
ACTCACTTAACTATCCGAAATATTTCATTTT
Found at i:12657187 original size:39 final size:39
Alignment explanation
Indices: 12657133--12657212 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
12657123 AAATTAAACG
* *
12657133 GTAAAAGAGAATAGGAATGAAAGCTTTCGATTGGTGCAA
1 GTAAAAAAGAATAGGAATGAAAGCTTTCGATTGGTGAAA
*
12657172 GTAAAAAAGAATAGGAATGAGAGCTTTCGATTGGTGAAA
1 GTAAAAAAGAATAGGAATGAAAGCTTTCGATTGGTGAAA
12657211 GT
1 GT
12657213 GATGCGAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (39 bp):
GTAAAAAAGAATAGGAATGAAAGCTTTCGATTGGTGAAA
Found at i:12658681 original size:21 final size:19
Alignment explanation
Indices: 12658643--12658681 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
12658633 GAAAATTTAT
*
12658643 AAAAATATATTTTTTCTTA
1 AAAAATATATTATTTCTTA
12658662 AAAAATTATGATTATTTCTT
1 AAAAA-TAT-ATTATTTCTT
12658682 TTTATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
AAAAATATATTATTTCTTA
Found at i:12661321 original size:23 final size:23
Alignment explanation
Indices: 12661263--12661341 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
12661253 CGCGTGCTCG
* *
12661263 TGAATTTAGCACTCTGGTGTTCT
1 TGAATTTAGCACTTTGGTGTTCC
** * *
12661286 TGAAACTAACACTTTGGGGTTCC
1 TGAATTTAGCACTTTGGTGTTCC
*
12661309 TGAATTTAGCACTTTGGTGCTCC
1 TGAATTTAGCACTTTGGTGTTCC
12661332 T-AATTTAGCA
1 TGAATTTAGCA
12661342 TTTATGTGAT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 9 0.20
23 36 0.80
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (23 bp):
TGAATTTAGCACTTTGGTGTTCC
Found at i:12661354 original size:22 final size:22
Alignment explanation
Indices: 12661295--12661360 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
12661285 TTGAAACTAA
* *
12661295 CACTTTGGGGTTCCTGAATTTAG
1 CACTTTGGTGATCCT-AATTTAG
*
12661318 CACTTTGGTGCTCCTAATTTAG
1 CACTTTGGTGATCCTAATTTAG
*
12661340 CA-TTTATGTGATCCTATATTT
1 CACTTT-GGTGATCCTA-ATTT
12661361 GTGAATTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.08
22 17 0.46
23 17 0.46
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (22 bp):
CACTTTGGTGATCCTAATTTAG
Found at i:12665727 original size:9 final size:9
Alignment explanation
Indices: 12665713--12665749 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12665703 TATAGTTTGA
12665713 TATTCGAAT
1 TATTCGAAT
12665722 TATTCGAAT
1 TATTCGAAT
**
12665731 TATTCGAGC
1 TATTCGAAT
12665740 TATTCGAAT
1 TATTCGAAT
12665749 T
1 T
12665750 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12666438 original size:40 final size:40
Alignment explanation
Indices: 12666388--12666625 Score: 389
Period size: 40 Copynumber: 6.1 Consensus size: 40
12666378 GAATATATCT
12666388 TGGTTATATGAAT-AGATTATATGGAAATAGATATATGAAA
1 TGGTTATATGAATCA-ATTATATGGAAATAGATATATGAAA
12666428 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
1 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
12666468 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
1 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
*
12666508 TGGTTATATGAATCAATTATATGGAAATAGATATATGATA
1 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
*
12666548 TGGTTATATGAATCAATTATATGGAAATAGATATATGATA
1 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
* *
12666588 TGGTTATATG-GTC-A-GATA--GAAATAGATATATGAAA
1 TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
12666623 TGG
1 TGG
12666626 AATATTAGAT
Statistics
Matches: 193, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
35 19 0.10
37 3 0.02
38 1 0.01
39 2 0.01
40 167 0.87
41 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.19, T:0.35
Consensus pattern (40 bp):
TGGTTATATGAATCAATTATATGGAAATAGATATATGAAA
Found at i:12668856 original size:50 final size:50
Alignment explanation
Indices: 12668695--12668942 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
12668685 GATAATAACA
* ** * *
12668695 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCACGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * *
12668746 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
12668795 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
12668845 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
* *
12668900 ATGCCAATGCCATGTCCCAGACATGGTCTTGCATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12668943 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.21
50 60 0.36
51 29 0.17
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:12668882 original size:100 final size:103
Alignment explanation
Indices: 12668694--12668942 Score: 328
Period size: 100 Copynumber: 2.4 Consensus size: 103
12668684 TGATAATAAC
** *
12668694 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCACGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
12668759 TCCCAGACATGGTCTTATAGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGACCTCTCAATCTTAAGG
* *
12668795 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
12668858 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACA-GGGACCTCTCA--ATCTTAAGG
* * *
12668900 ATGCCAATGCCATGTCCCAGACATGGTCTTGCATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12668943 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
98 1 0.01
99 38 0.29
100 46 0.35
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGACCTCTCAATCTTAAGG
Found at i:12669058 original size:13 final size:13
Alignment explanation
Indices: 12669037--12669068 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12669027 GCTTGGATCA
*
12669037 TCATCAAATAAAT
1 TCATAAAATAAAT
12669050 TCATAAAATAAAT
1 TCATAAAATAAAT
12669063 TCATAA
1 TCATAA
12669069 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:12669314 original size:30 final size:30
Alignment explanation
Indices: 12669280--12669337 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12669270 CCTCGACTCT
*
12669280 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
12669310 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
12669338 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:12675403 original size:218 final size:217
Alignment explanation
Indices: 12675000--12675403 Score: 531
Period size: 218 Copynumber: 1.9 Consensus size: 217
12674990 ATTTTTACTG
* *
12675000 GTTAGGATTCATGAATTTATATTCATTTATGTTGGTGTTACACAATTTTAAGTTTGCAAATACAA
1 GTTAGGATTCATGAATTTATATTCATCTATGTTGGTGTTACACAATTTGAAGTTTGCAAATACAA
* ** ** * * *
12675065 TAATATTTATTGACCTATCGTTTTCATCAATGTATTCTATTGGTCACAATTTAACTAATAGAACA
66 TAATATTCATCAACCTATCGTTTGAATCAATGTATTCTATCGGTCAAAATTTAACGAATAGAACA
** * * * * * * **
12675130 ATTGCATTATAATTTTTATCTTTTGAACTGTTCTTATAGCGTAATTATGTTAAGTACGTCGACGA
131 ACAGCATTACAAGTTTTATCTTTTGAACTATTCTAATACCATAATTACATTAAGTACGTCGACGA
12675195 TAACGTTTTGCATAATGCAACT
196 TAACGTTTTGCATAATGCAACT
*
12675217 GTTAGGATTCATGAATTTATATTCATCTATGTTGGTGTTACACAATTTGAAGTTTTGCAAATACT
1 GTTAGGATTCATGAATTTATATTCATCTATGTTGGTGTTACACAATTTGAAG-TTTGCAAATACA
*
12675282 ATAATATTCATCAACCTATCGTTTGAATCAATGTATTCTATCGGTCAAAATTTAACGAATAGAAT
65 ATAATATTCATCAACCTATCGTTTGAATCAATGTATTCTATCGGTCAAAATTTAACGAATAGAAC
* * * * * *
12675347 AGCAGCATTACGAGTTTTATCTCTTT-TATTATTGTAATTCCATAATTACATTAAGTA
130 AACAGCATTACAAGTTTTATCT-TTTGAACTATTCTAATACCATAATTACATTAAGTA
12675404 TTTTGGTGAT
Statistics
Matches: 157, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
217 50 0.32
218 104 0.66
219 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (217 bp):
GTTAGGATTCATGAATTTATATTCATCTATGTTGGTGTTACACAATTTGAAGTTTGCAAATACAA
TAATATTCATCAACCTATCGTTTGAATCAATGTATTCTATCGGTCAAAATTTAACGAATAGAACA
ACAGCATTACAAGTTTTATCTTTTGAACTATTCTAATACCATAATTACATTAAGTACGTCGACGA
TAACGTTTTGCATAATGCAACT
Found at i:12676019 original size:37 final size:37
Alignment explanation
Indices: 12675970--12676051 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
12675960 TCAACCCATA
*
12675970 AAGC-TCCTTACTTTCTTCCCGATT-CATTCAACGCTTC
1 AAGCTTCC-TACTTTCTTCCCGATTCCATT-AACACTTC
* *
12676007 AAGTTTCCTACTTTCTTCTCGATTCCATTAACACTTC
1 AAGCTTCCTACTTTCTTCCCGATTCCATTAACACTTC
12676044 AAGCTTCC
1 AAGCTTCC
12676052 AATTTTATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 32 0.82
38 7 0.18
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (37 bp):
AAGCTTCCTACTTTCTTCCCGATTCCATTAACACTTC
Found at i:12677143 original size:37 final size:37
Alignment explanation
Indices: 12677093--12677180 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
12677083 AATTGCACGC
12677093 CTTCCTTCAACCTTTCAAGCTCTTTACTTTCTTCACT
1 CTTCCTTCAACCTTTCAAGCTCTTTACTTTCTTCACT
*
12677130 CTTCCTTCAACCTTTCAAGCTCTTTACTTTCTTCCCT
1 CTTCCTTCAACCTTTCAAGCTCTTTACTTTCTTCACT
12677167 CTTCCTTCAACCTT
1 CTTCCTTCAACCTT
12677181 CCTCATCCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.15, C:0.38, G:0.02, T:0.45
Consensus pattern (37 bp):
CTTCCTTCAACCTTTCAAGCTCTTTACTTTCTTCACT
Found at i:12678264 original size:37 final size:37
Alignment explanation
Indices: 12678213--12678430 Score: 170
Period size: 37 Copynumber: 5.9 Consensus size: 37
12678203 ATCGTATGCC
*
12678213 TTCCTTCAACCCTTCAAGCTCCTTACGTTCTTCCCTA
1 TTCCTTCAACCCTTCAAGCTCCTTACTTTCTTCCCTA
* ** * * ***
12678250 TTCCTTCAATCCTTCAAATTCCATATTTTCTTCTAGA
1 TTCCTTCAACCCTTCAAGCTCCTTACTTTCTTCCCTA
* *** * *
12678287 TT-CTCACAACCCTTCAAGCTCCTTAAAATATTCCCTT
1 TTCCT-TCAACCCTTCAAGCTCCTTACTTTCTTCCCTA
* * *
12678324 TTCCTTCAAACCTTGAAGCTCCTTACTTTCTTCCCGA
1 TTCCTTCAACCCTTCAAGCTCCTTACTTTCTTCCCTA
* * * * * *
12678361 TTCATTCAACCCTTAAAGATCCCTATTTTCTTCCCTC
1 TTCCTTCAACCCTTCAAGCTCCTTACTTTCTTCCCTA
* *
12678398 TTGCTTCAACCCTTCAAACT-CTCTACTTTCTTC
1 TTCCTTCAACCCTTCAAGCTCCT-TACTTTCTTC
12678431 TATCTTCCTT
Statistics
Matches: 132, Mismatches: 46, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
36 3 0.02
37 127 0.96
38 2 0.02
ACGTcount: A:0.21, C:0.35, G:0.04, T:0.40
Consensus pattern (37 bp):
TTCCTTCAACCCTTCAAGCTCCTTACTTTCTTCCCTA
Found at i:12682182 original size:37 final size:37
Alignment explanation
Indices: 12682132--12682326 Score: 137
Period size: 37 Copynumber: 5.3 Consensus size: 37
12682122 ATCGTACACA
*
12682132 TTCCTTCAACCCTTCAAGATCCCTATATTCTTCCATT
1 TTCCTTCAACCCTTGAAGATCCCTATATTCTTCCATT
* * * **
12682169 TTCCTTCAACCCTTGAA-ACTCCCTATTTTTTTCTAGA
1 TTCCTTCAACCCTTGAAGA-TCCCTATATTCTTCCATT
* * * * * * * *
12682206 TTCCATCAACCCTTCAAGCTCCTTACAATATTCCCTT
1 TTCCTTCAACCCTTGAAGATCCCTATATTCTTCCATT
* * *
12682243 TTCCTTCAA-CCTTGAAGCTCTCTATTTTCTTCTCGA--
1 TTCCTTCAACCCTTGAAGATCCCTATATTCTTC-C-ATT
* * *
12682279 TTCATTCAACCCTTGAAGATCCCTATGTTCTTCCCTT
1 TTCCTTCAACCCTTGAAGATCCCTATATTCTTCCATT
* *
12682316 TTGCTCCAACC
1 TTCCTTCAACC
12682327 TGTCAAACAC
Statistics
Matches: 116, Mismatches: 35, Indels: 14
0.70 0.21 0.08
Matches are distributed among these distances:
36 26 0.22
37 90 0.78
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.40
Consensus pattern (37 bp):
TTCCTTCAACCCTTGAAGATCCCTATATTCTTCCATT
Found at i:12682313 original size:73 final size:73
Alignment explanation
Indices: 12682131--12682348 Score: 240
Period size: 73 Copynumber: 3.0 Consensus size: 73
12682121 AATCGTACAC
* *
12682131 ATTCCTTCAACCCTTCAAGATCCCTATATTCTTCCATTTTCCTTCAACCCTTGAAACTCCCTATT
1 ATTCATTCAACCCTTCAAGATCCCTATATTCTTCCCTTTTCCTTCAA-CCTTGAAACTCCCTATT
*
12682196 TTTTTCTAG
65 TTCTTCTAG
* * * * * * *
12682205 ATTCCA-TCAACCCTTCAAGCTCCTTACAATATTCCCTTTTCCTTCAACCTTGAAGCTCTCTATT
1 ATT-CATTCAACCCTTCAAGATCCCTATATTCTTCCCTTTTCCTTCAACCTTGAAACTCCCTATT
*
12682269 TTCTTCTCG
65 TTCTTCTAG
* * * * * * *
12682278 ATTCATTCAACCCTTGAAGATCCCTATGTTCTTCCCTTTTGCTCCAACCTGTCAAACACCCTACT
1 ATTCATTCAACCCTTCAAGATCCCTATATTCTTCCCTTTTCCTTCAACCT-TGAAACTCCCTATT
12682343 TTCTTC
65 TTCTTC
12682349 CCTCTTCCTT
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
72 2 0.02
73 60 0.52
74 53 0.46
75 1 0.01
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (73 bp):
ATTCATTCAACCCTTCAAGATCCCTATATTCTTCCCTTTTCCTTCAACCTTGAAACTCCCTATTT
TCTTCTAG
Found at i:12685000 original size:37 final size:36
Alignment explanation
Indices: 12684923--12685050 Score: 152
Period size: 37 Copynumber: 3.5 Consensus size: 36
12684913 TCCTTATTGA
* * *
12684923 TTCAACCTTTCAAACTCCTTAC-TTCTCCCCGATTCC
1 TTCAACCTTTCAAGCTTCTTACTTTCT-CCCAATTCC
* * *
12684959 TTCAACCTTTCAAGCTTCATACTTTCTCCATAATTCT
1 TTCAACCTTTCAAGCTTCTTACTTTCTCC-CAATTCC
12684996 TTCAACCTTTCAAGCTTCTTACTTTCTTCCCAATTCC
1 TTCAACCTTTCAAGCTTCTTACTTTC-TCCCAATTCC
12685033 TTCAACTCTTT-AAGCTTC
1 TTCAAC-CTTTCAAGCTTC
12685051 CTAGATTGTT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
36 21 0.27
37 51 0.65
38 7 0.09
ACGTcount: A:0.21, C:0.34, G:0.03, T:0.41
Consensus pattern (36 bp):
TTCAACCTTTCAAGCTTCTTACTTTCTCCCAATTCC
Found at i:12685074 original size:74 final size:74
Alignment explanation
Indices: 12684923--12685098 Score: 182
Period size: 74 Copynumber: 2.4 Consensus size: 74
12684913 TCCTTATTGA
* * * *
12684923 TTCAACCTTTCAAACTCCTTAC-TTCTCCCCGATTCCTTCAACCTTTCAAGCTTCATACTTTCTC
1 TTCAACCTTTCAAGCTCCTTACTTTCTTCCCAATTCCTTCAACCTTTCAAGCTTCATACATTCTC
*
12684987 CATAATTCT
66 CATAATTCC
* * * *
12684996 TTCAACCTTTCAAGCTTCTTACTTTCTTCCCAATTCCTTCAACTCTTT-AAGCTTCCTAGATTGT
1 TTCAACCTTTCAAGCTCCTTACTTTCTTCCCAATTCCTTCAAC-CTTTCAAGCTTCATACATTCT
* *
12685060 TC-TCGATTCC
65 CCAT-AATTCC
12685070 TTCAACTCTTT-AAGCTACCTTA-TTTCTTC
1 TTCAAC-CTTTCAAGCT-CCTTACTTTCTTC
12685099 ACTCTTCTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
73 21 0.24
74 53 0.62
75 12 0.14
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (74 bp):
TTCAACCTTTCAAGCTCCTTACTTTCTTCCCAATTCCTTCAACCTTTCAAGCTTCATACATTCTC
CATAATTCC
Found at i:12685112 original size:37 final size:37
Alignment explanation
Indices: 12684923--12685100 Score: 125
Period size: 37 Copynumber: 4.8 Consensus size: 37
12684913 TCCTTATTGA
* * * *
12684923 TTCAAC-CTTTCAAACTCCTTAC-TTCTCCCCGATTCC
1 TTCAACTCTTT-AAGCTCCTTACTTTCTTCACAATTCC
* * * * *
12684959 TTCAAC-CTTTCAAGCTTCATACTTTCTCCATAATTCT
1 TTCAACTCTTT-AAGCTCCTTACTTTCTTCACAATTCC
* *
12684996 TTCAAC-CTTTCAAGCTTCTTACTTTCTTCCCAATTCC
1 TTCAACTCTTT-AAGCTCCTTACTTTCTTCACAATTCC
** * * *
12685033 TTCAACTCTTTAAGCTTCC-TAGATTGTTCTCGATTCC
1 TTCAACTCTTTAAGC-TCCTTACTTTCTTCACAATTCC
12685070 TTCAACTCTTTAAGCTACCTTA-TTTCTTCAC
1 TTCAACTCTTTAAGCT-CCTTACTTTCTTCAC
12685101 TCTTCTTTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
36 20 0.17
37 88 0.76
38 8 0.07
ACGTcount: A:0.21, C:0.33, G:0.04, T:0.42
Consensus pattern (37 bp):
TTCAACTCTTTAAGCTCCTTACTTTCTTCACAATTCC
Found at i:12686208 original size:37 final size:37
Alignment explanation
Indices: 12686153--12686425 Score: 219
Period size: 37 Copynumber: 7.4 Consensus size: 37
12686143 AATTGAATTC
* * * *
12686153 CTTCCTTCAACCCCTCAAGCTCCCTACGTTCTGCCCT
1 CTTCCTTCAACCCTTCAAACTCCCTACTTTCTTCCCT
* * *
12686190 CTTCCTTCAACCCTTCAAGCTCCCTAATTTCTTCCCA
1 CTTCCTTCAACCCTTCAAACTCCCTACTTTCTTCCCT
* * * *
12686227 ATTCATTCAACCCTTGAAAATCCCTA-TATTCTTCCCT
1 CTTCCTTCAACCCTTCAAACTCCCTACT-TTCTTCCCT
* *
12686264 CTTGCTTCAACCCTTCAAACTCTCTACTTTCTTCCCT
1 CTTCCTTCAACCCTTCAAACTCCCTACTTTCTTCCCT
* * * *
12686301 CTTCCTTCAA-CCTACCAAGCTTCCTACTTTCTTCCCAA
1 CTTCCTTCAACCCT-TCAAACTCCCTACTTTCTTCCC-T
* ** * * * * *
12686339 C-TCCATCAACCCTTTGAGCTTCCTAGTTTATTCCCG
1 CTTCCTTCAACCCTTCAAACTCCCTACTTTCTTCCCT
* * * * *
12686375 ATTCCTTCAACTCTTCAATCTTCCTATTTTCTTCCCT
1 CTTCCTTCAACCCTTCAAACTCCCTACTTTCTTCCCT
*
12686412 TTTCCTTCAACCCT
1 CTTCCTTCAACCCT
12686426 CATCATCCCA
Statistics
Matches: 189, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
36 4 0.02
37 180 0.95
38 5 0.03
ACGTcount: A:0.18, C:0.40, G:0.04, T:0.38
Consensus pattern (37 bp):
CTTCCTTCAACCCTTCAAACTCCCTACTTTCTTCCCT
Found at i:12686373 original size:111 final size:110
Alignment explanation
Indices: 12686154--12686423 Score: 278
Period size: 111 Copynumber: 2.4 Consensus size: 110
12686144 ATTGAATTCC
* * * * * *
12686154 TTCCTTCAACCCCTCAAGCTCCCTACGTTCTGCCCTCTTCCTTCAACCCTTCAAGCTCCCTAATT
1 TTCCTTCAACCCTTCAAACTCTCTACTTTCTTCCCTCTTCCTTCAA-CCTCCAAGCTCCCTAATT
* * **
12686219 TCTTCCCAATTCATTCAACCCTTGAAAATCCCTATATTCTTCCCTC
65 TCTTCCCAATCCATTCAACCCTTGAAAATCCCTATATTATTCCCGA
* * *
12686265 TTGCTTCAACCCTTCAAACTCTCTACTTTCTTCCCTCTTCCTTCAACCTACCAAGCTTCCTACTT
1 TTCCTTCAACCCTTCAAACTCTCTACTTTCTTCCCTCTTCCTTCAACCT-CCAAGCTCCCTAATT
** *
12686330 TCTTCCCAACTCCA-TCAACCCTTTG-AGCTTCCTAGT-TTATTCCCGA
65 TCTTCCCAA-TCCATTCAACCC-TTGAAAATCCCTA-TATTATTCCCGA
* * * *
12686376 TTCCTTCAACTCTTCAATCT-TCCTATTTTCTTCCCTTTTCCTTCAACC
1 TTCCTTCAACCCTTCAAACTCT-CTACTTTCTTCCCTCTTCCTTCAACC
12686424 CTCATCATCC
Statistics
Matches: 133, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
110 4 0.03
111 122 0.92
112 7 0.05
ACGTcount: A:0.19, C:0.40, G:0.04, T:0.38
Consensus pattern (110 bp):
TTCCTTCAACCCTTCAAACTCTCTACTTTCTTCCCTCTTCCTTCAACCTCCAAGCTCCCTAATTT
CTTCCCAATCCATTCAACCCTTGAAAATCCCTATATTATTCCCGA
Found at i:12687370 original size:41 final size:38
Alignment explanation
Indices: 12687263--12687469 Score: 140
Period size: 37 Copynumber: 5.6 Consensus size: 38
12687253 ATTACACGCC
* ** *
12687263 TTCCTTCAACACTTCAAGCTCCCTAC-ATTTTTCCCTC
1 TTCCTTCAACACTTCAAGCTCCCTACAATCTTTCTTTT
* * * * ** **
12687300 TTCTTTTAACCCTTCAAGCACCCTACTTTCTTT-TTGA
1 TTCCTTCAACACTTCAAGCTCCCTACAATCTTTCTTTT
* * * *
12687337 GTCCTTCAACACTTCGAGCTCTCTATAATCTTTC-TTT
1 TTCCTTCAACACTTCAAGCTCCCTACAATCTTTCTTTT
* *
12687374 TTCCTTCAACCCTTCAAGCTCCCTACAATCTTTC--TG
1 TTCCTTCAACACTTCAAGCTCCCTACAATCTTTCTTTT
* * * *
12687410 TTCCTTTAAACCCTTTAAGCTCCCTACAATCTTTC-ATT
1 TTCC-TTCAACACTTCAAGCTCCCTACAATCTTTCTTTT
*
12687448 TTCCTTCAATC-CTTGAAGCTCC
1 TTCCTTCAA-CACTTCAAGCTCC
12687470 TTACTTTCTT
Statistics
Matches: 132, Mismatches: 33, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
36 5 0.04
37 117 0.89
38 10 0.08
ACGTcount: A:0.20, C:0.34, G:0.05, T:0.41
Consensus pattern (38 bp):
TTCCTTCAACACTTCAAGCTCCCTACAATCTTTCTTTT
Found at i:12687385 original size:74 final size:74
Alignment explanation
Indices: 12687270--12687479 Score: 208
Period size: 74 Copynumber: 2.8 Consensus size: 74
12687260 GCCTTCCTTC
* * * * * * *
12687270 AACACTTCAAGCTCCCTAC-ATTTTTCCCTCTTCTTTTAACCCTTCAAGCACCCTACTTTCTTTT
1 AACACTTCAAGCTCCCTACAATCTTT-CATTTTCCTTCAACCCTTCAAGCTCCCTACTTTCTTTC
*
12687334 TGAGTCC-TTC
65 TG-GTCCTTTA
* * * * **
12687344 AACACTTCGAGCTCTCTATAATCTTTCTTTTTCCTTCAACCCTTCAAGCTCCCTACAATCTTTCT
1 AACACTTCAAGCTCCCTACAATCTTTCATTTTCCTTCAACCCTTCAAGCTCCCTACTTTCTTTCT
*
12687409 GTTCCTTTA
66 GGTCCTTTA
* * * * *
12687418 AACCCTTTAAGCTCCCTACAATCTTTCATTTTCCTTCAATCCTTGAAGCTCCTTACTTTCTT
1 AACACTTCAAGCTCCCTACAATCTTTCATTTTCCTTCAACCCTTCAAGCTCCCTACTTTCTT
12687480 CCCAATTCAT
Statistics
Matches: 109, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
73 3 0.03
74 101 0.93
75 5 0.05
ACGTcount: A:0.20, C:0.33, G:0.05, T:0.41
Consensus pattern (74 bp):
AACACTTCAAGCTCCCTACAATCTTTCATTTTCCTTCAACCCTTCAAGCTCCCTACTTTCTTTCT
GGTCCTTTA
Found at i:12687530 original size:37 final size:37
Alignment explanation
Indices: 12687475--12687647 Score: 127
Period size: 37 Copynumber: 4.7 Consensus size: 37
12687465 GCTCCTTACT
** * *
12687475 TTCTTCCCAATTCATTCAACCCTT-AAAGATTCCTATG
1 TTCTTCCCTCTTCCTTCAACCCTTCAAA-ATCCCTATG
* * *
12687512 TTCTTCCCTCTTGCTTCAACCCTTCAAACTCCCTATT
1 TTCTTCCCTCTTCCTTCAACCCTTCAAAATCCCTATG
* * ** *
12687549 TTCTTCCCTCTTCCTTTAACCCTTCGATCTTCCTA-G
1 TTCTTCCCTCTTCCTTCAACCCTTCAAAATCCCTATG
* ** * **
12687585 TTTATTCCCGATTCCTTTAACCCTTCAAGCTCCCTACT-
1 -TTCTTCCCTCTTCCTTCAACCCTTCAAAATCCCTA-TG
*
12687623 TTCTTACCTCTTCCTTCAACCCTTC
1 TTCTTCCCTCTTCCTTCAACCCTTC
12687648 TCATCCCATT
Statistics
Matches: 108, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
37 105 0.97
38 3 0.03
ACGTcount: A:0.17, C:0.38, G:0.04, T:0.41
Consensus pattern (37 bp):
TTCTTCCCTCTTCCTTCAACCCTTCAAAATCCCTATG
Found at i:12687563 original size:111 final size:111
Alignment explanation
Indices: 12687448--12687647 Score: 235
Period size: 111 Copynumber: 1.8 Consensus size: 111
12687438 ATCTTTCATT
* * *
12687448 TTCCTTCAATCCTT-GAAGC-TCCTTACTTTCTTCCCAATTCATTCAACCCTTAAAGATTCCTA-
1 TTCCTTCAACCCTTCG-AGCTTCC-TACTTTATTCCCAATTCATTCAACCCTTAAAGATCCCTAC
* *
12687510 TGTTCTTCCCTCTTGCTTCAACCCTTCAAACTCCCTATTTTCTTCCCTC
64 T-TTCTTACCTCTTCCTTCAACCCTTCAAACTCCCTATTTTCTTCCCTC
* * * * * * * *
12687559 TTCCTTTAACCCTTCGATCTTCCTAGTTTATTCCCGATTCCTTTAACCCTTCAAGCTCCCTACTT
1 TTCCTTCAACCCTTCGAGCTTCCTACTTTATTCCCAATTCATTCAACCCTTAAAGATCCCTACTT
12687624 TCTTACCTCTTCCTTCAACCCTTC
66 TCTTACCTCTTCCTTCAACCCTTC
12687648 TCATCCCATT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
111 68 0.93
112 5 0.07
ACGTcount: A:0.17, C:0.37, G:0.04, T:0.41
Consensus pattern (111 bp):
TTCCTTCAACCCTTCGAGCTTCCTACTTTATTCCCAATTCATTCAACCCTTAAAGATCCCTACTT
TCTTACCTCTTCCTTCAACCCTTCAAACTCCCTATTTTCTTCCCTC
Found at i:12687570 original size:74 final size:74
Alignment explanation
Indices: 12687448--12687646 Score: 211
Period size: 74 Copynumber: 2.7 Consensus size: 74
12687438 ATCTTTCATT
* * * ** *
12687448 TTCCTTCAATCCTTGAAGCTCCTTACTTTCTTCCCAATTCATTCAACCCTTAAAGATTCCTA-TG
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCCTCTTCCTTCAACCCTTAAAGATTCCTAGT-
* **
12687512 TTCTTCCCTC
65 TTATTCCCGA
* * * * ** **
12687522 TTGCTTCAACCCTTCAAACTCCCTATTTTCTTCCCTCTTCCTTTAACCCTTCGATCTTCCTAGTT
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCCTCTTCCTTCAACCCTTAAAGATTCCTAGTT
12687587 TATTCCCGA
66 TATTCCCGA
* *
12687596 TTCCTTTAACCCTTCAAGCTCCCTACTTTCTTACCTCTTCCTTCAACCCTT
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCCTCTTCCTTCAACCCTT
12687647 CTCATCCCAT
Statistics
Matches: 101, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
74 100 0.99
75 1 0.01
ACGTcount: A:0.18, C:0.37, G:0.05, T:0.41
Consensus pattern (74 bp):
TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCCTCTTCCTTCAACCCTTAAAGATTCCTAGTT
TATTCCCGA
Found at i:12694356 original size:19 final size:19
Alignment explanation
Indices: 12694332--12694380 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
12694322 TGAGAGTTTC
* *
12694332 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCAG
*
12694351 TTTTATTAGTTCCTCTTCAG
1 TTTTA-TATTTCCTCTTCAG
*
12694371 TTTAATATTT
1 TTTTATATTT
12694381 TGAAGCTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.16, C:0.14, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCAG
Found at i:12696348 original size:8 final size:8
Alignment explanation
Indices: 12696337--12696364 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12696327 TTTAATTTTT
12696337 ATATTTAA
1 ATATTTAA
12696345 ATATTTAA
1 ATATTTAA
12696353 ATATTTAA
1 ATATTTAA
12696361 ATAT
1 ATAT
12696365 AGTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:12697212 original size:27 final size:27
Alignment explanation
Indices: 12697162--12697214 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12697152 TGACGATATT
12697162 ATAATATTTTTTTAATTAATTTAAATG
1 ATAATATTTTTTTAATTAATTTAAATG
12697189 ATAAT-TTTATTTGTAATTAA-TTAAAT
1 ATAATATTT-TTT-TAATTAATTTAAAT
12697215 TAATAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 14 0.58
28 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (27 bp):
ATAATATTTTTTTAATTAATTTAAATG
Found at i:12697220 original size:28 final size:27
Alignment explanation
Indices: 12697162--12697220 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
12697152 TGACGATATT
*
12697162 ATAATATTTTTTTAATTAATTTAAATG
1 ATAATATTTTTTTAATTAATTTAAATA
12697189 ATAAT-TTTATTTGTAATTAA-TTAAATTA
1 ATAATATTT-TTT-TAATTAATTTAAA-TA
12697217 ATAA
1 ATAA
12697221 GAGCTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.11
27 13 0.46
28 12 0.43
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
ATAATATTTTTTTAATTAATTTAAATA
Found at i:12697796 original size:3 final size:3
Alignment explanation
Indices: 12697783--12697818 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
12697773 ATTTTGCAAG
12697783 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12697819 GAAGTTTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12698786 original size:203 final size:203
Alignment explanation
Indices: 12698489--12698865 Score: 621
Period size: 203 Copynumber: 1.9 Consensus size: 203
12698479 TGAATGTAAT
** *
12698489 TTTTTAAAAAGGTGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTT
1 TTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTATATAAATTGTTAGTGTT
* *
12698554 TAGTTTAGGGTTTTATGATTTTTTAGTAATGT-AATTTTAAAATAAAATAATTTTATTGTTATTT
66 TAGTTTAGGGTTTTATGATTTTTTAGTAATGTAAATTTTAAAA-AAAATAACTTTATAGTTATTT
*
12698618 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTATTGTATAGTGTTTTCTGATTTATTAGTAA
130 TGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTATAGTGTTTTCTGATTTATTAGTAA
12698683 TGTAAATTC
195 TGTAAATTC
* * *
12698692 TTTTTAAAAAAATGTTATAGTTATTTTGTTGGTAATTTATGTTTGGTATATAAATTGTTAGTGTT
1 TTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTATATAAATTGTTAGTGTT
* **
12698757 TAGTTTAGGGTTTTGTGATTTTTTAGTAATGTAAATTTTTTAAAAAATAACTTTATAGTTATTTT
66 TAGTTTAGGGTTTTATGATTTTTTAGTAATGTAAATTTTAAAAAAAATAACTTTATAGTTATTTT
*
12698822 GTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGT
131 GTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTATAGT
12698866 TTAGTGTTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
203 152 0.95
204 8 0.05
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (203 bp):
TTTTTAAAAAAATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTATATAAATTGTTAGTGTT
TAGTTTAGGGTTTTATGATTTTTTAGTAATGTAAATTTTAAAAAAAATAACTTTATAGTTATTTT
GTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTATAGTGTTTTCTGATTTATTAGTAAT
GTAAATTC
Found at i:12698884 original size:105 final size:103
Alignment explanation
Indices: 12698473--12698902 Score: 553
Period size: 103 Copynumber: 4.2 Consensus size: 103
12698463 GGTTTAATAA
* *
12698473 TTTTTA-TGAATGTAATTTTTTAAAAAGGT--GTTATAGTTATTTTGTTAGTAATTTATGATTA-
1 TTTTTAGT-AATGTAATTTTTTAAAAA-ATAATTTATAGTTATTTTGTTAGTAATTTATGATTAG
*
12698534 GTT-TATAAATTGTTAGTGTTTAGTTTAGGGTTTTATGAT
64 GTTATATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
** *
12698573 TTTTTAGTAATGTAATTTTAAAATAAAATAATTTTATTGTTATTTTGTTAGTAATTTATGATTAG
1 TTTTTAGTAATGTAATTTTTTAA-AAAATAA-TTTATAGTTATTTTGTTAGTAATTTATGATTAG
* * *
12698638 GTTATATAAATTGTTA----TT-GTATAGTGTTTTCTGAT
64 GTTATATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
* * * *
12698673 TTATTAGTAATGTAAATTCTTTTTAAAAA-AATGTTATAGTTATTTTGTTGGTAATTTATG-TTT
1 TTTTTAGTAATGT-AATT-TTTTAAAAAATAAT-TTATAGTTATTTTGTTAGTAATTTATGATTA
12698736 GG-TATATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
63 GGTTATATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
12698776 TTTTTAGTAATGTAAATTTTTTAAAAAATAACTTTATAGTTATTTTGTTAGTAATTTATGATTAG
1 TTTTTAGTAATGT-AATTTTTTAAAAAATAA-TTTATAGTTATTTTGTTAGTAATTTATGATTAG
*
12698841 GTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
64 GTTATATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
*
12698881 TTTTTATTAATGTAATTTTTTA
1 TTTTTAGTAATGTAATTTTTTA
12698903 TAATGTAATT
Statistics
Matches: 287, Mismatches: 24, Indels: 34
0.83 0.07 0.10
Matches are distributed among these distances:
98 14 0.05
99 5 0.02
100 73 0.25
101 14 0.05
102 14 0.05
103 89 0.31
104 17 0.06
105 61 0.21
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.54
Consensus pattern (103 bp):
TTTTTAGTAATGTAATTTTTTAAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGT
TATATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
Found at i:12698906 original size:15 final size:16
Alignment explanation
Indices: 12698879--12698914 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
12698869 GTGTTTTGTG
12698879 ATTTTTTATTAATGTA
1 ATTTTTTATTAATGTA
12698895 ATTTTTTA-TAATGTA
1 ATTTTTTATTAATGTA
12698910 ATTTT
1 ATTTT
12698915 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:12701067 original size:33 final size:32
Alignment explanation
Indices: 12700951--12701067 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 32
12700941 TCCACTTCAA
* * * * *
12700951 TACTCCATTCTTTCTGGCCCATACCCACCGCCG
1 TACTCCACTC-TTCCGGCCCGTATCCACAGCCG
* *
12700984 TACTCCACTCTTCCTAGCCCGTATCCACAGTCG
1 TACTCCACTCTTCC-GGCCCGTATCCACAGCCG
* * * *
12701017 TACTCTACTCTTCCCGGCCGGTATCTACTGCCG
1 TACTCCACTCTT-CCGGCCCGTATCCACAGCCG
12701050 TACTCCACTACTTCCGGC
1 TACTCCACT-CTTCCGGC
12701068 TCAAATTCAT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
32 3 0.04
33 59 0.88
34 5 0.07
ACGTcount: A:0.15, C:0.43, G:0.14, T:0.28
Consensus pattern (32 bp):
TACTCCACTCTTCCGGCCCGTATCCACAGCCG
Found at i:12701328 original size:76 final size:76
Alignment explanation
Indices: 12701212--12701442 Score: 299
Period size: 77 Copynumber: 3.1 Consensus size: 76
12701202 AATAACTTCA
* *
12701212 TATTTATATAATGAC-TTTTTTCCATTTAAGTTATTAATTTTATGGGTTTTTTTGTAATTTAAAT
1 TATTTATGTAATGACTTTTTTTCCATTTAAGTTATTAATTTTATGGGTTTTTTTGCAATTTAAAT
12701276 AGTCAACTTTG
66 AGTCAACTTTG
* * *
12701287 TATTTATGTAATGACTTTTTTTCCATTTTAGTTATTAATTTTATGGGCTTTGTTCGCAATTTAAA
1 TATTTATGTAATGACTTTTTTTCCATTTAAGTTATTAATTTTATGGG-TTTTTTTGCAATTTAAA
12701352 TAGTCAACTTTG
65 TAGTCAACTTTG
* * * *
12701364 TATTTATGTAATGAATTTTTTGT-TATTTCAGTTATTAATTTTA-GGAG-TTTTTTACAATTTAA
1 TATTTATGTAATGACTTTTTT-TCCATTTAAGTTATTAATTTTATGG-GTTTTTTTGCAATTTAA
* * *
12701426 ATAATAAACTTTA
64 ATAGTCAACTTTG
12701439 TATT
1 TATT
12701443 ATTTAGGTAA
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
75 40 0.29
76 32 0.23
77 65 0.47
78 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.54
Consensus pattern (76 bp):
TATTTATGTAATGACTTTTTTTCCATTTAAGTTATTAATTTTATGGGTTTTTTTGCAATTTAAAT
AGTCAACTTTG
Found at i:12705123 original size:21 final size:19
Alignment explanation
Indices: 12705074--12705148 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
12705064 AATTTTTGAG
12705074 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12705093 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
12705112 GATATGTGCAATCTTGGATAT
1 GATA--TGCAATCTTAGATAT
12705133 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
12705149 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12705123 original size:40 final size:38
Alignment explanation
Indices: 12705078--12705155 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 38
12705068 TTTGAGGATA
12705078 TGCAATCTTAGATATGATATGCAATCTTAGATATGATATG
1 TGCAATCTTAGATATGATATGCAATCTTAGA-A-GATATG
*
12705118 TGCAATCTTGGATATGATATGCAATCTTAGAAGATATG
1 TGCAATCTTAGATATGATATGCAATCTTAGAAGATATG
12705156 ATTTTGTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 30 0.81
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (38 bp):
TGCAATCTTAGATATGATATGCAATCTTAGAAGATATG
Found at i:12706107 original size:4 final size:4
Alignment explanation
Indices: 12706087--12706135 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
12706077 GCTTTGCATG
* *
12706087 TTAT TGAT TTA- TT-T TTAT TTAT TTAT TTAT TTAT TTGT TTAT ATTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT
12706134 TT
1 TT
12706136 CTATGCCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 4 0.11
4 30 0.79
5 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:12706131 original size:22 final size:21
Alignment explanation
Indices: 12706087--12706135 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
12706077 GCTTTGCATG
* *
12706087 TTATTGATTTATTTTTATTTA
1 TTATTTATTTATTTTTATATA
12706108 TTTATTTATTTATTTGTT-TATA
1 -TTATTTATTTATTT-TTATATA
12706130 TTATTT
1 TTATTT
12706136 CTATGCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 16 0.67
23 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TTATTTATTTATTTTTATATA
Found at i:12706183 original size:19 final size:20
Alignment explanation
Indices: 12706142--12706183 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
12706132 ATTTCTATGC
* *
12706142 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
12706162 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
12706181 CAT
1 CAT
12706184 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:12707182 original size:32 final size:32
Alignment explanation
Indices: 12707146--12707212 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
12707136 TTCAATCTAA
**
12707146 TTAGACTA-TTATCTAAATGTTTTCAGAAAAGT
1 TTAGAC-AGTTATCTAAATACTTTCAGAAAAGT
*
12707178 TTAGACAGTTATCTAAATACTTTCATAAAAGT
1 TTAGACAGTTATCTAAATACTTTCAGAAAAGT
12707210 TTA
1 TTA
12707213 TATTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (32 bp):
TTAGACAGTTATCTAAATACTTTCAGAAAAGT
Found at i:12710926 original size:31 final size:30
Alignment explanation
Indices: 12710891--12710977 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
12710881 TGTATGATTA
12710891 AATCAAAATTAAAGTTTCAAGTATACATTTG
1 AATCAAAATTAAAGTTTCAAGTATACA-TTG
* *
12710922 AATCACAATTAGAGTTTCACATGTATA-ATTG
1 AATCAAAATTAAAGTTTCA-A-GTATACATTG
* * *
12710953 TA-CCAAATTAAAG-TTCATGTATACA
1 AATCAAAATTAAAGTTTCAAGTATACA
12710978 CTTGCATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.11
28 1 0.02
29 4 0.09
30 8 0.17
31 21 0.46
32 2 0.04
33 5 0.11
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (30 bp):
AATCAAAATTAAAGTTTCAAGTATACATTG
Found at i:12710972 original size:27 final size:28
Alignment explanation
Indices: 12710941--12711009 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
12710931 TAGAGTTTCA
12710941 CATGTATAATTG-TACCAAATTAAAGTT
1 CATGTATAATTGATACCAAATTAAAGTT
** *
12710968 CATGTATACACTTGCATATTAAATTGAAGTT
1 CATGTATA-A-TTG-ATACCAAATTAAAGTT
12710999 CATGTATAATT
1 CATGTATAATT
12711010 TTGATATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 8 0.23
28 1 0.03
29 5 0.14
30 1 0.03
31 20 0.57
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (28 bp):
CATGTATAATTGATACCAAATTAAAGTT
Found at i:12716289 original size:34 final size:34
Alignment explanation
Indices: 12716251--12716320 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
12716241 AAGTTAGCTC
12716251 ATGGCTGGGCTACACAAATTCAAGTTGTTTTCAT
1 ATGGCTGGGCTACACAAATTCAAGTTGTTTTCAT
12716285 ATGGCTGGGCTACACAAATTCAAGTTGTTTTCAT
1 ATGGCTGGGCTACACAAATTCAAGTTGTTTTCAT
12716319 AT
1 AT
12716321 CACCAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (34 bp):
ATGGCTGGGCTACACAAATTCAAGTTGTTTTCAT
Found at i:12723160 original size:15 final size:16
Alignment explanation
Indices: 12723131--12723160 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12723121 CAAACATGCT
12723131 TTAACACATTATCAAA
1 TTAACACATTATCAAA
12723147 TTAACACA-TATCAA
1 TTAACACATTATCAA
12723161 CCAGACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:12724317 original size:25 final size:24
Alignment explanation
Indices: 12724280--12724435 Score: 144
Period size: 25 Copynumber: 6.4 Consensus size: 24
12724270 ATGAGCTATG
* *
12724280 AATCGATATGCTC-TCACGAGCTGTA
1 AATCGGTAAGCTCATCA-GAGCTG-A
*
12724305 AATCGGTAAGCTCAT-ATGAGTTGA
1 AATCGGTAAGCTCATCA-GAGCTGA
12724329 GAATCGGTAAGCTC-TCAAGAGCTGA
1 -AATCGGTAAGCTCATC-AGAGCTGA
12724354 AATCGGTAAGCTCATTCA-AGCTGA
1 AATCGGTAAGCTCA-TCAGAGCTGA
12724378 AATCGGTAAGCTCATTCA-AGCTGA
1 AATCGGTAAGCTCA-TCAGAGCTGA
*
12724402 GAATTGGTAAGCTC-TCACGAGCTGA
1 -AATCGGTAAGCTCATCA-GAGCTGA
*
12724427 AATCAGTAA
1 AATCGGTAA
12724436 TCCCTAATGA
Statistics
Matches: 114, Mismatches: 8, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
23 3 0.03
24 52 0.46
25 55 0.48
26 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (24 bp):
AATCGGTAAGCTCATCAGAGCTGA
Found at i:12724343 original size:50 final size:49
Alignment explanation
Indices: 12724264--12724415 Score: 161
Period size: 50 Copynumber: 3.1 Consensus size: 49
12724254 GTACATGTAT
* * *
12724264 GCTCATATGAGCT-ATGAATCGATATGCTCTCACGAGCTGTAAATCGGTAA
1 GCTCATATGAGCTGA-GAATCGGTAAGCTCTCAAGAGCTG-AAATCGGTAA
*
12724314 GCTCATATGAGTTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCGGTAA
1 GCTCATATGAGCTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCGGTAA
* *
12724363 GCTCAT-TCAAGCTGA-AATCGGTAAGCTCATTC-A-AGCTGAGAATTGGTAA
1 GCTCATAT-GAGCTGAGAATCGGTAAGCTC--TCAAGAGCTGA-AATCGGTAA
12724412 GCTC
1 GCTC
12724416 TCACGAGCTG
Statistics
Matches: 90, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
48 20 0.22
49 34 0.38
50 35 0.39
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (49 bp):
GCTCATATGAGCTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCGGTAA
Found at i:12724403 original size:73 final size:74
Alignment explanation
Indices: 12724298--12724435 Score: 208
Period size: 73 Copynumber: 1.9 Consensus size: 74
12724288 TGCTCTCACG
* * *
12724298 AGCTGTAAATCGGTAAGCTCATATGAGTTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCGGTAA
1 AGCTGTAAATCGGTAAGCTCATATAAGCTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCAGTAA
12724363 GCTCATTCA
66 GCTCATTCA
* *
12724372 AGCTG-AAATCGGTAAGCTCAT-TCAAGCTGAGAATTGGTAAGCTCTCACGAGCTGAAATCAGTA
1 AGCTGTAAATCGGTAAGCTCATAT-AAGCTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCAGTA
12724435 A
65 A
12724436 TCCCTAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
72 1 0.02
73 52 0.90
74 5 0.09
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (74 bp):
AGCTGTAAATCGGTAAGCTCATATAAGCTGAGAATCGGTAAGCTCTCAAGAGCTGAAATCAGTAA
GCTCATTCA
Found at i:12724430 original size:49 final size:47
Alignment explanation
Indices: 12724280--12724435 Score: 140
Period size: 49 Copynumber: 3.2 Consensus size: 47
12724270 ATGAGCTATG
* * * *
12724280 AATCGATATGCTCTCACGAGCTGTAAATCGGTAAGCTCAT-ATGAGTTGA
1 AATCGGTAAGCTCTCAAGAGCTG-AAATCGGTAAGCTCATCA--AGCTGA
12724329 GAATCGGTAAGCTCTCAAGAGCTGAAATCGGTAAGCTCATTCAAGCTGA
1 -AATCGGTAAGCTCTCAAGAGCTGAAATCGGTAAGCTCA-TCAAGCTGA
*
12724378 AATCGGTAAGCTCATTC-A-AGCTGAGAATTGGTAAGCTC-TCACGAGCTGA
1 AATCGGTAAGCTC--TCAAGAGCTGA-AATCGGTAAGCTCATCA--AGCTGA
*
12724427 AATCAGTAA
1 AATCGGTAA
12724436 TCCCTAATGA
Statistics
Matches: 93, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
47 3 0.03
48 19 0.20
49 47 0.51
50 23 0.25
51 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (47 bp):
AATCGGTAAGCTCTCAAGAGCTGAAATCGGTAAGCTCATCAAGCTGA
Found at i:12745459 original size:25 final size:28
Alignment explanation
Indices: 12745407--12745463 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 28
12745397 TGACACATTG
12745407 TTAATATCATGATAATAGTAATAATATT
1 TTAATATCATGATAATAGTAATAATATT
*
12745435 TTAATATTATGAT-A-A-TAATAATATT
1 TTAATATCATGATAATAGTAATAATATT
12745460 TTAA
1 TTAA
12745464 ATGAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 14 0.50
26 1 0.04
27 1 0.04
28 12 0.43
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TTAATATCATGATAATAGTAATAATATT
Found at i:12745475 original size:25 final size:25
Alignment explanation
Indices: 12745415--12745471 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
12745405 TGTTAATATC
* *
12745415 ATGATAATAGTAATAATATTTTAAT
1 ATGAAAATAATAATAATATTTTAAT
* **
12745440 ATTATGATAATAATAATATTTTAA-
1 ATGAAAATAATAATAATATTTTAAT
12745464 ATGAAAAT
1 ATGAAAAT
12745472 TAATTCTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (25 bp):
ATGAAAATAATAATAATATTTTAAT
Found at i:12752798 original size:59 final size:59
Alignment explanation
Indices: 12752728--12752842 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
12752718 ATTGTCCCTT
*
12752728 AAACAATATATTATTTTCAATTCATGAATCAAACTCCTGAAGTTATCTTCTCTTGCCTC
1 AAACAACATATTATTTTCAATTCATGAATCAAACTCCTGAAGTTATCTTCTCTTGCCTC
*
12752787 AAACAACATATTATTTTCAATTCATGAATCTAACTCCTGAAGTTATCTTCTCTTGC
1 AAACAACATATTATTTTCAATTCATGAATCAAACTCCTGAAGTTATCTTCTCTTGC
12752843 ACATTCTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (59 bp):
AAACAACATATTATTTTCAATTCATGAATCAAACTCCTGAAGTTATCTTCTCTTGCCTC
Found at i:12756549 original size:19 final size:19
Alignment explanation
Indices: 12756523--12756566 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12756513 ATAAAACAAC
12756523 GAAAAAA-ATAAACATAAAAA
1 GAAAAAAGA-AAAC-TAAAAA
12756543 GAAAAAAGAAAACTAAAAA
1 GAAAAAAGAAAACTAAAAA
12756562 GAAAA
1 GAAAA
12756567 CAAATAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.80, C:0.05, G:0.09, T:0.07
Consensus pattern (19 bp):
GAAAAAAGAAAACTAAAAA
Found at i:12756553 original size:27 final size:27
Alignment explanation
Indices: 12756497--12756554 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
12756487 AAATAAGTCT
*
12756497 AAAAAAATAAATAAAAATAAAACAACG
1 AAAAAAATAAATAAAAAGAAAACAACG
12756524 AAAAAAATAAACATAAAAAGAAAA-AA-G
1 AAAAAAAT-AA-ATAAAAAGAAAACAACG
12756551 AAAA
1 AAAA
12756555 CTAAAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 13 0.46
28 4 0.14
29 11 0.39
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.09
Consensus pattern (27 bp):
AAAAAAATAAATAAAAAGAAAACAACG
Done.