Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 83 of 187
Found at i:24172985 original size:9 final size:9
Alignment explanation
Indices: 24172966--24173169 Score: 95
Period size: 9 Copynumber: 24.7 Consensus size: 9
24172956 CTTATATAGA
*
24172966 AACTTGCAT
1 AACTTACAT
*
24172975 AACTTATAT
1 AACTTACAT
*
24172984 AACTTA-AA
1 AACTTACAT
*
24172992 AACTTAGAT
1 AACTTACAT
24173001 AAC--ACAT
1 AACTTACAT
* *
24173008 AGCCTACAT
1 AACTTACAT
*
24173017 AACTTATAT
1 AACTTACAT
*
24173026 AACTTACAC
1 AACTTACAT
*
24173035 AA--TACAC
1 AACTTACAT
*
24173042 CACTTACAT
1 AACTTACAT
24173051 -A---A-AT
1 AACTTACAT
*
24173055 AACTTGCAT
1 AACTTACAT
24173064 AA--TACAT
1 AACTTACAT
* *
24173071 AGCCTACAT
1 AACTTACAT
*
24173080 AACTTACTT
1 AACTTACAT
24173089 AACTTACAT
1 AACTTACAT
*
24173098 AA--TACAC
1 AACTTACAT
*
24173105 CACTTACAT
1 AACTTACAT
*
24173114 AACTTAAAT
1 AACTTACAT
24173123 AACTTACAT
1 AACTTACAT
*
24173132 AA--TACTT
1 AACTTACAT
24173139 AACTTTA-AT
1 AAC-TTACAT
*
24173148 AA--TACAC
1 AACTTACAT
24173155 AACTTACAT
1 AACTTACAT
24173164 AACTTA
1 AACTTA
24173170 ATTACATTAT
Statistics
Matches: 145, Mismatches: 30, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 2 0.01
7 30 0.21
8 8 0.06
9 99 0.68
10 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:24173050 original size:34 final size:34
Alignment explanation
Indices: 24173012--24173136 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 34
24173002 ACACATAGCC
*
24173012 TACATAACTTATATAACTTACACAATACACCACT
1 TACATAACTTATATAACTTACATAATACACCACT
* * *
24173046 TACAT-A---A-ATAACTTGCATAATACA-TAGCC
1 TACATAACTTATATAACTTACATAATACACCA-CT
24173075 TACATAACTTACT-TAACTTACATAATACACCACT
1 TACATAACTTA-TATAACTTACATAATACACCACT
*
24173109 TACATAACTTAAATAACTTACATAATAC
1 TACATAACTTATATAACTTACATAATAC
24173137 TTAACTTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
28 1 0.01
29 21 0.28
30 2 0.03
33 2 0.03
34 47 0.64
35 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (34 bp):
TACATAACTTATATAACTTACATAATACACCACT
Found at i:24173059 original size:63 final size:62
Alignment explanation
Indices: 24172988--24173115 Score: 197
Period size: 63 Copynumber: 2.0 Consensus size: 62
24172978 TTATATAACT
24172988 TAAAAACTTAG-ATAACACATAGCCTACATAACTTA-TATAACTTACACAATACACCACTTACA
1 TAAAAACTT-GCATAACACATAGCCTACATAACTTACT-TAACTTACACAATACACCACTTACA
* *
24173050 TAAATAACTTGCATAATACATAGCCTACATAACTTACTTAACTTACATAATACACCACTTACA
1 TAAA-AACTTGCATAACACATAGCCTACATAACTTACTTAACTTACACAATACACCACTTACA
24173113 TAA
1 TAA
24173116 CTTAAATAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
62 5 0.08
63 55 0.90
64 1 0.02
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.28
Consensus pattern (62 bp):
TAAAAACTTGCATAACACATAGCCTACATAACTTACTTAACTTACACAATACACCACTTACA
Found at i:24173103 original size:25 final size:24
Alignment explanation
Indices: 24173075--24173171 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
24173065 ATACATAGCC
* *
24173075 TACATAACTTACTTAACTTACATAA
1 TACACAACTTACATAACTTA-ATAA
*
24173100 TACACCACTTACATAACTTAAATAA
1 TACACAACTTACATAACTT-AATAA
* *
24173125 CTTACATAA--TACTTAACTTTAATAA
1 --TACACAACTTACATAAC-TTAATAA
24173150 TACACAACTTACATAACTTAAT
1 TACACAACTTACATAACTTAAT
24173172 TACATTATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 6 0.10
24 5 0.09
25 39 0.67
26 3 0.05
27 5 0.09
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (24 bp):
TACACAACTTACATAACTTAATAA
Found at i:24173111 original size:16 final size:16
Alignment explanation
Indices: 24173026--24173165 Score: 81
Period size: 16 Copynumber: 8.7 Consensus size: 16
24173016 TAACTTATAT
*
24173026 AACTTACACAATACAC
1 AACTTACATAATACAC
* *
24173042 CACTTACAT-A-A-AT
1 AACTTACATAATACAC
* *
24173055 AACTTGCATAATACAT
1 AACTTACATAATACAC
* * **
24173071 AGCCTACATAACTTACTT
1 AACTTACATAA--TACAC
24173089 AACTTACATAATACAC
1 AACTTACATAATACAC
* * *
24173105 CACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
**
24173123 AACTTACATAATACTT
1 AACTTACATAATACAC
24173139 AACTTTA-ATAATACAC
1 AAC-TTACATAATACAC
24173155 AACTTACATAA
1 AACTTACATAA
24173166 CTTAATTACA
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
13 8 0.09
14 2 0.02
15 5 0.05
16 50 0.53
17 3 0.03
18 26 0.28
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:24174338 original size:66 final size:66
Alignment explanation
Indices: 24174232--24174379 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
24174222 CAAATTACAC
* * *
24174232 AACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCTAGCT
1 AACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGCT
24174296 AA
65 AA
* * *
24174298 AACTTAAAGCAGATGCAGCATCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCTG
1 AACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCTA
*
24174363 C
66 A
*
24174364 AGCTTAAAGCAGATGC
1 AACTTAAAGCAGATGC
24174380 GGCAGCAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 69 0.95
67 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.17
Consensus pattern (66 bp):
AACTTAAAGCAGATGCAACATCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCTA
A
Found at i:24174393 original size:66 final size:67
Alignment explanation
Indices: 24174257--24174408 Score: 182
Period size: 66 Copynumber: 2.3 Consensus size: 67
24174247 CAACATCGAG
* * * *
24174257 AGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCTAGCTAAAACTTAAAGCAGATGCAGCATCG
1 AGAAGCTGAGGTTCAACGAAAGATATGAAGAACTCCAGCTAAAACTTAAAGCAGATGCAGCAGCA
*
24174321 AG
66 AA
** * *
24174323 AGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGCTGCAGCTTAAAGCAGATGCGGCAGCA
1 AGAAGCTGAGGTTCAACGAAAGATATGAAGAACTCCAGCTAAAACTTAAAGCAGATGCAGCAGCA
24174387 AA
66 AA
* *
24174389 AGAAGCAGAGGCTGCAACGA
1 AGAAGCTGAGG-TTCAACGA
24174409 GGGAAGCAGA
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
66 62 0.85
67 11 0.15
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (67 bp):
AGAAGCTGAGGTTCAACGAAAGATATGAAGAACTCCAGCTAAAACTTAAAGCAGATGCAGCAGCA
AA
Found at i:24174835 original size:44 final size:42
Alignment explanation
Indices: 24174752--24175091 Score: 351
Period size: 44 Copynumber: 7.9 Consensus size: 42
24174742 CGTTTTTAAA
** **
24174752 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGG
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGT-GG
* *
24174795 AAAAGCGCCGCTAAAAGAACATTACCTTTAGTGGCGTTTGTGG
1 AAAAGCGCCGCT-AAAGAACATGACCTTTAGCGGCGTTTGTGG
* *
24174838 ATAAAGCGCCGCCAAAGAACATGATCTTTAGCGGCGTTTG-GCG
1 A-AAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTG-G
* *
24174881 AAAAAAGCGCCGCTAAAGAACATGATCTGTAGCGGCGTTTGTGG
1 --AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGG
* * **
24174925 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTT
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGG
*** * * **
24174967 TGTAGCGCCGCTACTAAAGAACATGACATTTAGCGGCATTT-TTT
1 AAAAGCGCCG---CTAAAGAACATGACCTTTAGCGGCGTTTGTGG
* *
24175011 TATAGCGCCGCTACTAAAGAACATGACCTTTAGCGGCGTTTGTGG
1 AAAAGCGCCG---CTAAAGAACATGACCTTTAGCGGCGTTTGTGG
24175056 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGT
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGT
24175092 CTATAAAAAT
Statistics
Matches: 258, Mismatches: 29, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
42 70 0.27
43 40 0.16
44 110 0.43
45 38 0.15
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGG
Found at i:24174899 original size:87 final size:86
Alignment explanation
Indices: 24174752--24175091 Score: 314
Period size: 87 Copynumber: 3.9 Consensus size: 86
24174742 CGTTTTTAAA
** * * *
24174752 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGAACAT
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGGCGAAAAAGCGCCGCTAAAAGAACAT
*
24174817 TACCTTTAGTGGCGTTTGTGG
66 GACCTTTAGTGGCGTTTGTGG
*
24174838 ATAAAGCGCCGCCAAAGAACATGATCTTTAGCGGCGTTTGGCGAAAAAAGCGCCGCT-AAAGAAC
1 A-AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGGCG-AAAAAGCGCCGCTAAAAGAAC
* * *
24174902 ATGATCTGTAGCGGCGTTTGTGG
64 ATGACCTTTAGTGGCGTTTGTGG
* * *******
24174925 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTT-TTTTTGTAGCGCCGCTACTAAAGAAC
1 AAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGGCGAAAAAGCGCCGCTA--AAAGAAC
* * * **
24174989 ATGACATTTAGCGGCATTT-TTT
64 ATGACCTTTAGTGGCGTTTGTGG
* * *
24175011 TATAGCGCCGCTACTAAAGAACATGACCTTTAGCGGCGTTTGTG-G-AAAAGCGCCGCT-AAAGA
1 AAAAGCGCCG---CTAAAGAACATGATCTTTAGCGGCGTTTG-GCGAAAAAGCGCCGCTAAAAGA
*
24175073 ACATGACCTTTAGCGGCGT
62 ACATGACCTTTAGTGGCGT
24175092 CTATAAAAAT
Statistics
Matches: 208, Mismatches: 36, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
84 9 0.04
86 66 0.32
87 85 0.41
88 12 0.06
89 36 0.17
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGGCGAAAAAGCGCCGCTAAAAGAACAT
GACCTTTAGTGGCGTTTGTGG
Found at i:24174986 original size:131 final size:126
Alignment explanation
Indices: 24174750--24175089 Score: 387
Period size: 131 Copynumber: 2.6 Consensus size: 126
24174740 GGCGTTTTTA
** *
24174750 AAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGAAC
1 AAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCT-AAAGAAC
* * * *
24174815 ATTACCTTTAGTGGCGTTTGTGGATAAAGCGCCGCCAAAGAACATGATC-TTTAGCGGCGTTTGG
64 ATGACCTTTAGCGGCATTTGTGGATAAAGCGCCGCCAAAGAACATGA-CATTTAGCGGCATTT--
24174879 CG
126 -G
*
24174881 AAAAAAGCGCCGCTAAAGAACATGATCTGTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACAT
1 AAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACAT
*** ** *
24174946 GACCTTTAGCGGCATTT-TTTTTGTAGCGCCGCTACTAAAGAACATGACATTTAGCGGCATTTT
66 GACCTTTAGCGGCATTTGTGGATAAAGCGCCGC--C-AAAGAACATGACATTTAGCGGCATTTG
*** * *
24175009 TTTATAGCGCCGCTACTAAAGAACATGACCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAA
1 AAAAAAGCGCCG---CTAAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAA
24175074 CATGACCTTTAGCGGC
63 CATGACCTTTAGCGGC
24175090 GTCTATAAAA
Statistics
Matches: 182, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
128 18 0.10
129 23 0.13
130 16 0.09
131 125 0.69
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (126 bp):
AAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACAT
GACCTTTAGCGGCATTTGTGGATAAAGCGCCGCCAAAGAACATGACATTTAGCGGCATTTG
Found at i:24180994 original size:7 final size:7
Alignment explanation
Indices: 24180982--24181019 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
24180972 AAGAGTGTGG
24180982 TGAAGTT
1 TGAAGTT
24180989 TGAAGTT
1 TGAAGTT
24180996 TGAAGTT
1 TGAAGTT
24181003 TGAAGTT
1 TGAAGTT
24181010 TGAAGTT
1 TGAAGTT
24181017 TGA
1 TGA
24181020 TGTGTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (7 bp):
TGAAGTT
Found at i:24182589 original size:13 final size:13
Alignment explanation
Indices: 24182571--24182595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24182561 AAGAAAGAAG
24182571 ATGGATGAAATGC
1 ATGGATGAAATGC
24182584 ATGGATGAAATG
1 ATGGATGAAATG
24182596 AAATTCACGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.24
Consensus pattern (13 bp):
ATGGATGAAATGC
Found at i:24186354 original size:2 final size:2
Alignment explanation
Indices: 24186347--24186376 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24186337 CTAAATCAAA
24186347 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
24186377 AAATAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:24188179 original size:17 final size:18
Alignment explanation
Indices: 24188157--24188190 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24188147 ATTTAATTTA
*
24188157 TATATTTTAT-ATTTTTT
1 TATATTCTATAATTTTTT
24188174 TATATTCTATAATTTTT
1 TATATTCTATAATTTTT
24188191 AATAACTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TATATTCTATAATTTTTT
Found at i:24194747 original size:15 final size:15
Alignment explanation
Indices: 24194727--24194755 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24194717 TGCTTGCATC
24194727 TAACAGTAGAATTTG
1 TAACAGTAGAATTTG
24194742 TAACAGTAGAATTT
1 TAACAGTAGAATTT
24194756 CATACTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
TAACAGTAGAATTTG
Found at i:24195043 original size:24 final size:24
Alignment explanation
Indices: 24195016--24195072 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
24195006 AAACCTAATT
24195016 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
24195040 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
24195064 CTCATAAAT
1 CTAATAAAT
24195073 AAAGAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:24207599 original size:15 final size:15
Alignment explanation
Indices: 24207579--24207614 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
24207569 ACCATTCAAC
24207579 TCATCAATCCCTTTT
1 TCATCAATCCCTTTT
24207594 TCATCAATCCCTTTT
1 TCATCAATCCCTTTT
24207609 TCATCA
1 TCATCA
24207615 TATTACATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (15 bp):
TCATCAATCCCTTTT
Found at i:24222267 original size:15 final size:16
Alignment explanation
Indices: 24222236--24222269 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24222226 ATCTAAACTG
*
24222236 TTTATTTTTCTTTTGA
1 TTTATTTTTCTTATGA
24222252 TTTATTTTT-TTATGA
1 TTTATTTTTCTTATGA
24222267 TTT
1 TTT
24222270 TTGTTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTATTTTTCTTATGA
Found at i:24223993 original size:16 final size:17
Alignment explanation
Indices: 24223972--24224004 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24223962 TAAATAAACA
*
24223972 AAAAATATAAA-AAAAT
1 AAAAATAAAAACAAAAT
24223988 AAAAATAAAAACAAAAT
1 AAAAATAAAAACAAAAT
24224005 TATTAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAATAAAAACAAAAT
Found at i:24224491 original size:20 final size:18
Alignment explanation
Indices: 24224454--24224514 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
24224444 TGGAATGTGG
24224454 TTCTCTTTTCTT-TTTCT
1 TTCTCTTTTCTTGTTTCT
24224471 TTCTCTTTCTCTGTGTTTCT
1 TTCTCTTT-TCT-TGTTTCT
* *
24224491 TTACTGTTTTCTTTGATTCT
1 TT-CTCTTTTC-TTGTTTCT
24224511 TTCT
1 TTCT
24224515 ATTTCCTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 3 0.08
20 17 0.46
21 6 0.16
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (18 bp):
TTCTCTTTTCTTGTTTCT
Found at i:24225585 original size:28 final size:28
Alignment explanation
Indices: 24225512--24225589 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
24225502 CTCTTTCCAA
24225512 TATTTTAACATTTTAATTTATCTCAACT
1 TATTTTAACATTTTAATTTATCTCAACT
* * *
24225540 TATTTCAATATTGTTAATTTAT-TCAAATT
1 TATTTTAACATT-TTAATTTATCTC-AACT
*
24225569 TATTTTAACCTTTTAATTTAT
1 TATTTTAACATTTTAATTTAT
24225590 ACATATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.56
Consensus pattern (28 bp):
TATTTTAACATTTTAATTTATCTCAACT
Found at i:24236593 original size:43 final size:43
Alignment explanation
Indices: 24236527--24236775 Score: 324
Period size: 43 Copynumber: 5.8 Consensus size: 43
24236517 TTTTTATCAT
*
24236527 TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCGATTTG
1 TATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTTG
*
24236570 TATTTTCGTGTAAGACCACGTCTGGGACAATGGCATCGATTTG
1 TATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTTG
* * *
24236613 TATTTTCGTGTAAAACCACGTCTAGGACGATGACATCGATTTG
1 TATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTTG
* * *
24236656 TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCAATTTA
1 TATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTTG
* *
24236699 TATTTTCGAGTAAGACC-CTGTTTGGGAC-AGTGGCATCGATTTG
1 TATTTTCGTGTAAGACCAC-GTCTGGGACGA-TGGCATCGATTTG
* * * *
24236742 CGA-TTACATGTAAGACCACATCTGGGACGATGGC
1 -TATTTTCGTGTAAGACCACGTCTGGGACGATGGC
24236776 GTTGTATGAA
Statistics
Matches: 178, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 174 0.98
44 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TATTTTCGTGTAAGACCACGTCTGGGACGATGGCATCGATTTG
Found at i:24236760 original size:129 final size:129
Alignment explanation
Indices: 24236527--24236773 Score: 363
Period size: 129 Copynumber: 1.9 Consensus size: 129
24236517 TTTTTATCAT
* * *
24236527 TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCGATTTGTATTTTCGTGTAAGACCACGTC
1 TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCAATTTATATTTTCGAGTAAGACCACGTC
* * * *
24236592 TGGGACAATGGCATCGATTTGTATTTTCGTGTAAAACCACGTCTAGGACGATGACATCGATTTG
66 TGGGACAATGGCATCGATTTGGATTTACATGTAAAACCACATCTAGGACGATGACATCGATTTG
24236656 TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCAATTTATATTTTCGAGTAAGACC-CTGT
1 TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCAATTTATATTTTCGAGTAAGACCAC-GT
* * * *
24236720 TTGGGACAGTGGCATCGATTTGCGA-TTACATGTAAGACCACATCTGGGACGATG
65 CTGGGACAATGGCATCGATTTG-GATTTACATGTAAAACCACATCTAGGACGATG
24236774 GCGTTGTATG
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
128 1 0.01
129 103 0.98
130 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (129 bp):
TATTTTCGTGTAAGACCATGTCTGGGACGATGGCATCAATTTATATTTTCGAGTAAGACCACGTC
TGGGACAATGGCATCGATTTGGATTTACATGTAAAACCACATCTAGGACGATGACATCGATTTG
Found at i:24238622 original size:44 final size:44
Alignment explanation
Indices: 24238509--24239939 Score: 440
Period size: 44 Copynumber: 31.7 Consensus size: 44
24238499 GTTTTAATCC
* * * *
24238509 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
* *
24238553 ACTCCACTGCAACTTCAGGGAGATAAGATTGGTATCGTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
* *
24238597 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGTTAT-TTCAACCT
1 GCTCCACT-GCAACTTCAGGGAGATAA-GATTGGTATCTTCAACCT
* * * * * * ** * *
24238641 GCTCTACTGCAAATTTAGAGAGATAAGGTTTGTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
* * * *
24238685 GCTCCACTACAACTTTAAGGAGATAAGATTCGTAGCCTGTCTTCAATCC-
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-G--G--TATCTTCAA-CCT
* * * *
24238734 GCTCCACTACAACTTCAGGGAGATAAGATTGATTTATTTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--GTATCTTCAACCT
* * * ** * * * * *
24238780 GCACCACTACAACTTTAAAGAGATAAGGTTTG-AT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
* * * * *
24238821 GCTCTACTGCAACTTTAGTGAGATAAGACTTGTAATTTATAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTG----GTAT--CTTCAACCT
* * * * * **
24238872 GTTCCACTACAACATCAGGGAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GGTATCTTCAACCT
24238917 GCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACCT
* * * * * **
24238961 GCTCTATTGCAACTTCAGGGAGATAAGGTTTGCTATATTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCAACCT
* * * *
24239006 GCTCCACTGCAATTTCA-TGAGGTAAGACTT-GTAACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACCT
* * * *
24239049 GCCCCACTGCAACTTCAGGG-GAATAAGGTTTGCTA--TT--ATCT
1 GCTCCACTGCAACTTCAGGGAG-ATAA-GATTGGTATCTTCAACCT
* * * *
24239090 GCTCTACTGTAACTTC-GGAGAGATAAGATCTGTTATTTATAGCTTCAATCT
1 GCTCCACTGCAACTTCAGG-GAGATAAGAT-TG----GTAT--CTTCAACCT
** * * * * * *
24239141 ATTCCACTGCAACTTTAGGGAGATAAGGTTTG-AT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
* ** * * **
24239182 GCTCTACTGCAACCTT-AAAGAGATAAGATCTGTTATTTATAGCTTTAATAT
1 GCTCCACTGCAA-CTTCAGGGAGATAAGAT-TG----GTAT--CTTCAACCT
** * * * * **
24239233 ATTCTACTGAAACTTCAGGGAAATAAGATCCGCG-ATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GTATCTTCAACCT
* * ** *
24239278 GCTTCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTA-CT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACCT
* * * * * * *
24239322 -CT--ACTGCAACCTCAGAGATATAAGGTCTGTTATTTATAGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG----GTAT--CTTCAACCT
* * * * * **
24239370 GTTCCACTGCAACTTCATGGAAATAAGATTCGCTATCTTTAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GGTATCTTCAACCT
* * * *
24239415 GCTCCATTGCAACTTCAGGGAGATAAGACTT-G-AT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACCT
* ** ** * *
24239456 GCTCTACTTTAA-TCTCACAGAGATAAGATCTGTTAT-TTATAACTTTACTAT
1 GCTCCACTGCAACT-TCAGGGAGATAAGAT-TGGTATCTT-CAAC----C--T
* * * *
24239507 GTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GGTATCTTCAACCT
* * *
24239552 ACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACCT
* * * * *
24239596 GCTCCACTGCAACTTCAAGGAGATAAGGTT--TAAT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGT-ATCTTCAACCT
* * * * *
24239637 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TG----GTAT--CTTCAACCT
* * * ***
24239688 GTTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GGTATCTTCAACCT
24239733 GCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACCT
* * * * **
24239777 ACTCCACTGCAACTTCAAGGAGATAAGGTTTGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCAACCT
* *
24239822 ACTCCACTGCAACTTTAGGGAGATAAGACTT-GTAAT-TTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGGT-ATCTTCAACCT
* * * * * * * *
24239866 GCTCTACTGCAACTTTA-GAAGAATAAGGTTTGTGGT-TTTAATCT
1 GCTCCACTGCAACTTCAGGGAG-ATAAGATTGGT-ATCTTCAACCT
* *
24239910 GTTCCACTGCAACTTCAGGAAGATAAGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
24239940 CGCCATGATG
Statistics
Matches: 1028, Mismatches: 251, Indels: 216
0.69 0.17 0.14
Matches are distributed among these distances:
40 7 0.01
41 144 0.14
42 13 0.01
43 49 0.05
44 297 0.29
45 243 0.24
46 40 0.04
47 21 0.02
48 4 0.00
49 39 0.04
50 13 0.01
51 153 0.15
52 5 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCT
Found at i:24238637 original size:88 final size:88
Alignment explanation
Indices: 24238509--24239939 Score: 508
Period size: 92 Copynumber: 15.8 Consensus size: 88
24238499 GTTTTAATCC
* * *
24238509 GCTCCACT-GCAACTTCAGGGAGAT-AGGATTAG-TAGCTTCAATCTACTCCACTGCAACTTCAG
1 GCTCCACTAG-AACTTCAGGGAGATAAGG-TTTGCTA-TTTCAATCTGCTCCACTGCAACTTCAG
*
24238571 GGAGATAAGATTGGTATCGTCAACCT
63 GGAGATAAGATTGGTATCTTCAACCT
* * * * * *
24238597 GCTCCACTAGAACTTCAGGGAGATAAGGTTTGTTATTTCAACCTGCTCTACTGCAAATTTAGAGA
1 GCTCCACTAGAACTTCAGGGAGATAAGGTTTGCTATTTCAATCTGCTCCACTGCAACTTCAGGGA
* * ** * *
24238662 GATAAGGTTTGTGGCTTTAATCT
66 GATAAGATTGGTATCTTCAACCT
* * * * * * *
24238685 GCTCCACTACAACTTTAAGGAGATAAGATTCGTAGCCTGTCTTCAATCCGCTCCACTACAACTTC
1 GCTCCACTAGAACTTCAGGGAGATAAGGTT--T-G-CTAT-TTCAATCTGCTCCACTGCAACTTC
* * *
24238750 AGGGAGATAAGATTGATTTATTTTTAACCT
61 AGGGAGATAAGATTG--GTATCTTCAACCT
* * * ** * * * * *
24238780 GCACCACTACAACTTTAAAGAGATAAGGTTTG--ATAT-GATCTGCTCTACTGCAACTTTAGTGA
1 GCTCCACTAGAACTTCAGGGAGATAAGGTTTGCTATTTCAATCTGCTCCACTGCAACTTCAGGGA
* *
24238842 GATAAGACTTGTAATTTATAGCTTCAATCT
66 GATAAGA-TTG----GTAT--CTTCAACCT
* * * * * * *
24238872 GTTCCACTACAACATCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGG
1 GCTCCACTAGAACTTCAGGGAGATAAGGTTTGCTAT-TTCAATCTGCTCCACTGCAACTTCAGGG
24238937 AGATAAGACTT-GTATCTTCAACCT
65 AGATAAGA-TTGGTATCTTCAACCT
* * * * *
24238961 GCTCTA-TTGCAACTTCAGGGAGATAAGGTTTGCTATATTCAGTCTGCTCCACTGCAATTTCA-T
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTAT-TTCAATCTGCTCCACTGCAACTTCAGG
* *
24239024 GAGGTAAGACTT-GTAACTTCAACCT
64 GAGATAAGA-TTGGTATCTTCAACCT
* * *
24239049 GCCCCACT-GCAACTTCAGGG-GAATAAGGTTTGCTA-TT--ATCTGCTCTACTGTAACTTC-GG
1 GCTCCACTAG-AACTTCAGGGAG-ATAAGGTTTGCTATTTCAATCTGCTCCACTGCAACTTCAGG
* *
24239108 AGAGATAAGATCTGTTATTTATAGCTTCAATCT
64 -GAGATAAGAT-TG----GTAT--CTTCAACCT
** * * * * **
24239141 ATTCCACT-GCAACTTTAGGGAGATAAGGTTTG--ATAT-GATCTGCTCTACTGCAACCTT-AAA
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTATTTCAATCTGCTCCACTGCAA-CTTCAGG
* * **
24239201 GAGATAAGATCTGTTATTTATAGCTTTAATAT
64 GAGATAAGAT-TG----GTAT--CTTCAACCT
** * * * ** * * *
24239233 ATTCTACT-GAAACTTCAGGGAAATAAGATCCGCGATCTTCAGTCTGCTTCACTGCAACTTCAGG
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTAT-TTCAATCTGCTCCACTGCAACTTCAGG
* ** *
24239297 GAGATAAGACTTGATATGATCTA-CT
64 GAGATAAGA-TTGGTATCTTCAACCT
* * * * * *
24239322 -CT--ACT-GCAACCTCAGAGATATAAGGTCTGTTATTTATAGCTTTAATCTGTTCCACTGCAAC
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTA-TT-T--C---AATCTGCTCCACTGCAAC
* * * * **
24239383 TTCATGGAAATAAGATTCGCTATCTTTAGTCT
58 TTCAGGGAGATAAGATT-GGTATCTTCAACCT
* ** * * * ** **
24239415 GCTCCA-TTGCAACTTCAGGGAGATAAGACTTG--ATAT-GATCTGCTCTACTTTAA-TCTCACA
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTATTTCAATCTGCTCCACTGCAACT-TCAGG
* *
24239475 GAGATAAGATCTGTTAT-TTATAACTTTACTAT
64 GAGATAAGAT-TGGTATCTT-CAAC----C--T
* * * * *
24239507 GTTCCACT-GCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTTCAGG
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTAT-TTCAATCTGCTCCACTGCAACTTCAGG
* *
24239571 GAGATAAGACTT-GTAACTTTAACCT
64 GAGATAAGA-TTGGTATCTTCAACCT
* * * * * *
24239596 GCTCCACT-GCAACTTCAAGGAGATAAGGTTT--AATAT-GATCTGCTCTACTGCAACTTCAGAG
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTATTTCAATCTGCTCCACTGCAACTTCAGGG
* * *
24239657 AGATAAGATCTGTAATTTATAGCTTTAATCT
65 AGATAAGAT-TG----GTAT--CTTCAACCT
* * * * * *
24239688 GTTCCACT-GCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTTTGCTCCACTGCAACTTCAGG
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTAT-TTCAATCTGCTCCACTGCAACTTCAGG
24239752 GAGATAAGACTT-GTATCTTCAACCT
64 GAGATAAGA-TTGGTATCTTCAACCT
* * * * *
24239777 ACTCCACT-GCAACTTCAAGGAGATAAGGTTTGCTATCTTCAGTCTACTCCACTGCAACTTTAGG
1 GCTCCACTAG-AACTTCAGGGAGATAAGGTTTGCTAT-TTCAATCTGCTCCACTGCAACTTCAGG
24239841 GAGATAAGACTT-GTAAT-TTCAACCT
64 GAGATAAGA-TTGGT-ATCTTCAACCT
* * * * * *
24239866 GCTCTACT-GCAACTTTA-GAAGAATAAGGTTTG-TGGTTTTAATCTGTTCCACTGCAACTTCAG
1 GCTCCACTAG-AACTTCAGGGAG-ATAAGGTTTGCT-ATTTCAATCTGCTCCACTGCAACTTCAG
*
24239928 GAAGATAAGATT
63 GGAGATAAGATT
24239940 CGCCATGATG
Statistics
Matches: 1033, Mismatches: 221, Indels: 179
0.72 0.15 0.12
Matches are distributed among these distances:
84 18 0.02
85 42 0.04
86 56 0.05
87 35 0.03
88 182 0.18
89 204 0.20
90 17 0.02
91 11 0.01
92 234 0.23
93 39 0.04
94 11 0.01
95 49 0.05
96 131 0.13
97 4 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (88 bp):
GCTCCACTAGAACTTCAGGGAGATAAGGTTTGCTATTTCAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTGGTATCTTCAACCT
Found at i:24238935 original size:45 final size:44
Alignment explanation
Indices: 24238863--24239941 Score: 407
Period size: 45 Copynumber: 23.9 Consensus size: 44
24238853 TAATTTATAG
* * * *
24238863 CTTCAATCTGTTCCACTACAACATCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
*
24238908 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAT
* * * * *
24238952 CTTCAACCTGCTCTATTGCAACTTCAGGGAGATAAGGTTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
* * * * * *
24238997 ATTCAGTCTGCTCCACTGCAATTTCA-TGAGGTAAGACTT-GTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAT
* * * *
24239040 CTTCAACCTGCCCCACTGCAACTTCAGGG-GAATAAGGTTTGCTA-
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTCG-TAT
* *
24239084 -TT--ATCTGCTCTACTGTAACTTC-GGAGAGATAAGA-TCTGTTATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTC-G-----TAT
** * * *
24239130 AGCTTCAATCTATTCCACTGCAACTTTAGGGAGATAAGGTTTG-AT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAT
* * * **
24239175 -AT-GATCTGCTCTACTGCAACCTT-AAAGAGATAAGA-TCTGTTATTTAT
1 CTTCAATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTC-G-----TAT
* * ** * * * * *
24239222 AGCTTTAATATATTCTACTGAAACTTCAGGGAAATAAGATCCGCGAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
* *
24239269 CTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTT-G-AT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAT
* * * * * * * *
24239312 -AT-GATCTACTCTACTGCAACCTCAGAGATATAAG-GTCTGTTATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-----TAT
* * * *
24239359 AGCTTTAATCTGTTCCACTGCAACTTCATGGAAATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
* * *
24239406 CTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTT-G-AT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAT
* * * ** **
24239449 -AT-GATCTGCTCTACTTTAA-TCTCACAGAGATAAGA-TCTGTTAT
1 CTTCAATCTGCTCCACTGCAACT-TCAGGGAGATAAGATTC-G-TAT
* * *
24239492 -TTATAACTTTACTATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 CTT-CAA---T-C--TGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
* *
24239543 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAT
* * * *
24239587 CTTTAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTT--TAAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGT-AT
* * * *
24239630 -AT-GATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-----TAT
* * *
24239677 AGCTTTAATCTGTTCCACTGCAACTTCAGAGAGATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
* *
24239724 CTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAT
* * * * *
24239768 CTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAT
* * *
24239813 CTTCAGTCTACTCCACTGCAACTTTAGGGAGATAAGACTT-GTAAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGT-AT
* * * * * * *
24239858 -TTCAACCTGCTCTACTGCAACTTTA-GAAGAATAAGGTTTGTGGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTCGT-AT
* * *
24239902 -TTTAATCTGTTCCACTGCAACTTCAGGAAGATAAGATTCG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG
24239942 CCATGATGAC
Statistics
Matches: 771, Mismatches: 172, Indels: 183
0.68 0.15 0.16
Matches are distributed among these distances:
39 2 0.00
40 6 0.01
41 122 0.16
42 9 0.01
43 47 0.06
44 177 0.23
45 229 0.30
46 11 0.01
47 15 0.02
48 3 0.00
49 3 0.00
50 6 0.01
51 128 0.17
52 13 0.02
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAT
Found at i:24239345 original size:137 final size:137
Alignment explanation
Indices: 24239143--24239583 Score: 648
Period size: 137 Copynumber: 3.2 Consensus size: 137
24239133 TTCAATCTAT
* ** *
24239143 TCCACTGCAACTTTAGGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACCTTAAAGAGATAA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACCTCAAAGAGATAA
* * * * *
24239208 GATCTGTTATTTATAGCTTTAATATATTCTACTGAAACTTCAGGGAAATAAGATCCGCGATCTTC
66 GATCTGTTATTTATAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
24239273 AGTCTGC
131 AGTCTGC
* * * *
24239280 TTCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTACTCTACTGCAACCTCAGAGATATAA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACCTCAAAGAGATAA
* * * *
24239345 GGTCTGTTATTTATAGCTTTAATCTGTTCCACTGCAACTTCATGGAAATAAGATTCGCTATCTTT
66 GATCTGTTATTTATAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
24239410 AGTCTGC
131 AGTCTGC
* ** * *
24239417 TCCATTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTTTAATCTCACAGAGATAA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACCTCAAAGAGATAA
* *
24239482 GATCTGTTATTTATAACTTTACTATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
66 GATCTGTTATTTATAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
* *
24239547 AATCTAC
131 AGTCTGC
24239554 TCCACTGCAACTTCAGGGAGATAAGACTTG
1 TCCACTGCAACTTCAGGGAGATAAGACTTG
24239584 TAACTTTAAC
Statistics
Matches: 270, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
137 270 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (137 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGATATGATCTGCTCTACTGCAACCTCAAAGAGATAA
GATCTGTTATTTATAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
AGTCTGC
Found at i:24239804 original size:181 final size:181
Alignment explanation
Indices: 24239372--24239807 Score: 615
Period size: 181 Copynumber: 2.4 Consensus size: 181
24239362 TTTAATCTGT
* * ** * *
24239372 TCCACTGCAACTTCATGGAAATAAGA-TTCGCTATCTTTAGTCTGCTCCATTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TATCTTTAACCTGCTCCACTGCAACTTCAAGGA
** * ** *
24239436 GATAAGACTTGATATGATCTGCTCTACTTTAATCTCACAGAGATAAGATCTGTTATTTATAACTT
64 GATAAGGTTTAATATGATCTGCTCTACTGCAATCTCACAGAGATAAGATCTGTAATTTATAACTT
* *
24239501 TACTATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTAC
129 TAATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTAC
*
24239554 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTTAACCTGCTCCACTGCAACTTCAAGGAGA
* *
24239619 TAAGGTTTAATATGATCTGCTCTACTGCAA-CTTCAGAGAGATAAGATCTGTAATTTATAGCTTT
66 TAAGGTTTAATATGATCTGCTCTACTGCAATC-TCACAGAGATAAGATCTGTAATTTATAACTTT
* * * * *
24239683 AATCTGTTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTTTGC
130 AATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTAC
* *
24239735 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACCTACTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTTAACCTGCTCCACTGCAACTTCAAGGAGA
24239800 TAAGGTTT
66 TAAGGTTT
24239808 GCTATCTTCA
Statistics
Matches: 227, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 1 0.00
181 199 0.88
182 25 0.11
183 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (181 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTTAACCTGCTCCACTGCAACTTCAAGGAGA
TAAGGTTTAATATGATCTGCTCTACTGCAATCTCACAGAGATAAGATCTGTAATTTATAACTTTA
ATATGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTAC
Found at i:24240845 original size:1 final size:1
Alignment explanation
Indices: 24240841--24240897 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
24240831 TTCTTTTTCC
* * * * * * *
24240841 TTTTTTCTTTTTTCTTTTTTTTCTTTTTGTTTCTTTTTTCTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24240898 AAAAAAAGTG
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.88
Consensus pattern (1 bp):
T
Found at i:24240847 original size:30 final size:30
Alignment explanation
Indices: 24240811--24240897 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
24240801 GGCCTCTCCT
24240811 TTTTTTC-TTCTTCTTCTTCTTTCTTTTTCC
1 TTTTTTCTTTCTTCTT-TTCTTTCTTTTTCC
* * *
24240841 TTTTTTCTTTTTTCTTTTTTTTCTTTTT-G
1 TTTTTTCTTTCTTCTTTTCTTTCTTTTTCC
*
24240870 TTTCTTT-TTTCTTTTTTTTCTTT-TTTTT
1 TTT-TTTCTTTC-TTCTTTTCTTTCTTTTT
24240898 AAAAAAAGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 11 0.23
30 30 0.62
31 7 0.15
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (30 bp):
TTTTTTCTTTCTTCTTTTCTTTCTTTTTCC
Found at i:24240853 original size:16 final size:16
Alignment explanation
Indices: 24240834--24240895 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
24240824 TTCTTCTTTC
24240834 TTTTTCCTTTTTTC-T
1 TTTTTCCTTTTTTCTT
*
24240849 TTTTTCTTTTTTTTCTT
1 TTTTTC-CTTTTTTCTT
*
24240866 TTTGTTTCTTTTTTCTT
1 TTT-TTCCTTTTTTCTT
*
24240883 TTTTTTCTTTTTT
1 TTTTTCCTTTTTT
24240896 TTAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.15
16 17 0.41
17 16 0.39
18 2 0.05
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTCCTTTTTTCTT
Found at i:24240880 original size:26 final size:25
Alignment explanation
Indices: 24240811--24240895 Score: 86
Period size: 26 Copynumber: 3.2 Consensus size: 25
24240801 GGCCTCTCCT
24240811 TTTTTTCTTCTTCTTCTTCTTTCTTTTTCC
1 TTTTTTCTT-TT-TT-TTCTTT-TTTTT-C
24240841 TTTTTTC--TTTTTTCTTTTTTTTC
1 TTTTTTCTTTTTTTTCTTTTTTTTC
24240864 TTTTTGT-TTCTTTTTTCTTTTTTTTC
1 TTTTT-TCTT-TTTTTTCTTTTTTTTC
24240890 TTTTTT
1 TTTTTT
24240896 TTAAAAAAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
23 6 0.12
24 6 0.12
25 7 0.14
26 23 0.45
27 2 0.04
30 7 0.14
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (25 bp):
TTTTTTCTTTTTTTTCTTTTTTTTC
Found at i:24240894 original size:6 final size:6
Alignment explanation
Indices: 24240809--24240885 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
24240799 TTGGCCTCTC
* * *
24240809 CTTTTT -TTCTT CTTCTT CTTCTTT CTTTTT CCTTTTTT CTTTTT -TCTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT -C-TTTTT CTTTTT CTTTTT
* *
24240858 -TTTTT CTTTTT GTTTCT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
24240886 TTTCTTTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 16 0.28
6 30 0.52
7 7 0.12
8 5 0.09
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:24240895 original size:7 final size:7
Alignment explanation
Indices: 24240811--24240886 Score: 84
Period size: 7 Copynumber: 10.9 Consensus size: 7
24240801 GGCCTCTCCT
24240811 TTTTTTC
1 TTTTTTC
24240818 TTCTTCTTC
1 TT-TT-TTC
*
24240827 TTCTTTC
1 TTTTTTC
*
24240834 TTTTTCC
1 TTTTTTC
24240841 TTTTTTC
1 TTTTTTC
24240848 TTTTTTC
1 TTTTTTC
24240855 TTTTTT-
1 TTTTTTC
*
24240861 TTCTTT-
1 TTTTTTC
*
24240867 TTGTTTC
1 TTTTTTC
24240874 TTTTTTC
1 TTTTTTC
24240881 TTTTTT
1 TTTTTT
24240887 TTCTTTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
6 10 0.17
7 41 0.69
8 3 0.05
9 5 0.08
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:24240897 original size:9 final size:9
Alignment explanation
Indices: 24240810--24240897 Score: 87
Period size: 9 Copynumber: 9.8 Consensus size: 9
24240800 TGGCCTCTCC
24240810 TTTTTTTCT
1 TTTTTTTCT
24240819 TCTTCTTCTTCT
1 T-TT-TT-TTCT
24240831 TTCTTTTTC-
1 TT-TTTTTCT
*
24240840 CTTTTTTC-
1 TTTTTTTCT
24240848 -TTTTTTCT
1 TTTTTTTCT
24240856 TTTTTTTCT
1 TTTTTTTCT
24240865 TTTTGTTTC-
1 TTTT-TTTCT
24240874 -TTTTTTCT
1 TTTTTTTCT
24240882 TTTTTTTCT
1 TTTTTTTCT
24240891 TTTTTTT
1 TTTTTTT
24240898 AAAAAAAGTG
Statistics
Matches: 69, Mismatches: 1, Indels: 18
0.78 0.01 0.20
Matches are distributed among these distances:
7 11 0.16
8 9 0.13
9 29 0.42
10 9 0.13
11 5 0.07
12 6 0.09
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:24244464 original size:18 final size:17
Alignment explanation
Indices: 24244432--24244467 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
24244422 AAATAGAAAA
*
24244432 ATATAAAATAAAATAAT
1 ATATAAAAGAAAATAAT
24244449 ATATATAAAGAAAATAAT
1 ATATA-AAAGAAAATAAT
24244467 A
1 A
24244468 ATAGTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
ATATAAAAGAAAATAAT
Found at i:24245818 original size:20 final size:20
Alignment explanation
Indices: 24245766--24245816 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
24245756 ATCGTTTCTT
*
24245766 TATTTAGTTA-TTATTTTTAA
1 TATTTA-TTATTTATTCTTAA
24245786 TATTTATTATTTATTCTTAA
1 TATTTATTATTTATTCTTAA
*
24245806 -ATTTCTTATTT
1 TATTTATTATTT
24245817 TAGTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTATTATTTATTCTTAA
Found at i:24249523 original size:3 final size:3
Alignment explanation
Indices: 24249515--24249541 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24249505 CACACAACTC
24249515 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
24249542 ATCTATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24254022 original size:12 final size:12
Alignment explanation
Indices: 24254005--24254030 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24253995 GGAATTAGGA
24254005 GAGAATCAATTG
1 GAGAATCAATTG
24254017 GAGAATCAATTG
1 GAGAATCAATTG
24254029 GA
1 GA
24254031 CAAATTACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (12 bp):
GAGAATCAATTG
Found at i:24277819 original size:3 final size:3
Alignment explanation
Indices: 24277801--24277851 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
24277791 TCAAATACCC
* * * * *
24277801 TTA TTA TT- TTA ATA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24277848 TTA T
1 TTA T
24277852 GTGCTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:24291345 original size:18 final size:17
Alignment explanation
Indices: 24291324--24291357 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24291314 TAATTTTTTT
24291324 TATTTTGAAAATTATATA
1 TATTTT-AAAATTATATA
*
24291342 TATTTTTAAATTATAT
1 TATTTTAAAATTATAT
24291358 TTATGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTAAAATTATATA
Found at i:24294745 original size:6 final size:6
Alignment explanation
Indices: 24294736--24294771 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
24294726 CAAGAATAAG
* *
24294736 AACAGC AACAGC AACAGT AACAGC AACAGC AGCAGC
1 AACAGC AACAGC AACAGC AACAGC AACAGC AACAGC
24294772 CAAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.47, C:0.31, G:0.19, T:0.03
Consensus pattern (6 bp):
AACAGC
Found at i:24296311 original size:3 final size:3
Alignment explanation
Indices: 24296303--24296329 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24296293 GATGCTGGTC
24296303 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
24296330 GTAGTAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24301618 original size:31 final size:31
Alignment explanation
Indices: 24301583--24301641 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
24301573 TGAAATTTTG
* *
24301583 TTAAAATTTATAAAAGAATGTATAAAAATCA
1 TTAAAAATTATAAAAGAATGTACAAAAATCA
* *
24301614 TTAAAAATTGTAAAAGATTGTACAAAAA
1 TTAAAAATTATAAAAGAATGTACAAAAA
24301642 AAGTTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (31 bp):
TTAAAAATTATAAAAGAATGTACAAAAATCA
Found at i:24302187 original size:49 final size:49
Alignment explanation
Indices: 24302130--24302228 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
24302120 TTGTCAATTA
24302130 AGATATGAGTCTAGAGACAATAAAAATAGAATAATTAAAAATATTATCT
1 AGATATGAGTCTAGAGACAATAAAAATAGAATAATTAAAAATATTATCT
24302179 AGATATGAGTCTAGAGACAATAAAAATAGAATAATTAAAAATATTATCT
1 AGATATGAGTCTAGAGACAATAAAAATAGAATAATTAAAAATATTATCT
24302228 A
1 A
24302229 ATTCATAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (49 bp):
AGATATGAGTCTAGAGACAATAAAAATAGAATAATTAAAAATATTATCT
Found at i:24302578 original size:51 final size:51
Alignment explanation
Indices: 24302513--24302609 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
24302503 GTTAAATGTT
* * ***
24302513 TAATTGCATTAAATTAATATTCACGTGTTATATTATAGGTTAAAATGCATA
1 TAATTGCATCAAATTAAGATTCACACATTATATTATAGGTTAAAATGCATA
* * *
24302564 TAATTGTATCAAATTAAGATTTACACATTATATTGTAGGTTAAAAT
1 TAATTGCATCAAATTAAGATTCACACATTATATTATAGGTTAAAAT
24302610 ATGTTATAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.41
Consensus pattern (51 bp):
TAATTGCATCAAATTAAGATTCACACATTATATTATAGGTTAAAATGCATA
Found at i:24302902 original size:29 final size:29
Alignment explanation
Indices: 24302852--24302934 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 29
24302842 CCCGGATATT
* * *
24302852 TAAATTTGAAAAGTAGAGGGATTAAATTCC
1 TAAATATGAAAAGTATAAGGATTAAATT-C
24302882 TCAAA-AT-AAAAGTATAAGGATTAAATTC
1 T-AAATATGAAAAGTATAAGGATTAAATTC
24302910 TAAATTTATGAAAAGTATAAGGATT
1 TAAA--TATGAAAAGTATAAGGATT
24302935 TATGACATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 3 0.07
28 2 0.04
29 18 0.40
30 4 0.09
31 18 0.40
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (29 bp):
TAAATATGAAAAGTATAAGGATTAAATTC
Found at i:24313277 original size:13 final size:13
Alignment explanation
Indices: 24313261--24313285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24313251 CGAGAAATTT
24313261 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
24313274 AAAAAAGAAAAA
1 AAAAAAGAAAAA
24313286 CATATAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:24333301 original size:24 final size:24
Alignment explanation
Indices: 24333272--24333319 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24333262 TTAATTGTAA
24333272 TCGTTTTCAACAAGATTGCTTTGG
1 TCGTTTTCAACAAGATTGCTTTGG
24333296 TCGTTTTCAACAAGATTGCTTTGG
1 TCGTTTTCAACAAGATTGCTTTGG
24333320 ACTTACAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (24 bp):
TCGTTTTCAACAAGATTGCTTTGG
Found at i:24334480 original size:34 final size:35
Alignment explanation
Indices: 24334414--24334480 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
24334404 CAAACACCAG
* *
24334414 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
* *
24334449 AAAACATTTTCCA-AAAATTATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
24334481 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:24345723 original size:34 final size:34
Alignment explanation
Indices: 24345680--24345746 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
24345670 ACCAATCGCG
24345680 TATGCAGGACATGGATCCTAAACAATAAAACATA
1 TATGCAGGACATGGATCCTAAACAATAAAACATA
24345714 TATGCAGGACATGGATCCTAAACAATAAAACAT
1 TATGCAGGACATGGATCCTAAACAATAAAACAT
24345747 GAATCAGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (34 bp):
TATGCAGGACATGGATCCTAAACAATAAAACATA
Found at i:24345890 original size:17 final size:17
Alignment explanation
Indices: 24345868--24345911 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
24345858 CTTATAAATA
24345868 AAAAAATTTATTCTATT
1 AAAAAATTTATTCTATT
*
24345885 AAAAAA-TT-TTGTATT
1 AAAAAATTTATTCTATT
24345900 AAATAAATTTAT
1 AAA-AAATTTAT
24345912 ATAACAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 9 0.39
16 5 0.22
17 8 0.35
18 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAAAATTTATTCTATT
Found at i:24346544 original size:42 final size:43
Alignment explanation
Indices: 24346490--24346573 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 43
24346480 TGAATTTTCA
24346490 AAATAATTGATATATATTTATT-TTTTAATTAATTATTATTTT
1 AAATAATTGATATATATTTATTATTTTAATTAATTATTATTTT
* *
24346532 AAATAATTGATATATATTTATTATTTTAGTTAGTTATTATTT
1 AAATAATTGATATATATTTATTATTTTAATTAATTATTATTT
24346574 ATCTTAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 22 0.56
43 17 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (43 bp):
AAATAATTGATATATATTTATTATTTTAATTAATTATTATTTT
Found at i:24347385 original size:32 final size:33
Alignment explanation
Indices: 24347342--24347419 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
24347332 CAAAATAAAT
** *
24347342 TATGAAAAGTTACA-AATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACATAATGCAAAGAGACTTGAA
*
24347374 TATGAAGAGTTA-ATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACATAATGCAAAGAGACTTGAA
*
24347406 GATGAAAAGTTACA
1 TATGAAAAGTTACA
24347420 CACATGCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.03
32 36 0.95
33 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.24
Consensus pattern (33 bp):
TATGAAAAGTTACATAATGCAAAGAGACTTGAA
Found at i:24351896 original size:32 final size:32
Alignment explanation
Indices: 24351853--24351929 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
24351843 CAAAATAAAT
** *
24351853 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
24351885 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
24351917 GATGAAAAGTTAC
1 TATGAAAAGTTAC
24351930 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:24366019 original size:16 final size:15
Alignment explanation
Indices: 24365986--24366015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24365976 GAAATATATA
24365986 ATTTTATATTAAATT
1 ATTTTATATTAAATT
*
24366001 ATTTTATATTTAATT
1 ATTTTATATTAAATT
24366016 TATTATGTTT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTATATTAAATT
Found at i:24373943 original size:42 final size:43
Alignment explanation
Indices: 24373837--24373951 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
24373827 TCGTACAATG
** * **
24373837 CCAATGTCCCAGATGTGGTCTTACATGTAATCAAACAACGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACA
* * * *
24373880 CCACTGTCCCAGACAGGGTCTTACACGTAATCATA-TACGACA
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACA
*
24373922 CCAATGTCCCAAACATGGTCTTACACGTAA
1 CCAATGTCCCAGACATGGTCTTACACGTAA
24373952 ATCTCAAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCAAACAACGACA
Found at i:24375521 original size:37 final size:40
Alignment explanation
Indices: 24375425--24375559 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 40
24375415 GACTTCGAGT
**
24375425 CGATGAGACACTGGGTGTCAATTTACTACTTCAAATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCAAATTAAGC
* * *
24375466 CGATGAGGCACTGGGTGTCAA-TT-TACTTC-GATTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCAAATTAAGC
* * ** *
24375503 CGATGAGACACTGTGTGTCAACTTATTACTTTGAATT-ATC
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCAAATTAAGC
**
24375543 CGATGAGGTACTGGGTG
1 CGATGAGACACTGGGTG
24375560 CCAAACTAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 23 0.30
38 8 0.10
40 23 0.30
41 23 0.30
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCAAATTAAGC
Found at i:24377013 original size:5 final size:5
Alignment explanation
Indices: 24377003--24377073 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
24376993 AAAAAAATAT
* *
24377003 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TCATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA T-ATTA
24377049 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
24377074 GCATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 32 0.58
6 10 0.18
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:24377055 original size:19 final size:19
Alignment explanation
Indices: 24377031--24377073 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
24377021 ATTATGTTTT
24377031 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
24377050 TATATTATATTATATTATA
1 TATATTATATTATATTATA
24377069 TATAT
1 TATAT
24377074 GCATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:24377105 original size:17 final size:17
Alignment explanation
Indices: 24377083--24377116 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24377073 TGCATAAAAC
*
24377083 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
24377100 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
24377117 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:24377112 original size:9 final size:9
Alignment explanation
Indices: 24377083--24377116 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24377073 TGCATAAAAC
24377083 AAAAGAAAG
1 AAAAGAAAG
*
24377092 AATAGAAA-
1 AAAAGAAAG
24377100 AAAAGAAAG
1 AAAAGAAAG
24377109 AAAAGAAA
1 AAAAGAAA
24377117 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:24378169 original size:44 final size:45
Alignment explanation
Indices: 24378074--24378188 Score: 151
Period size: 44 Copynumber: 2.6 Consensus size: 45
24378064 ACAGGACAGA
* *
24378074 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
24378120 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* **
24378164 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
24378189 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:24387253 original size:31 final size:31
Alignment explanation
Indices: 24387218--24387290 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
24387208 CAAAATGATC
24387218 ACTAAATTATTCAAAAGTTTTCATTTAAGTA
1 ACTAAATTATTCAAAAGTTTTCATTTAAGTA
* * *
24387249 ACTAAATTATTCAAGAGTTTTTATTTAAGTT
1 ACTAAATTATTCAAAAGTTTTCATTTAAGTA
*
24387280 ACTAAGTTATT
1 ACTAAATTATT
24387291 AAGTTACCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (31 bp):
ACTAAATTATTCAAAAGTTTTCATTTAAGTA
Found at i:24388362 original size:124 final size:124
Alignment explanation
Indices: 24388125--24388351 Score: 341
Period size: 124 Copynumber: 1.8 Consensus size: 124
24388115 CTTCTACTAG
* * * **
24388125 GATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTTGCTACAGTGGTCAT
1 GATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAGTGGTCAT
*
24388190 GTGAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAATATAAAATCGTTGATACCAT
66 GTGAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAATATAAAATCGTTGATACCAT
* * *
24388249 GATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGTGATTTCACTACAGTTGGTCA
1 GATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAG-TGGTCA
24388314 TGT-AGGAAATAATTTTTTTTGACG-TTTCTGAGCAAATA
65 TGTGA-GAAATAATTTTTTTTGACGTTTTCTGAGCAAATA
24388352 GTGTCAAATC
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
124 64 0.70
125 28 0.30
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (124 bp):
GATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCACTACAGTGGTCAT
GTGAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAATATAAAATCGTTGATACCAT
Found at i:24388414 original size:84 final size:84
Alignment explanation
Indices: 24388273--24388643 Score: 706
Period size: 84 Copynumber: 4.4 Consensus size: 84
24388263 AGAAATTGTG
* *
24388273 AAATCGCGCCCTCGTGGACGTGATTTCACTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
24388338 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
24388357 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
24388422 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
24388441 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
24388506 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
24388525 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
24388590 TTTCTGAGCAAATAGTGTC
66 TTTCTGAGCAAATAGTGTC
* *
24388609 AAATCGTGCCCTTGTGGACGCGATTTCGCTACAGT
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
24388644 AGCAAGTTTG
Statistics
Matches: 283, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 283 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (84 bp):
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG
TTTCTGAGCAAATAGTGTC
Found at i:24395221 original size:28 final size:29
Alignment explanation
Indices: 24395189--24395244 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
24395179 TGAAAATATT
24395189 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAATTTTAAAATTATCTTAAAAAAATA
*
24395217 AAAAATTTTAAAATTTTCTTAAAAAAAT
1 AAAAATTTTAAAATTATCTTAAAAAAAT
24395245 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTTTAAAATTATCTTAAAAAAATA
Found at i:24395316 original size:22 final size:22
Alignment explanation
Indices: 24395286--24395327 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24395276 ATTTGGAGAT
* *
24395286 TTTTTGAAGGAATTTGAGAGGA
1 TTTTGGAAGAAATTTGAGAGGA
24395308 TTTTGGAAGAAATTTGAGAG
1 TTTTGGAAGAAATTTGAGAG
24395328 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (22 bp):
TTTTGGAAGAAATTTGAGAGGA
Found at i:24395369 original size:22 final size:23
Alignment explanation
Indices: 24395329--24395420 Score: 122
Period size: 22 Copynumber: 4.2 Consensus size: 23
24395319 ATTTGAGAGT
24395329 TTGAGAG-AATTTTGAAAGGAAA
1 TTGAGAGAAATTTTGAAAGGAAA
*
24395351 TTGATG-GAAATTTTG-AAGGGAA
1 TTGA-GAGAAATTTTGAAAGGAAA
24395373 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGAAAGGAAA
*
24395395 TTGAGAGAATTTTTGAAA-GAAA
1 TTGAGAGAAATTTTGAAAGGAAA
24395417 TTGA
1 TTGA
24395421 TATTGAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.03
22 49 0.78
23 12 0.19
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGAAAGGAAA
Found at i:24406911 original size:26 final size:25
Alignment explanation
Indices: 24406882--24406930 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
24406872 CTCATTATAT
*
24406882 GGCTCGTCGTGAGCTTCCCGATTAAA
1 GGCTCGTCGTGAGC-TCCCCATTAAA
* *
24406908 GGCTCTTTGTGAGCTCCCCATTA
1 GGCTCGTCGTGAGCTCCCCATTA
24406931 GTGCTCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (25 bp):
GGCTCGTCGTGAGCTCCCCATTAAA
Found at i:24407009 original size:24 final size:24
Alignment explanation
Indices: 24406979--24407027 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24406969 CTTCCCGTTA
* *
24406979 AATTGCTCTTCGGAGCTACCTATT
1 AATTGCTCTTCAGAGCTACCCATT
*
24407003 AATTGCTCTTTAGAGCTACCCATT
1 AATTGCTCTTCAGAGCTACCCATT
24407027 A
1 A
24407028 TAGGCTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (24 bp):
AATTGCTCTTCAGAGCTACCCATT
Found at i:24409858 original size:104 final size:103
Alignment explanation
Indices: 24409666--24409932 Score: 419
Period size: 104 Copynumber: 2.6 Consensus size: 103
24409656 TGTATATAAA
** * *
24409666 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCGTATCTT
*
24409731 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
24409770 AGGGGTTGCTAAGTGCTGATTCCTCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCG-TATCCACCGTATCT
24409835 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
24409874 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGC-GTATCCACCG
24409933 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
103 28 0.19
104 81 0.54
105 41 0.27
106 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCGTATCTTT
GAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:24412072 original size:9 final size:9
Alignment explanation
Indices: 24412048--24412123 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
24412038 TTTGGTTAAA
24412048 AATTAACCG
1 AATTAACCG
* *
24412057 AACTAACCT
1 AATTAACCG
24412066 AATTAACCG
1 AATTAACCG
*
24412075 AATTAACCA
1 AATTAACCG
24412084 AATTAACCG
1 AATTAACCG
24412093 AATT-ACCTG
1 AATTAACC-G
24412102 AATT-ACCTG
1 AATTAACC-G
*
24412111 AATTACCCG
1 AATTAACCG
24412120 AATT
1 AATT
24412124 GAATCATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 3 0.05
9 53 0.91
10 2 0.03
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:24412210 original size:37 final size:37
Alignment explanation
Indices: 24412122--24412196 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
24412112 ATTACCCGAA
* *
24412122 TTGAATCATTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
24412159 TTGAATCACTACATAATTAAAAACATTACGTAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
24412196 T
1 T
24412197 GAAATTAGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.37
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:24412373 original size:38 final size:39
Alignment explanation
Indices: 24412329--24412402 Score: 132
Period size: 38 Copynumber: 1.9 Consensus size: 39
24412319 ACTTAAGAGT
*
24412329 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
24412367 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATT
24412403 AGGTTGGGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 27 0.79
39 7 0.21
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.53
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:24412409 original size:13 final size:13
Alignment explanation
Indices: 24412391--24412420 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24412381 AGTTTTATTG
24412391 GGTTGGGTAATTA
1 GGTTGGGTAATTA
*
24412404 GGTTGGGTAATTG
1 GGTTGGGTAATTA
24412417 GGTT
1 GGTT
24412421 TGGTTGGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
GGTTGGGTAATTA
Found at i:24413226 original size:25 final size:25
Alignment explanation
Indices: 24413191--24413272 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
24413181 TAAGTTCTTT
24413191 CGAGCTGAATAACGAGAAGCTCATG
1 CGAGCTGAATAACGAGAAGCTCATG
* *
24413216 CGAGCTAAATAACGGGAAGCTCATG
1 CGAGCTGAATAACGAGAAGCTCATG
* *
24413241 CGAGCTGAGTATC-AGAAAGCTCATG
1 CGAGCTGAATAACGAG-AAGCTCATG
24413266 CGAGCTG
1 CGAGCTG
24413273 TTGATTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 49 0.98
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
CGAGCTGAATAACGAGAAGCTCATG
Found at i:24417079 original size:30 final size:30
Alignment explanation
Indices: 24417038--24417098 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
24417028 CGATTTGAAG
24417038 TAAGAATCTACGTTCGTTTCCCTGTATTTT
1 TAAGAATCTACGTTCGTTTCCCTGTATTTT
*
24417068 TAAGGATCTACGTTCGTTTCCCTGTATTTT
1 TAAGAATCTACGTTCGTTTCCCTGTATTTT
24417098 T
1 T
24417099 TCCCTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (30 bp):
TAAGAATCTACGTTCGTTTCCCTGTATTTT
Found at i:24422655 original size:20 final size:19
Alignment explanation
Indices: 24422613--24422655 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
24422603 AAATATAAAC
* *
24422613 AATAGAAAACAATATATTA
1 AATAGAAAACAAAATAGTA
24422632 AATAGAAAATCAAAATAGTA
1 AATAGAAAA-CAAAATAGTA
24422652 AATA
1 AATA
24422656 AGTAACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
AATAGAAAACAAAATAGTA
Found at i:24423919 original size:31 final size:31
Alignment explanation
Indices: 24423857--24423921 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
24423847 TATGTTAATT
*
24423857 TATAAGAATTAAATTAAATCAAAATTTTATA
1 TATAAGAATTAAATAAAATCAAAATTTTATA
*
24423888 TATAA-AATTACATAAAATCAAAA-TTTATA
1 TATAAGAATTAAATAAAATCAAAATTTTATA
24423917 TATAA
1 TATAA
24423922 TTTCAAGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 11 0.34
30 16 0.50
31 5 0.16
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (31 bp):
TATAAGAATTAAATAAAATCAAAATTTTATA
Found at i:24425493 original size:27 final size:28
Alignment explanation
Indices: 24425437--24425501 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
24425427 ATAAAAAATA
**
24425437 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACAATTTTTTATTT
24425465 ACCAAAATATTATAA-AATTTTTTATTT
1 ACCAAAATATTATAACAATTTTTTATTT
24425492 ACCAAAATAT
1 ACCAAAATAT
24425502 ACAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
ACCAAAATATTATAACAATTTTTTATTT
Found at i:24425861 original size:20 final size:20
Alignment explanation
Indices: 24425836--24425873 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24425826 ATTTTATTAT
24425836 TAAAGTAAATA-TATTTAACC
1 TAAAGTAAA-ACTATTTAACC
24425856 TAAAGTAAAACTATTTAA
1 TAAAGTAAAACTATTTAA
24425874 AAACGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAAGTAAAACTATTTAACC
Found at i:24426150 original size:19 final size:19
Alignment explanation
Indices: 24426126--24426184 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
24426116 TCTAATTAAG
24426126 TAATAAATCTATTTTAATT
1 TAATAAATCTATTTTAATT
* *
24426145 TAATAAA-CTATTCTCATT
1 TAATAAATCTATTTTAATT
*
24426163 TAATAACTCTATTTTAATT
1 TAATAAATCTATTTTAATT
24426182 TAA
1 TAA
24426185 AAAAATTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAAATCTATTTTAATT
Found at i:24426284 original size:19 final size:19
Alignment explanation
Indices: 24426260--24426318 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
24426250 TCTAATTAAA
24426260 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
24426279 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
24426297 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
24426316 TAA
1 TAA
24426319 AAAAATTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:24426351 original size:134 final size:134
Alignment explanation
Indices: 24426111--24426474 Score: 710
Period size: 134 Copynumber: 2.7 Consensus size: 134
24426101 TAAGATACTT
* *
24426111 AGAATTCTAATTAAGTAATAAATCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
1 AGAATTCTAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
24426176 TTAATTTAAAAAAATTAAGTAAACTATTTTAATTTAATTTTTTAAATTAAAATAGAGTCATTAAA
66 TTAATTTAAAAAAATTAAGTAAACTATTTTAATTTAATTTTTTAAATTAAAATAGAGTCATTAAA
24426241 TGAG
131 TGAG
24426245 AGAATTCTAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
1 AGAATTCTAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
24426310 TTAATTTAAAAAAATTAAGTAAACTATTTTAATTTAATTTTTTAAATTAAAATAGAGTCATTAAA
66 TTAATTTAAAAAAATTAAGTAAACTATTTTAATTTAATTTTTTAAATTAAAATAGAGTCATTAAA
24426375 TGAG
131 TGAG
24426379 AGAATTCTAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
1 AGAATTCTAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
24426444 TTAATTTAAAAAAATTAAGTAAACTATTTTA
66 TTAATTTAAAAAAATTAAGTAAACTATTTTA
24426475 CTTACATACA
Statistics
Matches: 228, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 228 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (134 bp):
AGAATTCTAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
TTAATTTAAAAAAATTAAGTAAACTATTTTAATTTAATTTTTTAAATTAAAATAGAGTCATTAAA
TGAG
Found at i:24426418 original size:19 final size:19
Alignment explanation
Indices: 24426394--24426452 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
24426384 TCTAATTAAA
24426394 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
24426413 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
24426431 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
24426450 TAA
1 TAA
24426453 AAAAATTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:24449662 original size:2 final size:2
Alignment explanation
Indices: 24449655--24449691 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24449645 TATTCTGAAT
24449655 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
24449692 TATAATCATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:24449832 original size:2 final size:2
Alignment explanation
Indices: 24449825--24449852 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24449815 CATTTTTGCA
24449825 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
24449853 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:24449857 original size:2 final size:2
Alignment explanation
Indices: 24449852--24449879 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24449842 GTGTGTGTGT
24449852 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
24449880 CCTTAGTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24450408 original size:47 final size:47
Alignment explanation
Indices: 24450339--24450432 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
24450329 GGAAATATTG
*
24450339 GCAGATAAGTTATGCGCATAAAATATTTTGTTAACTGGTTCCTAAAA
1 GCAGATAAGTCATGCGCATAAAATATTTTGTTAACTGGTTCCTAAAA
24450386 GCAGATAAGTCATGCGCATAAAATATTTTGTTAACTGGTTCCTAAAA
1 GCAGATAAGTCATGCGCATAAAATATTTTGTTAACTGGTTCCTAAAA
24450433 TCTTAGATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (47 bp):
GCAGATAAGTCATGCGCATAAAATATTTTGTTAACTGGTTCCTAAAA
Found at i:24451451 original size:3 final size:3
Alignment explanation
Indices: 24451443--24451483 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
24451433 CCTAGTGAAT
24451443 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24451484 TCAAAATCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24454695 original size:80 final size:79
Alignment explanation
Indices: 24454563--24454719 Score: 269
Period size: 80 Copynumber: 2.0 Consensus size: 79
24454553 TTCAACTTTT
* * *
24454563 TAAAATTTTTTAGAATAATTGAAGTTAAGATACATGTCATTCCTTTGTTTGCCCACGTGTCATGT
1 TAAAATTTTTTAGAATAATTGAAGCTAAGATACATGTCATTCCCTTGTTTGCCCACATGTCATGT
24454628 CCATGTTTAGCCGG
66 CCATGTTTAGCCGG
*
24454642 TAAAATTTTTTTAGAATAATTGAAGCTAGGATACATGTCATTCCCTTGTTTGCCCACATGTCATG
1 TAAAA-TTTTTTAGAATAATTGAAGCTAAGATACATGTCATTCCCTTGTTTGCCCACATGTCATG
24454707 TCCATGTTTAGCC
65 TCCATGTTTAGCC
24454720 ACATTACCAC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 5 0.07
80 68 0.93
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.39
Consensus pattern (79 bp):
TAAAATTTTTTAGAATAATTGAAGCTAAGATACATGTCATTCCCTTGTTTGCCCACATGTCATGT
CCATGTTTAGCCGG
Found at i:24454714 original size:23 final size:23
Alignment explanation
Indices: 24454674--24454723 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
24454664 AAGCTAGGAT
*
24454674 ACATGTCATTCCCTTGTTT-GCCC
1 ACATGTCATTCCCATGTTTAG-CC
24454697 ACATGTCATGT-CCATGTTTAGCC
1 ACATGTCAT-TCCCATGTTTAGCC
24454720 ACAT
1 ACAT
24454724 TACCACATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (23 bp):
ACATGTCATTCCCATGTTTAGCC
Found at i:24457558 original size:14 final size:13
Alignment explanation
Indices: 24457530--24457582 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 13
24457520 TATGTAAAAA
*
24457530 TTTATATTTATTT
1 TTTATATTTAATT
24457543 TTTATACTTTAATT
1 TTTATA-TTTAATT
24457557 TTTAATATAATATAATT
1 TTT-ATAT--T-TAATT
24457574 TTTATATTT
1 TTTATATTT
24457583 TTATAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 7 0.21
14 11 0.32
15 3 0.09
16 5 0.15
17 8 0.24
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTATATTTAATT
Found at i:24462030 original size:79 final size:79
Alignment explanation
Indices: 24461939--24462094 Score: 285
Period size: 79 Copynumber: 2.0 Consensus size: 79
24461929 ACGAGTCAAG
* *
24461939 TCAGGATAAATTATATTTTTAGTGTATAAAAATTAATTTAAAGCAATTTTTAATAAAAAAGATTA
1 TCAGGATAAATTATATTTGTAGTGTATAAAAATTAAATTAAAGCAATTTTTAATAAAAAAGATTA
24462004 AAATAAACTTTACA
66 AAATAAACTTTACA
*
24462018 TCAGGATAAATTATATTTGTAGTGTATAAAAATTAAATTAAAGTAATTTTTAATAAAAAAGATTA
1 TCAGGATAAATTATATTTGTAGTGTATAAAAATTAAATTAAAGCAATTTTTAATAAAAAAGATTA
24462083 AAATAAACTTTA
66 AAATAAACTTTA
24462095 AATATTAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (79 bp):
TCAGGATAAATTATATTTGTAGTGTATAAAAATTAAATTAAAGCAATTTTTAATAAAAAAGATTA
AAATAAACTTTACA
Found at i:24470380 original size:61 final size:61
Alignment explanation
Indices: 24470285--24470406 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
24470275 GGTTAAACTT
24470285 TATATTTTTAGAATCCTGAAAGATCCTATTTTCATGAGAAATAAACGGGAATACCATCCGA
1 TATATTTTTAGAATCCTGAAAGATCCTATTTTCATGAGAAATAAACGGGAATACCATCCGA
24470346 TATATTTTTAGAATCCTGAAAGATCCTATTTTCATGAGAAATAAACGGGAATACCATCCGA
1 TATATTTTTAGAATCCTGAAAGATCCTATTTTCATGAGAAATAAACGGGAATACCATCCGA
24470407 ATTCTGCACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (61 bp):
TATATTTTTAGAATCCTGAAAGATCCTATTTTCATGAGAAATAAACGGGAATACCATCCGA
Found at i:24472836 original size:103 final size:102
Alignment explanation
Indices: 24472655--24473021 Score: 531
Period size: 103 Copynumber: 3.6 Consensus size: 102
24472645 TTGCATATAA
** * * *
24472655 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGATGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
24472720 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
24472758 AGGGGTTGCTAAGTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGTTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
24472822 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * *
24472861 AGGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
24472926 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * *
24472964 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
24473022 AACAACGGTT
Statistics
Matches: 243, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
101 18 0.07
102 9 0.04
103 177 0.73
104 39 0.16
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.31
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:24477427 original size:22 final size:22
Alignment explanation
Indices: 24477399--24477440 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24477389 AGTCCAGTGA
24477399 ATCCACCTCCAGTCCTCCACCG
1 ATCCACCTCCAGTCCTCCACCG
* *
24477421 ATCCACCTTCGGTCCTCCAC
1 ATCCACCTCCAGTCCTCCAC
24477441 AGACCACGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.52, G:0.10, T:0.21
Consensus pattern (22 bp):
ATCCACCTCCAGTCCTCCACCG
Found at i:24482367 original size:24 final size:25
Alignment explanation
Indices: 24482280--24482357 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
24482270 ATTCGGCAAT
*
24482280 GCTCATACGAGCACATA-AACGGAAA
1 GCTCATACGAGC-CATATAACGGGAA
* * *
24482305 GTTCTTTCGAGCCATATAACGGGAA
1 GCTCATACGAGCCATATAACGGGAA
*
24482330 GCTCATACGAGCCA-ATATCGGGAA
1 GCTCATACGAGCCATATAACGGGAA
24482354 GCTC
1 GCTC
24482358 TGGAGAGCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 17 0.39
25 27 0.61
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (25 bp):
GCTCATACGAGCCATATAACGGGAA
Found at i:24482609 original size:105 final size:105
Alignment explanation
Indices: 24482420--24482613 Score: 271
Period size: 105 Copynumber: 1.8 Consensus size: 105
24482410 AAAAACCATA
* * * * * *
24482420 TAACGGGAAGCTCCGGAGAGCCATATATCGAGACACTCATAAGAGTTGTGGTGTGTCCACAACAT
1 TAACAGGAAGCTCAGGAGAGCCAAATATCGAGACACTCATAAGAGCTATGGTGTGTCCACAACAC
24482485 ATGCAGGATCACAACCAATCGGGATGCTTCGAAGAGCTAT
66 ATGCAGGATCACAACCAATCGGGATGCTTCGAAGAGCTAT
* * * * *
24482525 TAACAGGAAGCTCATGAGAGCCAAATATCGGGACGCTCGTAAGAGCTATGGTGTGTCCGCAACAC
1 TAACAGGAAGCTCAGGAGAGCCAAATATCGAGACACTCATAAGAGCTATGGTGTGTCCACAACAC
**
24482590 ATGCAGGATCACAGTCAATCGGGA
66 ATGCAGGATCACAACCAATCGGGA
24482614 ACCTCGTATC
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 76 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (105 bp):
TAACAGGAAGCTCAGGAGAGCCAAATATCGAGACACTCATAAGAGCTATGGTGTGTCCACAACAC
ATGCAGGATCACAACCAATCGGGATGCTTCGAAGAGCTAT
Found at i:24487959 original size:6 final size:6
Alignment explanation
Indices: 24487948--24487982 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
24487938 TAAACCAAGG
*
24487948 TTTTAT TTTTAT TTTTAT TCTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
24487983 AAAGAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:24492672 original size:3 final size:3
Alignment explanation
Indices: 24492652--24492689 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
24492642 GTTAACAAAA
24492652 AAG AA- AAG AA- AA- AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
24492690 TTATTCGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.18
3 27 0.82
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24493655 original size:31 final size:31
Alignment explanation
Indices: 24493577--24493655 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
24493567 CAAATTAAAA
* *
24493577 AAATTTAGGTACCAAACTGAACCTTAAATCC
1 AAATTTAGATACCAAATTGAACCTTAAATCC
*
24493608 AAATTTAGATACCAAATTGAACTTTGAAA-CC
1 AAATTTAGATACCAAATTGAACCTT-AAATCC
*
24493639 AAATTAAGATACCAAAT
1 AAATTTAGATACCAAAT
24493656 AGTATATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 40 0.93
32 3 0.07
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.27
Consensus pattern (31 bp):
AAATTTAGATACCAAATTGAACCTTAAATCC
Found at i:24496254 original size:31 final size:31
Alignment explanation
Indices: 24496199--24496281 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
24496189 TATATAAAAA
* *
24496199 ATTAGATTAATTTATATTTAATGTACTAATT-T
1 ATTAGATT-ATTTAAATATAATGTA-TAATTAT
* *
24496231 ATTAGATTATTTAAATATCATGTATCATTAT
1 ATTAGATTATTTAAATATAATGTATAATTAT
24496262 ATTA-ATT-TTTAAAATATAAT
1 ATTAGATTATTT-AAATATAAT
24496282 TTATCATCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.07
30 15 0.34
31 18 0.41
32 8 0.18
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (31 bp):
ATTAGATTATTTAAATATAATGTATAATTAT
Found at i:24496317 original size:32 final size:30
Alignment explanation
Indices: 24496230--24496310 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
24496220 TGTACTAATT
* * *
24496230 TATTAGATTATTT-AAATATCATGTATCATTA
1 TATTA-ATT-TTTAAAATATAATTTATCATCA
24496261 TATTAATTTTTAAAATATAATTTATCATCA
1 TATTAATTTTTAAAATATAATTTATCATCA
24496291 TATTTAAGTTTTTAAAATAT
1 TA-TTAA-TTTTTAAAATAT
24496311 TTTTTATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 3 0.07
30 20 0.45
31 9 0.20
32 12 0.27
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.51
Consensus pattern (30 bp):
TATTAATTTTTAAAATATAATTTATCATCA
Found at i:24498403 original size:11 final size:11
Alignment explanation
Indices: 24498387--24498411 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24498377 ACTTAGTGTG
24498387 CAAATGAGTTT
1 CAAATGAGTTT
24498398 CAAATGAGTTT
1 CAAATGAGTTT
24498409 CAA
1 CAA
24498412 GCAAGTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (11 bp):
CAAATGAGTTT
Found at i:24500989 original size:25 final size:26
Alignment explanation
Indices: 24500941--24500989 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
24500931 CCCATATATT
*
24500941 GCTCTTTGTGAGCTTTCCGATTATAG
1 GCTCTTTGTGAGCTTCCCGATTATAG
24500967 GCTCTTTGTGAGCTTCCCG-TTAT
1 GCTCTTTGTGAGCTTCCCGATTAT
24500990 TGCTTGCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCCGATTATAG
Found at i:24501067 original size:24 final size:24
Alignment explanation
Indices: 24501035--24501109 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
24501025 TGCTTCCTAA
*
24501035 TTAAGTGCTCTTCAGAGTTACCCG
1 TTAAGTGCTCTTCAGAGCTACCCG
* *
24501059 TTAAGTGCTAC-TCGGAGCTACTCG
1 TTAAGTGCT-CTTCAGAGCTACCCG
*
24501083 TTAAGTGCTCTTCAGAGCTACCTG
1 TTAAGTGCTCTTCAGAGCTACCCG
24501107 TTA
1 TTA
24501110 TATGCTCGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.02
24 41 0.95
25 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (24 bp):
TTAAGTGCTCTTCAGAGCTACCCG
Found at i:24502240 original size:363 final size:363
Alignment explanation
Indices: 24501573--24502281 Score: 1159
Period size: 363 Copynumber: 2.0 Consensus size: 363
24501563 AAATTTTCCA
** *
24501573 TTATACGGGCTTACTAAGTACTAAGTGCTTATTCAGTTGTATGTCCTCTGTTTTATAATTCTCGG
1 TTATACGAACTTACTAAGCACTAAGTGCTTATTCAGTTGTATGTCCTCTGTTTTATAATTCTCGG
* * * *
24501638 AGGCTCATTGGGTTGGAAGCTTGGCGAAGATCACTCACACGATCCACCGGCCCATTTTTGATACA
66 AGGCTCATCGGGTTGGAAGCTTGGAGAAGATCACTCACACGATCCACCGACCCATTTTCGATACA
* *
24501703 AATATGAAACTAATTTTGGTTATAATGGCATGTATAGGTTAACTTAGCCATTGATGGCATATACA
131 AACATGAAACTAATTTTGGTTATAATGGCATGTATAGGTTAACTTAGCCATTGATGACATATACA
* * *
24501768 TTTTTTGGTTGTAAATAGCCATTTAAAGGGCTATGTTTGGTATGTTTTGATGTGTAAATAGTTTT
196 TATTTTGGTTGTAAATAGCCATTTAAAGGGCTATGTTTGGTACGTTTTGATGTGTAAATAGTCTT
* * *
24501833 AATATACTTGATGTGTGTTTGAAATGGTCAAGTGATGGTAAGTACATGAATGAATGGATCAAGAT
261 AATATACTTGATGTGTGTTTGAAATGGTCAAATGATGATAAGTACATGAATAAATGGATCAAGAT
**
24501898 AGGATATTTGATAAAATATGCTATCTTGATCCTCTGTT
326 AACATATTTGATAAAATATGCTATCTTGATCCTCTGTT
* *
24501936 TTATACGAACTTACTAAGCACTAAGTGTTTATTCAGTTGTATTTCCTCTGTTTTATAATTCTCGG
1 TTATACGAACTTACTAAGCACTAAGTGCTTATTCAGTTGTATGTCCTCTGTTTTATAATTCTCGG
* *
24502001 AGGCTCATCGGGTTGGAAGCTTGGTAG-AGATCACTCACACTATCCACCGACCCATTTTCGGTAC
66 AGGCTCATCGGGTTGGAAGCTTGG-AGAAGATCACTCACACGATCCACCGACCCATTTTCGATAC
* * *
24502065 AAGCATGAAACTAATTTTGGTTATAATGGCATGTATAGGTTAACTTGGTCATTGATGACATATAC
130 AAACATGAAACTAATTTTGGTTATAATGGCATGTATAGGTTAACTTAGCCATTGATGACATATAC
24502130 ATATTTTGGTTGTAAATAGCCATTTAAAGGGCTATGTTTGGTACGTTTTGATGTGTAAATAGTCT
195 ATATTTTGGTTGTAAATAGCCATTTAAAGGGCTATGTTTGGTACGTTTTGATGTGTAAATAGTCT
* *
24502195 TAATATACTTGATGTGTGTTTGAAATGGTCAAATGATGATAAGTACATGGATAAATGGATCTAGA
260 TAATATACTTGATGTGTGTTTGAAATGGTCAAATGATGATAAGTACATGAATAAATGGATCAAGA
*
24502260 TAACATATTTGGTAAAATATGC
325 TAACATATTTGATAAAATATGC
24502282 ATATATGTGA
Statistics
Matches: 318, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
363 317 1.00
364 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (363 bp):
TTATACGAACTTACTAAGCACTAAGTGCTTATTCAGTTGTATGTCCTCTGTTTTATAATTCTCGG
AGGCTCATCGGGTTGGAAGCTTGGAGAAGATCACTCACACGATCCACCGACCCATTTTCGATACA
AACATGAAACTAATTTTGGTTATAATGGCATGTATAGGTTAACTTAGCCATTGATGACATATACA
TATTTTGGTTGTAAATAGCCATTTAAAGGGCTATGTTTGGTACGTTTTGATGTGTAAATAGTCTT
AATATACTTGATGTGTGTTTGAAATGGTCAAATGATGATAAGTACATGAATAAATGGATCAAGAT
AACATATTTGATAAAATATGCTATCTTGATCCTCTGTT
Found at i:24504960 original size:42 final size:41
Alignment explanation
Indices: 24504901--24505187 Score: 289
Period size: 42 Copynumber: 7.5 Consensus size: 41
24504891 AATGATTCGG
24504901 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTT-AAATACGGT
* * *
24504943 GGAATCAGCACTTAGCAA-CCAC-T-A-A--T-GATTCGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAATACGGT
24504976 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTT-AAATACGGT
* * *
24505018 GGAATCAGCACTTAGCAA-CCAC-T-A-A--T-GATTCGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAATACGGT
24505051 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTT-AAATACGGT
* * *
24505093 GGAATCAGCACTTAGCAA-CCAC-T-A-A--T-GATTCGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAATACGGT
24505126 GGAATCAGCACTTAGCAACCCCCTTCACATTTTAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACA-TTTAAATACGGT
24505168 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
24505188 ACCAATGATT
Statistics
Matches: 200, Mismatches: 18, Indels: 54
0.74 0.07 0.20
Matches are distributed among these distances:
33 54 0.27
34 24 0.12
35 3 0.01
36 6 0.03
37 3 0.01
38 3 0.01
39 5 0.03
40 4 0.02
41 24 0.12
42 74 0.37
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAATACGGT
Found at i:24504979 original size:75 final size:75
Alignment explanation
Indices: 24504788--24505222 Score: 771
Period size: 75 Copynumber: 5.8 Consensus size: 75
24504778 CAACCGTTAT
* * *
24504788 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
*
24504853 ATTCAAAGATA
66 ATTTAAA-ATA
* *
24504864 TGGTGGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
24504929 ATTTAAAATA
66 ATTTAAAATA
*
24504939 CGGTGGAATCAGCACTTAGCAACCACTAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
24505004 ATTTAAAATA
66 ATTTAAAATA
*
24505014 CGGTGGAATCAGCACTTAGCAACCACTAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
24505079 ATTTAAAATA
66 ATTTAAAATA
*
24505089 CGGTGGAATCAGCACTTAGCAACCACTAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
*
24505154 ATTTTAAATA
66 ATTTAAAATA
24505164 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
24505223 TTGGGGGAAT
Statistics
Matches: 348, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
75 282 0.81
76 66 0.19
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTTAAAATA
Found at i:24506342 original size:11 final size:12
Alignment explanation
Indices: 24506314--24506347 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
24506304 TCCCAAACGT
24506314 CGAAATTTTTGAA
1 CGAAATTTTT-AA
24506327 CGAAATTTTT-A
1 CGAAATTTTTAA
24506338 CGAAATTTTT
1 CGAAATTTTT
24506348 CCACAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:24511101 original size:21 final size:19
Alignment explanation
Indices: 24511061--24511104 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
24511051 CGACTTTTTC
* *
24511061 TTTTTTTTGAAAACACGAA
1 TTTTTTTTAAAAACAAGAA
24511080 TTTTTTTTAAAAATACAAGAA
1 TTTTTTTT-AAAA-ACAAGAA
24511101 TTTT
1 TTTT
24511105 AGAAACACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 3 0.14
21 10 0.48
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
TTTTTTTTAAAAACAAGAA
Found at i:24511177 original size:23 final size:22
Alignment explanation
Indices: 24511134--24511177 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24511124 AAAACGAAAA
24511134 TTTTGAAACACGAGAAATTTTT
1 TTTTGAAACACGAGAAATTTTT
*
24511156 TTTTGAAAAGACGA-AAATTTTT
1 TTTTG-AAACACGAGAAATTTTT
24511178 GAAACCCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTGAAACACGAGAAATTTTT
Found at i:24511508 original size:28 final size:28
Alignment explanation
Indices: 24511460--24511517 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
24511450 TGCCTTATTT
*
24511460 ATTGAAATTATTTAAATTTAAAATA-AA
1 ATTGAAATTAATTAAATTTAAAATATAA
24511487 ATTGAAATTAAATTAAATTTAAAATATAA
1 ATTGAAATT-AATTAAATTTAAAATATAA
24511516 AT
1 AT
24511518 ACAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 9 0.32
28 15 0.54
29 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (28 bp):
ATTGAAATTAATTAAATTTAAAATATAA
Found at i:24511695 original size:24 final size:24
Alignment explanation
Indices: 24511665--24511717 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
24511655 AATTGAACCC
* *
24511665 TTTTTCC-TTCTTTTTTTTTCTTCT
1 TTTTTCCTTTCTTTCTCTTT-TTCT
24511689 TTTTTCCTTTCTTTCTCTTTTTCT
1 TTTTTCCTTTCTTTCTCTTTTTCT
24511713 TTTTT
1 TTTTT
24511718 GCTGGATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTCCTTTCTTTCTCTTTTTCT
Found at i:24511996 original size:7 final size:6
Alignment explanation
Indices: 24511980--24512091 Score: 86
Period size: 6 Copynumber: 18.2 Consensus size: 6
24511970 TATTTTATTA
* *
24511980 TTTTTA TTTTTCC TTTTTC TTTTTC TTTTT- TTTCTC TTTTTC TTTTT-
1 TTTTTC TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * *
24512027 TCTTTC TTTTTC TTTCTTC TTCTTC TTCTTCC TTCTTTC TTTCTTTC TTTTT-
1 TTTTTC TTTTTC TTT-TTC TTTTTC TT-TTTC TT-TTTC -TT-TTTC TTTTTC
* *
24512079 TTTCTC TTCTTC T
1 TTTTTC TTTTTC T
24512092 CTCGGATCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
5 12 0.14
6 48 0.55
7 20 0.23
8 7 0.08
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:24512019 original size:17 final size:17
Alignment explanation
Indices: 24511993--24512091 Score: 89
Period size: 17 Copynumber: 5.8 Consensus size: 17
24511983 TTATTTTTCC
24511993 TTTT-TCTTTTTCTTTT
1 TTTTCTCTTTTTCTTTT
24512009 TTTTCTCTTTTTCTTTT
1 TTTTCTCTTTTTCTTTT
24512026 TTCTT-TCTTTTTCTTTCT
1 TT-TTCTCTTTTTCTTT-T
* * *
24512044 TCTTCTTCTTCTTC-CTT
1 TTTTC-TCTTTTTCTTTT
*
24512061 CTTTCT-TTCTTTCTTTT
1 TTTTCTCTT-TTTCTTTT
*
24512078 TTTTCTCTTCTTCT
1 TTTTCTCTTTTTCT
24512092 CTCGGATCTA
Statistics
Matches: 66, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.03
16 8 0.12
17 42 0.64
18 7 0.11
19 7 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTCTCTTTTTCTTTT
Found at i:24512034 original size:4 final size:4
Alignment explanation
Indices: 24512018--24512076 Score: 53
Period size: 4 Copynumber: 16.8 Consensus size: 4
24512008 TTTTTCTCTT
24512018 TTTC TTT- TTTC TTTC -TT- TTTC TTTC -TTC -TTC -TTC -TTC -TTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
24512058 CTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTT
24512077 TTTTTCTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
3 22 0.44
4 28 0.56
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:24512468 original size:30 final size:29
Alignment explanation
Indices: 24512420--24512563 Score: 121
Period size: 29 Copynumber: 4.9 Consensus size: 29
24512410 CAAACGCATC
* * * *
24512420 AAAACTTTTGGGGCCAAAACATAATTTCA
1 AAAAATTTAGGGGTCAAAATATAATTTCA
*
24512449 AGAAAATTTAGGGGTCAAAATGTAATTTCA
1 A-AAAATTTAGGGGTCAAAATATAATTTCA
* * * *
24512479 AAAAGTTAATGGGTCAAAATGTAATTT-A
1 AAAAATTTAGGGGTCAAAATATAATTTCA
* * *
24512507 AAAAAGTTTAGGGCTTAAAATATAATTTTA
1 AAAAA-TTTAGGGGTCAAAATATAATTTCA
* *
24512537 GGAAAATTTAGGGGTC-AAATGTAATTT
1 -AAAAATTTAGGGGTCAAAATATAATTT
24512564 TTTATTTTTG
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.05
29 51 0.55
30 33 0.35
31 4 0.04
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (29 bp):
AAAAATTTAGGGGTCAAAATATAATTTCA
Done.