Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 100 of 205
Found at i:29293563 original size:21 final size:21
Alignment explanation
Indices: 29293524--29293565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29293514 ATTGGAAAAG
**
29293524 GAGAGAAAAAAGATGAGAGAA
1 GAGAGAAAAAAGAAAAGAGAA
*
29293545 GAGAGTAAAAAGAAAAGAGAA
1 GAGAGAAAAAAGAAAAGAGAA
29293566 ACAAAACAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (21 bp):
GAGAGAAAAAAGAAAAGAGAA
Found at i:29294584 original size:28 final size:28
Alignment explanation
Indices: 29294548--29294613 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
29294538 CCTTGAGATT
* *
29294548 TTAGGTGTTAAATGATTAATTTGAAATA
1 TTAGTTGTTAAATGATAAATTTGAAATA
* *
29294576 TTATTTGTTAAATGATAAATTTTAAATA
1 TTAGTTGTTAAATGATAAATTTGAAATA
29294604 TTAGTTGTTA
1 TTAGTTGTTA
29294614 TTTAAAAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (28 bp):
TTAGTTGTTAAATGATAAATTTGAAATA
Found at i:29294885 original size:29 final size:29
Alignment explanation
Indices: 29294850--29295091 Score: 199
Period size: 29 Copynumber: 8.4 Consensus size: 29
29294840 TCATCGACCA
29294850 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * * *
29294879 ATGAAAAGGGATAGTTTTGGCCATTGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* *
29294908 ATG-AAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
29294936 ATGAATAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * *
29294965 ATGAAAAGGGAT-GGTGACGACCATCAACT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
* * * *
29294994 ATG-AAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
*
29295022 ATGAAAAGGGATAGCTTC-AGCTGTCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
* * *
29295051 ATGAAAATGGACAGC-TCTAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
*
29295080 ATAAAAAGGGAT
1 ATGAAAAGGGAT
29295092 GGTGGCGACC
Statistics
Matches: 175, Mismatches: 32, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
28 55 0.31
29 118 0.67
30 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:29294968 original size:57 final size:58
Alignment explanation
Indices: 29294850--29295066 Score: 194
Period size: 57 Copynumber: 3.8 Consensus size: 58
29294840 TCATCGACCA
* * * * *
29294850 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTTTTGGCCATTGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACCATCGAAT
* * * *
29294908 ATG-AAAGGGATAGCTTCGGCTATCGAATATGAATAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACCATCGAAT
* * * * *
29294965 ATGAAAAGGGAT-GGTGACGACCATC-AACTATG-AAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-TATGAAAAGGGATAGCT-TCGACCATCGAAT
* * * *
29295022 ATGAAAAGGGATAGCTTC-AGCTGTCGATTATGAAAATGGACAGCT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATATGAAAAGGGATAGCT
29295067 CTAGCTATCG
Statistics
Matches: 124, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
56 3 0.02
57 89 0.72
58 30 0.24
59 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACCATCGAAT
Found at i:29294997 original size:86 final size:86
Alignment explanation
Indices: 29294850--29295057 Score: 260
Period size: 86 Copynumber: 2.4 Consensus size: 86
29294840 TCATCGACCA
*** * *
29294850 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTTTTGGCCATTGAATATGAAAG
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTGACGACCATTCAATATGAAAG
* * *
29294915 GGATAGCT-TCGGCTATCGAAT
66 GGAT-GCTGACGACCATCGAAT
* *
29294936 ATGAATAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCA-TCAACTATGAAA
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTGACGACCATTCAA-TATGAAA
*
29295000 GGGATGGTGACGACCATCGAAT
65 GGGATGCTGACGACCATCGAAT
*
29295022 ATGAAAAGGGATAGCTTC-AGCTGTCGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGA-CTATCGATTATGAAAA
29295058 TGGACAGCTC
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
85 6 0.06
86 100 0.94
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (86 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTGACGACCATTCAATATGAAAG
GGATGCTGACGACCATCGAAT
Found at i:29295030 original size:115 final size:116
Alignment explanation
Indices: 29294899--29295177 Score: 357
Period size: 115 Copynumber: 2.4 Consensus size: 116
29294889 ATAGTTTTGG
* * * *
29294899 CCATTGAATATG-AAAGGGATAGCTTCGGCTATCGAATATGAATAGGGATAGCTTCGA-CTATCG
1 CCATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGACAGC-TCGAGCTATCG
* *
29294962 ATTATGAAAAGGGATGGTGACGACCATCAACTATG-AAAGGGATGGTGACGA
65 ATTATAAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAA
* * * *
29295013 CCATCGAATATGAAAAGGGATAGCTTCAGCTGTCGATTATGAAAATGGACAGCTCTAGCTATCGA
1 CCATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGACAGCTCGAGCTATCGA
* *
29295078 TTATAAAAAGGGATGGTGGCGACCATCAACTATGAAAAGGGTTGGTGACAA
66 TTATAAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAA
* * * * * *
29295129 CCATCGATTAATTAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGG
1 CCATCGAAT-ATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGG
29295178 TCGGTTACAA
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
114 14 0.10
115 73 0.52
116 22 0.16
117 31 0.22
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (116 bp):
CCATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGACAGCTCGAGCTATCGA
TTATAAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAA
Found at i:29295148 original size:30 final size:29
Alignment explanation
Indices: 29294958--29295177 Score: 151
Period size: 29 Copynumber: 7.6 Consensus size: 29
29294948 AGCTTCGACT
*
29294958 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* * *
29294987 ATCAACTATG-AAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* * * * *
29295015 ATCGAATATGAAAAGGGATAGCT-TCAGCT
1 ATCGATTATGAAAAGGGAT-GGTGACAACC
* * * * * *
29295044 GTCGATTATGAAAATGGACAGCT--CTAGCT
1 ATCGATTATGAAAAGGGA-TGGTGAC-AACC
* * *
29295073 ATCGATTATAAAAAGGGATGGTGGCGACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* * *
29295102 ATCAACTATGAAAAGGGTTGGTGACAACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* **
29295131 ATCGATTAATTAAAAGGGATGGTTTCAACC
1 ATCGATT-ATGAAAAGGGATGGTGACAACC
*
29295161 ATCGAATATGAAAAGGG
1 ATCGATTATGAAAAGGG
29295178 TCGGTTACAA
Statistics
Matches: 149, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
28 29 0.19
29 93 0.62
30 27 0.18
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGACAACC
Found at i:29295162 original size:59 final size:58
Alignment explanation
Indices: 29295073--29295193 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 58
29295063 AGCTCTAGCT
* *
29295073 ATCGATTATAAAAAGGGATGGTGGCGACCATC-AACTATGAAAAGGGTTGGTGACAACC
1 ATCGATTATAAAAAGGGATGGTGGCAACCATCGAA-TATGAAAAGGGTCGGTGACAACC
* ** * *
29295131 ATCGATTAATTAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGTCGGTTACAACT
1 ATCGATT-ATAAAAAGGGATGGTGGCAACCATCGAATATGAAAAGGGTCGGTGACAACC
29295190 ATCG
1 ATCG
29295194 TTTAGCACAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 7 0.13
59 45 0.83
60 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (58 bp):
ATCGATTATAAAAAGGGATGGTGGCAACCATCGAATATGAAAAGGGTCGGTGACAACC
Found at i:29295183 original size:29 final size:28
Alignment explanation
Indices: 29295099--29295193 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 28
29295089 GATGGTGGCG
*
29295099 ACCATC-AACTATGAAAAGGGTTGGTGACA
1 ACCATCGAA-TATGAAAAGGG-TGGTTACA
* * *
29295128 ACCATCGATTAATTAAAAGGGATGGTTTCA
1 ACCATCGAAT-ATGAAAAGGG-TGGTTACA
29295158 ACCATCGAATATGAAAAGGGTCGGTTACA
1 ACCATCGAATATGAAAAGGGT-GGTTACA
*
29295187 ACTATCG
1 ACCATCG
29295194 TTTAGCACAC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.52
30 25 0.46
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (28 bp):
ACCATCGAATATGAAAAGGGTGGTTACA
Found at i:29296252 original size:20 final size:20
Alignment explanation
Indices: 29296227--29296265 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29296217 AACATTAAAA
29296227 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
29296247 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
29296266 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:29297420 original size:27 final size:27
Alignment explanation
Indices: 29297381--29297434 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
29297371 TACAAGCTAT
29297381 AAATCGGTATGC-TCACACGAGATGTGA
1 AAATCGGTATGCTTC-CACGAGATGTGA
* * *
29297408 AAATGGGTCTGCTTCCACGAGCTGTGA
1 AAATCGGTATGCTTCCACGAGATGTGA
29297435 GTCAGAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (27 bp):
AAATCGGTATGCTTCCACGAGATGTGA
Found at i:29319008 original size:37 final size:37
Alignment explanation
Indices: 29318948--29319027 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
29318938 ACACACAAGC
* * *
29318948 AATCTAACCGAAAACACGCCAAATACTCATAAGATCT
1 AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
* * *
29318985 AATCCAACCAAAAACACGTCAAATGCTCGTAAGACCT
1 AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
29319022 AATCCA
1 AATCCA
29319028 CCTGATAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.29, G:0.09, T:0.17
Consensus pattern (37 bp):
AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
Found at i:29320833 original size:18 final size:20
Alignment explanation
Indices: 29320800--29320840 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
29320790 GACTAAATTG
29320800 AATATTTATGAAAAATGT-A
1 AATATTTATGAAAAATGTGA
*
29320819 AATATTTAT-ACAAATGTGA
1 AATATTTATGAAAAATGTGA
29320838 AAT
1 AAT
29320841 TGAGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (20 bp):
AATATTTATGAAAAATGTGA
Found at i:29332427 original size:26 final size:26
Alignment explanation
Indices: 29332374--29332428 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
29332364 AACACACCAA
* * *
29332374 TATCGCAGCAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGATACCAATAACAG
* *
29332400 TATCGCAGCAAAGATGCTAATAACAG
1 TATCGCAGCAAAGATACCAATAACAG
29332426 TAT
1 TAT
29332429 ACTACCTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGATACCAATAACAG
Found at i:29332596 original size:27 final size:26
Alignment explanation
Indices: 29332565--29332651 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
29332555 GGCCATATTA
*
29332565 GTCATTTCATCTCT-TAGGGGTGTTTTC
1 GTCATTTCATC-CTATAGGGGT-ATTTC
*
29332592 GTCATTTTATCCTATAGGGGTATTTC
1 GTCATTTCATCCTATAGGGGTATTTC
* * *
29332618 GATCATTTTA-CACTATTGGTGTATTTC
1 G-TCATTTCATC-CTATAGGGGTATTTC
29332645 GGTCATT
1 -GTCATT
29332652 CATTGACCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
26 8 0.15
27 43 0.83
28 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.47
Consensus pattern (26 bp):
GTCATTTCATCCTATAGGGGTATTTC
Found at i:29337454 original size:41 final size:42
Alignment explanation
Indices: 29337401--29337498 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
29337391 CCACTATCCG
*
29337401 AGACA-GGTTCTTACACGTAACA-AA-TACGATG-CTAATGTCCC
1 AGACATGG-TCTTACACGTAACACAAGT-CGATGTC-AATGCCCC
*
29337442 AGACATGGTCTTAAACGTAACACAAGTCGATGTCAATGCCCC
1 AGACATGGTCTTACACGTAACACAAGTCGATGTCAATGCCCC
*
29337484 AGACGTGGTCTTACA
1 AGACATGGTCTTACA
29337499 TGATAACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
41 18 0.37
42 29 0.59
43 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (42 bp):
AGACATGGTCTTACACGTAACACAAGTCGATGTCAATGCCCC
Found at i:29338955 original size:6 final size:6
Alignment explanation
Indices: 29338944--29338982 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
29338934 TTTGCAACCC
* * *
29338944 AAGGGG AAGGGG AAGGGG AAGGGC AAGAGG AAAGGG AAG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAG
29338983 AAGAAGGCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.56, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:29338988 original size:24 final size:24
Alignment explanation
Indices: 29338943--29338989 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
29338933 ATTTGCAACC
* * **
29338943 CAAGGGGAAGGGGAAGGGGAAGGG
1 CAAGAGGAAAGGGAAGAAGAAGGG
29338967 CAAGAGGAAAGGGAAGAAGAAGG
1 CAAGAGGAAAGGGAAGAAGAAGG
29338990 CGTCATTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.53, T:0.00
Consensus pattern (24 bp):
CAAGAGGAAAGGGAAGAAGAAGGG
Found at i:29339909 original size:35 final size:35
Alignment explanation
Indices: 29339869--29339937 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
29339859 TTGCAATTCA
29339869 CTCTTTCAACTTGCCCATTAGACTGGGGGTGATAG
1 CTCTTTCAACTTGCCCATTAGACTGGGGGTGATAG
* * *
29339904 CTCTTTCCACTTGCCTATTAGACTTGGGGTGATA
1 CTCTTTCAACTTGCCCATTAGACTGGGGGTGATA
29339938 AGCAGTAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (35 bp):
CTCTTTCAACTTGCCCATTAGACTGGGGGTGATAG
Found at i:29343876 original size:48 final size:48
Alignment explanation
Indices: 29343808--29343907 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
29343798 GAAACTACTT
*
29343808 CAAACAGACTTGGTGTGTAACACCTCTTACCTGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
*
29343856 CAAACAGACTTGGTGTGTAACACCTTTTACCCGTATTCATCATCGAAA
1 CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
29343904 CAAA
1 CAAA
29343908 GTAAGAAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (48 bp):
CAAACAGACTTGGTGTGTAACACCTCTTACCCGTATTCATCATCGAAA
Found at i:29345385 original size:51 final size:50
Alignment explanation
Indices: 29345192--29345536 Score: 336
Period size: 51 Copynumber: 6.8 Consensus size: 50
29345182 ACTTTTATCA
*
29345192 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
29345241 TTACGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * *
29345291 TTACGGTTCACGCAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * *
29345343 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
29345393 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACGAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAGCTT
* * * * * * * ***
29345445 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACTATTATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * *
29345495 GATCAATACACGTAGTAGCCTTCACACAGTACTATACACGTG
1 -TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
29345537 TTCATCAATA
Statistics
Matches: 249, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.02
50 93 0.37
51 144 0.58
52 6 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:29345430 original size:102 final size:102
Alignment explanation
Indices: 29345193--29345536 Score: 424
Period size: 102 Copynumber: 3.4 Consensus size: 102
29345183 CTTTTATCAT
* * * * *
29345193 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGATTCACGTAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
29345256 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
29345294 -CGGTTCACGCAGTACCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
29345358 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
29345395 TCGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACGAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
* * *
29345460 AGCCTTCACTTAGTACTACACATGTGACTATTATTGA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
29345497 TCAATACACGTAGTAGCCTTCACACAGTACTATACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
29345537 TTCATCAATA
Statistics
Matches: 211, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
100 37 0.18
101 44 0.21
102 130 0.62
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:29350604 original size:100 final size:100
Alignment explanation
Indices: 29350481--29350666 Score: 336
Period size: 100 Copynumber: 1.9 Consensus size: 100
29350471 AAACAGCAAA
* *
29350481 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACGGCAAGAAAA
1 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
*
29350546 GAGGGATTTTGTGAATCAAAACATTTTTTGTGAAT
66 GAGCGATTTTGTGAATCAAAACATTTTTTGTGAAT
*
29350581 CAAATTAACAATCAGATTGCGAAATCCATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
1 CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
29350646 GAGCGATTTTGTGAATCAAAA
66 GAGCGATTTTGTGAATCAAAA
29350667 TGTTTCTTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.27
Consensus pattern (100 bp):
CAAATTAACAATCAGATTGCGAAATCAATTGGAATTAGATCTAGGGATTTGGGACAGAAAGAAAA
GAGCGATTTTGTGAATCAAAACATTTTTTGTGAAT
Found at i:29358938 original size:40 final size:40
Alignment explanation
Indices: 29358883--29359119 Score: 305
Period size: 40 Copynumber: 5.9 Consensus size: 40
29358873 GATTCAAGGT
* * *
29358883 TACCAAAGTATAAACAAGGGCACGTAGGTGCATTTAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* *
29358923 TACCAAAGTACAAACAGGGGCAGGTATGTGCATTCAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* * * *
29358963 TACCGAAGTACAAAAAGGGCCACGTATGTGCATTCAAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATT-TAGGGG
* * * *
29359004 -ACTAAAATACAAACAGGGGTACATATGTGCATTTAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* *
29359043 TACCAAAGTACAAACAGGGGCACGCATGTGCATTCAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
* *
29359083 TACCGAAGTACAAACAGGGGCACGCATGTGCATTTAG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTTAG
29359120 ACAATAATTA
Statistics
Matches: 169, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 5 0.03
40 159 0.94
41 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (40 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGG
Found at i:29359061 original size:20 final size:19
Alignment explanation
Indices: 29359038--29359102 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
29359028 ATGTGCATTT
29359038 AGGGGTACCAAAGTACAAAC
1 AGGGGTACC-AAGTACAAAC
* * * **
29359058 AGGGGCACGCATGTGCATTC
1 AGGGGTAC-CAAGTACAAAC
29359078 AGGGGTACCGAAGTACAAAC
1 AGGGGTACC-AAGTACAAAC
29359098 AGGGG
1 AGGGG
29359103 CACGCATGTG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.34, T:0.12
Consensus pattern (19 bp):
AGGGGTACCAAGTACAAAC
Found at i:29365711 original size:41 final size:42
Alignment explanation
Indices: 29365622--29365757 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
29365612 ATCCCAAATG
* * * * **
29365622 TGGTTTTACATGTAATCACATATCGATGCCACTGTCTCAGATG
1 TGGTCTTACATGTAA-CACAAATCGATGCCAATGTCCCAGACA
*
29365665 GGGTCTTACATG-AA-ACAAATACGATGCCAATGTCCCAGACA
1 TGGTCTTACATGTAACACAAAT-CGATGCCAATGTCCCAGACA
* * * *
29365706 TGGTCTTACATGTAACACAAGTTGATGCCAATGTCCTAGACG
1 TGGTCTTACATGTAACACAAATCGATGCCAATGTCCCAGACA
*
29365748 TGCTCTTACA
1 TGGTCTTACA
29365758 CAATAACATA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
40 5 0.06
41 27 0.35
42 30 0.39
43 15 0.19
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (42 bp):
TGGTCTTACATGTAACACAAATCGATGCCAATGTCCCAGACA
Found at i:29365739 original size:42 final size:41
Alignment explanation
Indices: 29365621--29365757 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
29365611 CATCCCAAAT
* * * *
29365621 GTGGTTTTACATGTAATCACATATCGATGCCACTGTCTCAGAT
1 GTGGTCTTACATGTAA-CACA-ATCGATGCCAATGTCCCAGAC
* *
29365664 GGGGTCTTACATGAAACA-AATACGATGCCAATGTCCCAGAC
1 GTGGTCTTACATGTAACACAAT-CGATGCCAATGTCCCAGAC
* * *
29365705 ATGGTCTTACATGTAACACAAGTTGATGCCAATGTCCTAGAC
1 GTGGTCTTACATGTAACACAA-TCGATGCCAATGTCCCAGAC
*
29365747 GTGCTCTTACA
1 GTGGTCTTACA
29365758 CAATAACATA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.03
41 32 0.41
42 30 0.38
43 14 0.18
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
GTGGTCTTACATGTAACACAATCGATGCCAATGTCCCAGAC
Found at i:29369441 original size:79 final size:79
Alignment explanation
Indices: 29369299--29369569 Score: 312
Period size: 79 Copynumber: 3.4 Consensus size: 79
29369289 TCACAGTTAC
* * * * * * ** *
29369299 CAAAGTATAAATAGGGGCACATATATGCATTCAGGGTACTGAAGTACAAACAAAGGCATGTATGT
1 CAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTGAAATACAAACAGGGGCACGTATGT
29369364 GCATTTAG-GGTAT
66 GCATTTAGAGGTAT
* *
29369377 TAAAGTACAAACAGGGGCATGTATGTGCATTTAGGGGTACTGAAATACAAACAGGGGCACGTATG
1 CAAAGTACAAACAGGGGCACGTATGTGCATTTA-GGGTACTGAAATACAAACAGGGGCACGTATG
*
29369442 TACATTTAGCA-GTAT
65 TGCATTTAG-AGGTAT
* * * * * * *
29369457 CGAAGTACAAGCAAGGGCACGTATGTGAATTTAGGGTACTAAAATGCAAAGAGGGGCACGTATGT
1 CAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTGAAATACAAACAGGGGCACGTATGT
*
29369522 GCATTTAGAGGTAC
66 GCATTTAGAGGTAT
* *
29369536 CGAAGTACAAACAGGGGCACGTATGTCCATTTAG
1 CAAAGTACAAACAGGGGCACGTATGTGCATTTAG
29369570 ACAATAATTA
Statistics
Matches: 162, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 27 0.17
79 104 0.64
80 31 0.19
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (79 bp):
CAAAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTGAAATACAAACAGGGGCACGTATGT
GCATTTAGAGGTAT
Found at i:29369550 original size:119 final size:119
Alignment explanation
Indices: 29369339--29369569 Score: 345
Period size: 119 Copynumber: 1.9 Consensus size: 119
29369329 TCAGGGTACT
* * * * *
29369339 GAAGTACAAACAAAGGCATGTATGTGCATTTAGGGTATTAAAGTACAAACAGGGGCATGTATGTG
1 GAAGTACAAACAAAGGCACGTATGTGAATTTAGGGTACTAAAATACAAACAGGGGCACGTATGTG
* *
29369404 CATTTAGGGGTACTGAAATACAAACAGGGGCACGTATGTACATTTAGCAGTATC
66 CATTTAGAGGTACCGAAATACAAACAGGGGCACGTATGTACATTTAGCAGTATC
* * * *
29369458 GAAGTACAAGCAAGGGCACGTATGTGAATTTAGGGTACTAAAATGCAAAGAGGGGCACGTATGTG
1 GAAGTACAAACAAAGGCACGTATGTGAATTTAGGGTACTAAAATACAAACAGGGGCACGTATGTG
* *
29369523 CATTTAGAGGTACCGAAGTACAAACAGGGGCACGTATGTCCATTTAG
66 CATTTAGAGGTACCGAAATACAAACAGGGGCACGTATGTACATTTAG
29369570 ACAATAATTA
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
119 99 1.00
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (119 bp):
GAAGTACAAACAAAGGCACGTATGTGAATTTAGGGTACTAAAATACAAACAGGGGCACGTATGTG
CATTTAGAGGTACCGAAATACAAACAGGGGCACGTATGTACATTTAGCAGTATC
Found at i:29369570 original size:40 final size:39
Alignment explanation
Indices: 29369301--29369569 Score: 288
Period size: 40 Copynumber: 6.8 Consensus size: 39
29369291 ACAGTTACCA
* * * * *
29369301 AAGTATAAATAGGGGCACATATATGCATTCAGGGTACTG
1 AAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTG
** * * *
29369340 AAGTACAAACAAAGGCATGTATGTGCATTTAGGGTATTA
1 AAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTG
*
29369379 AAGTACAAACAGGGGCATGTATGTGCATTTAGGGGTACTG
1 AAGTACAAACAGGGGCACGTATGTGCATTTA-GGGTACTG
* * *
29369419 AAATACAAACAGGGGCACGTATGTACATTTAGCAGTA-TCG
1 AAGTACAAACAGGGGCACGTATGTGCATTTAG-GGTACT-G
* * * *
29369459 AAGTACAAGCAAGGGCACGTATGTGAATTTAGGGTACTA
1 AAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTG
* * * *
29369498 AAATGCAAAGAGGGGCACGTATGTGCATTTAGAGGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCATTTAG-GGTACTG
*
29369538 AAGTACAAACAGGGGCACGTATGTCCATTTAG
1 AAGTACAAACAGGGGCACGTATGTGCATTTAG
29369570 ACAATAATTA
Statistics
Matches: 188, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
39 89 0.47
40 99 0.53
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (39 bp):
AAGTACAAACAGGGGCACGTATGTGCATTTAGGGTACTG
Found at i:29375531 original size:40 final size:40
Alignment explanation
Indices: 29375448--29375790 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
29375438 TTGAATGCTG
* * * * * *
29375448 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
29375488 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
29375528 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29375568 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29375608 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
29375648 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
29375688 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29375728 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
29375767 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29375791 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:29383702 original size:39 final size:40
Alignment explanation
Indices: 29383498--29383720 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
29383488 TTGAATGCTG
* * * * *
29383498 TCCGGGCTAAGTCCCGAAGGCATT-GTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
29383538 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
29383578 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
29383618 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
29383658 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
29383697 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
29383721 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 120 0.75
41 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:29383740 original size:79 final size:80
Alignment explanation
Indices: 29383573--29383755 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
29383563 GTGCGAGATA
* * *
29383573 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
29383638 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
29383653 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
29383717 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
29383732 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
29383756 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:29386264 original size:37 final size:39
Alignment explanation
Indices: 29386202--29386282 Score: 121
Period size: 38 Copynumber: 2.1 Consensus size: 39
29386192 ATTCTACTTT
* *
29386202 TTCATAATATCACTTTTTCACTTTCAA-TCAATATTCAA
1 TTCAAAATATCACTTTGTCACTTTCAAGTCAATATTCAA
*
29386240 TTCAAAAT-TCACTTTGTCATTTTCAAGTCAATATTCAA
1 TTCAAAATATCACTTTGTCACTTTCAAGTCAATATTCAA
29386278 TTCAA
1 TTCAA
29386283 TTCCACACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 16 0.41
38 23 0.59
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (39 bp):
TTCAAAATATCACTTTGTCACTTTCAAGTCAATATTCAA
Found at i:29386603 original size:51 final size:51
Alignment explanation
Indices: 29386473--29386767 Score: 251
Period size: 51 Copynumber: 5.8 Consensus size: 51
29386463 ACTTTTATCA
* * * * *
29386473 TTCGATACACGTAGTATCCTTCACATAGTACTATACACGTGATCAAGT-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATATT
** * *
29386523 GACGGTTCACGTAGTAGCCTTCACATAGTACTACACACCTGACCAAATATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATATT
* * *
29386574 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAT-ATT
* * * * **
29386624 TATCGATTCACGTAGTAGCCTTCACATAGTACTAAACACGTAACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATATT
* * * * *
29386676 CTT-GGTACACATTGTAGCCTTCACTTAGTACTACATATGTGACC--ATCATT
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAT-ATT
** * * *
29386726 TATCTATTCATGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTG
29386768 TTCATCGATA
Statistics
Matches: 190, Mismatches: 46, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
49 4 0.02
50 46 0.24
51 135 0.71
52 3 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATATT
Found at i:29386765 original size:102 final size:102
Alignment explanation
Indices: 29386528--29386766 Score: 372
Period size: 102 Copynumber: 2.3 Consensus size: 102
29386518 AGTTTGACGG
* * *
29386528 TTCACGTAGTAGCCTTCACATAGTACTACACACCTGACCAAATATTTTCGGTACACATAGTAGCC
1 TTCACGTAGTAGCCTTCACATAGTACTACACACGTAACCAAAGATTTTCGGTACACATAGTAGCC
29386593 TTCACTTAGTACTACACATGTGACCATCATTTATCGA
66 TTCACTTAGTACTACACATGTGACCATCATTTATCGA
* * *
29386630 TTCACGTAGTAGCCTTCACATAGTACTAAACACGTAACCAAAGCTTCTT-GGTACACATTGTAGC
1 TTCACGTAGTAGCCTTCACATAGTACTACACACGTAACCAAAGATT-TTCGGTACACATAGTAGC
* *
29386694 CTTCACTTAGTACTACATATGTGACCATCATTTATCTA
65 CTTCACTTAGTACTACACATGTGACCATCATTTATCGA
* *
29386732 TTCATGTAGTAGCCTTCACACAGTACTACACACGT
1 TTCACGTAGTAGCCTTCACATAGTACTACACACGT
29386767 GTTCATCGAT
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
102 123 0.98
103 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (102 bp):
TTCACGTAGTAGCCTTCACATAGTACTACACACGTAACCAAAGATTTTCGGTACACATAGTAGCC
TTCACTTAGTACTACACATGTGACCATCATTTATCGA
Found at i:29393596 original size:46 final size:46
Alignment explanation
Indices: 29393546--29393639 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
29393536 ATAGTATGTC
*
29393546 GTTCATCATATACCAAGGTTCCTATCATCCTTTATAGTGGGTCAAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
* * * *
29393592 GTTCATCATATACGAGGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
29393638 GT
1 GT
29393640 CTTTTCTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCAAG
Found at i:29395614 original size:50 final size:50
Alignment explanation
Indices: 29395496--29395788 Score: 397
Period size: 50 Copynumber: 5.8 Consensus size: 50
29395486 GATAATAACA
* * ** *
29395496 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGTATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
29395547 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * * *
29395597 TGCCAACGCAATCTCCCAGACATCGTTTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
29395647 TGCTAATACCATGTCCCAGACATTGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
29395697 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
29395747 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29395789 TTACCCAAAT
Statistics
Matches: 212, Mismatches: 30, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
50 179 0.84
51 33 0.16
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:29396894 original size:13 final size:13
Alignment explanation
Indices: 29396878--29396903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29396868 TTTGAACGAA
29396878 ATTTTCATGAAAT
1 ATTTTCATGAAAT
29396891 ATTTTCATGAAAT
1 ATTTTCATGAAAT
29396904 TGTAGGCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTCATGAAAT
Found at i:29397792 original size:21 final size:21
Alignment explanation
Indices: 29397768--29397832 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
29397758 GAACAAATCC
*
29397768 AAAATGAAATTGAGAAAAGAA
1 AAAAAGAAATTGAGAAAAGAA
29397789 AAAAAGAAA-TGAGAGAAA-AA
1 AAAAAGAAATTGAGA-AAAGAA
*
29397809 GAAAAAGACATTGA-AAAAGAA
1 -AAAAAGAAATTGAGAAAAGAA
29397830 AAA
1 AAA
29397833 GAGAGTGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 13 0.34
21 22 0.58
22 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (21 bp):
AAAAAGAAATTGAGAAAAGAA
Found at i:29402233 original size:20 final size:20
Alignment explanation
Indices: 29402219--29402283 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
29402209 CAGCTCACTT
*
29402219 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAACTCATTC
29402239 GAGCTCAAGTCAACTCATTC
1 GAGCTCAAGTCAACTCATTC
*
29402259 GAGCTCAATTCAACTCATT-
1 GAGCTCAAGTCAACTCATTC
29402278 GAGCTC
1 GAGCTC
29402284 GTTATTAGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (20 bp):
GAGCTCAAGTCAACTCATTC
Found at i:29406735 original size:18 final size:19
Alignment explanation
Indices: 29406712--29406753 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
29406702 AACCTATAAC
* *
29406712 AAATAAATAC-ACTAAGTT
1 AAATAAAGACTACTAAGTA
29406730 AAAT-AAGACTACTAAGTA
1 AAATAAAGACTACTAAGTA
29406748 AAATAA
1 AAATAA
29406754 CCAAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 15 0.75
19 1 0.05
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATAAAGACTACTAAGTA
Found at i:29415378 original size:80 final size:79
Alignment explanation
Indices: 29415237--29415394 Score: 183
Period size: 80 Copynumber: 2.0 Consensus size: 79
29415227 CACATCAATT
* ** ** *
29415237 TGTGGATAAGCCACCAACAATACAGATAAATGCCAGAAATGTGGACAAGCCATTAGTATTGCAGA
1 TGTGGACAAGCCACCAACAATACAGATAAATGCCAGAAATGTGGACAAGCCACCAAAATTGCAAA
*
29415302 CGAGCTACCAGTAA
66 CAAGCTACCAGTAA
* * * *
29415316 TGTGGACAAGCTACCAATAATGCAGATAAATTGCCA-ATATTGTGGACAAGCCACCAAAATTGCA
1 TGTGGACAAGCCACCAACAATACAGATAAA-TGCCAGA-AATGTGGACAAGCCACCAAAATTGCA
*
29415380 AACAAGCTGCCAGTA
64 AACAAGCTACCAGTA
29415395 CTTCTTCCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 27 0.42
80 38 0.58
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (79 bp):
TGTGGACAAGCCACCAACAATACAGATAAATGCCAGAAATGTGGACAAGCCACCAAAATTGCAAA
CAAGCTACCAGTAA
Found at i:29415391 original size:40 final size:40
Alignment explanation
Indices: 29415316--29415391 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
29415306 CTACCAGTAA
* * * *
29415316 TGTGGACAAGCTACCAATAATGCAGATAAATTGCCAATAT
1 TGTGGACAAGCCACCAATAATGCAAACAAACTGCCAATAT
*
29415356 TGTGGACAAGCCACCAA-AATTGCAAACAAGCTGCCA
1 TGTGGACAAGCCACCAATAA-TGCAAACAAACTGCCA
29415392 GTACTTCTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.07
40 28 0.93
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (40 bp):
TGTGGACAAGCCACCAATAATGCAAACAAACTGCCAATAT
Found at i:29419566 original size:27 final size:27
Alignment explanation
Indices: 29419536--29419832 Score: 261
Period size: 27 Copynumber: 11.0 Consensus size: 27
29419526 TCATCTACTA
* *
29419536 GGGGTATATCAGTCATTTTACCATATT
1 GGGGTATTTCAGTCATTTTACCCTATT
*
29419563 GGGGTATTTCGGTCATTTTACCCTA-T
1 GGGGTATTTCAGTCATTTTACCCTATT
** * * *
29419589 AAGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATT
29419616 GGGGTATTTCAGTCATTTTACCCTA-T
1 GGGGTATTTCAGTCATTTTACCCTATT
* * **
29419642 GGGATTATTTC-GATCATTATTACCTTACG
1 GGG-GTATTTCAG-TCATT-TTACCCTATT
* *
29419671 GGGGTATTTCTA-TCATTTTTACCCTGTG
1 GGGGTATTTC-AGTCA-TTTTACCCTATT
29419699 GGGGTATTTCAGTCATTTTACCCTA-T
1 GGGGTATTTCAGTCATTTTACCCTATT
* * *
29419725 GAGGGTATTTCGGTCATTTTATCCTATG
1 G-GGGTATTTCAGTCATTTTACCCTATT
** * *
29419753 GGGGTATTTTGGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATT
29419780 GGGGTATTTC-GATCATTTTACCCTA-T
1 GGGGTATTTCAG-TCATTTTACCCTATT
29419806 GAGGGTATTTC-GATCATTTTA-CCTATT
1 G-GGGTATTTCAG-TCATTTTACCCTATT
29419833 TTGGGGTCTC
Statistics
Matches: 226, Mismatches: 30, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
26 34 0.15
27 150 0.66
28 37 0.16
29 5 0.02
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATT
Found at i:29419768 original size:54 final size:54
Alignment explanation
Indices: 29419536--29419828 Score: 345
Period size: 54 Copynumber: 5.4 Consensus size: 54
29419526 TCATCTACTA
* * * *
29419536 GGGGTATATCAGTCATTTTACCATATTGGGGTATTTCGGTCATTTTACCCTAT-
1 GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
** * *
29419589 AAGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
** * * * ** *
29419643 GGATTATTTCGATCATTATTACCTTACGGGGGTATTTCTATCATTTTTACCCTGTG
1 GGGGTATTTCGGTCATT-TTACCCTATGGGGGTATTTCGGTCA-TTTTACCCTATG
* * *
29419699 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
* * *
29419753 GGGGTATTTTGGTCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
* *
29419807 AGGGTATTTCGATCATTTTACC
1 GGGGTATTTCGGTCATTTTACC
29419829 TATTTTGGGG
Statistics
Matches: 198, Mismatches: 39, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
53 45 0.23
54 88 0.44
55 41 0.21
56 24 0.12
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATG
Found at i:29419780 original size:137 final size:135
Alignment explanation
Indices: 29419563--29419825 Score: 391
Period size: 137 Copynumber: 1.9 Consensus size: 135
29419553 TTACCATATT
* *
29419563 GGGGTATTTCGGTCATTTTACCCTATAAGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCAG
1 GGGGTATTTCAGTCATTTTACCCTATAAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAG
* * * *
29419628 TCATTTTACCCTATGGGATTATTTCGATCATTATTACCTTACGGGGGTATTTCTATCATTTTTAC
66 TCATTTTACCCTATGGGAGTATTTCGATCATT-TTACCCTACGAGGGTATTTCGATCATTTTTAC
29419693 CCTGTG
130 CCTGTG
* * **
29419699 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTAT-AAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCA
* * *
29419764 GTCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGATCATTTT
65 GTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTACGAGGGTATTTCGATCATTTT
29419826 ACCTATTTTG
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
136 50 0.44
137 63 0.56
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (135 bp):
GGGGTATTTCAGTCATTTTACCCTATAAGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAG
TCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTACGAGGGTATTTCGATCATTTTTACC
CTGTG
Found at i:29422396 original size:29 final size:29
Alignment explanation
Indices: 29422349--29422408 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
29422339 AACACACAAC
29422349 CAACCACCAGACCAACAGGCCCATTCGGA
1 CAACCACCAGACCAACAGGCCCATTCGGA
* * *
29422378 CAACCACCAGACTAGCAGGCCCATTCTGA
1 CAACCACCAGACCAACAGGCCCATTCGGA
29422407 CA
1 CA
29422409 CTAGAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.40, G:0.17, T:0.10
Consensus pattern (29 bp):
CAACCACCAGACCAACAGGCCCATTCGGA
Found at i:29423118 original size:13 final size:14
Alignment explanation
Indices: 29423086--29423118 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
29423076 TTTGATATTA
29423086 CAAAAATTTTAGTC
1 CAAAAATTTTAGTC
29423100 CAAAAATTTTAGTC
1 CAAAAATTTTAGTC
29423114 CAAAA
1 CAAAA
29423119 GTCTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (14 bp):
CAAAAATTTTAGTC
Found at i:29424707 original size:11 final size:11
Alignment explanation
Indices: 29424691--29424727 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
29424681 ACGAGAGAAT
*
29424691 GATGCTTGATG
1 GATGCTTGAGG
29424702 GATGCTTGAGG
1 GATGCTTGAGG
*
29424713 GATGATTGAGG
1 GATGCTTGAGG
29424724 GATG
1 GATG
29424728 ATGAATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.05, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:29431297 original size:37 final size:37
Alignment explanation
Indices: 29431236--29431314 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
29431226 TTATTACGAA
* *
29431236 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
* *
29431273 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
29431310 GTCTT
1 GTCTT
29431315 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:29431583 original size:47 final size:47
Alignment explanation
Indices: 29431433--29431871 Score: 415
Period size: 47 Copynumber: 9.1 Consensus size: 47
29431423 CCCTTCAGGA
* * * * * * *
29431433 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29431480 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29431526 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **** ***
29431573 CTTATTACATATATACATCGGCTATT-AGGCCTT-ATCACATATATACACTTTCAC
1 CTTATCACATATATACA----CT-TTCA--CATTCATCACAT-CGGCCA-TTAGGC
* * *
29431627 ATTCATCACATCGGCCAT-TAGGC-CTTATTACATAT-AT-ACATCGGCTATTAGGC
1 CTT-ATCACAT-----ATATA--CACTT-TCACAT-TCATCACATCGGCCATTAGGC
*
29431680 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
29431727 CTTATCACACATATACAGTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29431774 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29431821 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29431868 CTTA
1 CTTA
29431872 CTATCATTTC
Statistics
Matches: 327, Mismatches: 40, Indels: 50
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.00
46 48 0.15
47 216 0.66
48 2 0.01
51 3 0.01
52 16 0.05
53 10 0.03
54 6 0.02
55 13 0.04
56 6 0.02
57 1 0.00
59 2 0.01
60 2 0.01
61 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29431593 original size:30 final size:30
Alignment explanation
Indices: 29431557--29431619 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
29431547 CACATTCATC
*
29431557 ACATCGGCCATTAGGCCTTATTACATATAT
1 ACATCGGCCATTAGGCCTTATCACATATAT
*
29431587 ACATCGGCTATTAGGCCTTATCACATATAT
1 ACATCGGCCATTAGGCCTTATCACATATAT
29431617 ACA
1 ACA
29431620 CTTTCACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (30 bp):
ACATCGGCCATTAGGCCTTATCACATATAT
Found at i:29431602 original size:77 final size:77
Alignment explanation
Indices: 29431510--29431743 Score: 432
Period size: 77 Copynumber: 3.0 Consensus size: 77
29431500 TCACATTCAC
*
29431510 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
29431575 TATTACATATAT
66 TATTACATATAT
29431587 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
29431652 TATTACATATAT
66 TATTACATATAT
*
29431664 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* *
29431729 TATCACACATAT
66 TATTACATATAT
29431741 ACA
1 ACA
29431744 GTTTCACATT
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 153 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (77 bp):
ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATTACATATAT
Found at i:29431670 original size:30 final size:30
Alignment explanation
Indices: 29431634--29431696 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
29431624 CACATTCATC
*
29431634 ACATCGGCCATTAGGCCTTATTACATATAT
1 ACATCGGCCATTAGGCCTTATCACATATAT
*
29431664 ACATCGGCTATTAGGCCTTATCACATATAT
1 ACATCGGCCATTAGGCCTTATCACATATAT
29431694 ACA
1 ACA
29431697 CTTTCACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (30 bp):
ACATCGGCCATTAGGCCTTATCACATATAT
Found at i:29431715 original size:124 final size:118
Alignment explanation
Indices: 29431433--29431808 Score: 377
Period size: 124 Copynumber: 3.1 Consensus size: 118
29431423 CCCTTCAGGA
* * * * * * * * * *
29431433 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
29431498 TTTCACATTCA-CACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
* *
29431550 ATTCATCACATCGGCCAT-TAGGC-CTTATTACATAT-AT-ACATCGGCTATTAGGCCTTATCAC
1 CTT-ATCACAT-----ATATA--CACTT-TCACAT-TCATCACATCGGCTATTAGGCCTTATCAC
*
29431611 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACATCGGCTATT
56 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA----CT-TT
29431676 -AGGC
116 CA--C
* *
29431680 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* * *
29431745 TTTCACATTCATCACATCAGCTATTAGGCCTTATCACACATATACACTTTCAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
*
29431798 ATTCATCACAT
1 CTT-ATCACAT
29431809 CGGCCATTAG
Statistics
Matches: 213, Mismatches: 22, Indels: 46
0.76 0.08 0.16
Matches are distributed among these distances:
117 2 0.01
118 10 0.05
119 9 0.04
120 3 0.01
122 2 0.01
123 50 0.23
124 120 0.56
125 2 0.01
128 3 0.01
129 9 0.04
130 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (118 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
Found at i:29442842 original size:22 final size:21
Alignment explanation
Indices: 29442808--29442848 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
29442798 ACACCTATGT
*
29442808 GGAGGGGTACATGCCCGTGCG
1 GGAGGGGCACATGCCCGTGCG
29442829 GGAGGAGGCACATGCCCGTG
1 GGAGG-GGCACATGCCCGTG
29442849 TGACCTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.17, C:0.24, G:0.46, T:0.12
Consensus pattern (21 bp):
GGAGGGGCACATGCCCGTGCG
Found at i:29444630 original size:21 final size:21
Alignment explanation
Indices: 29444601--29444641 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29444591 TTGGAAAAGG
*
29444601 AGAGAAAAAAGATAAGAGAAT
1 AGAGAAAAAAGAAAAGAGAAT
*
29444622 AGAGTAAAAAGAAAAGAGAA
1 AGAGAAAAAAGAAAAGAGAA
29444642 ACAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.07
Consensus pattern (21 bp):
AGAGAAAAAAGAAAAGAGAAT
Found at i:29445660 original size:28 final size:28
Alignment explanation
Indices: 29445624--29445689 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
29445614 CCTTGAGATT
* *
29445624 TTAGGTGTTAAATGATTAATTTGAAATA
1 TTAGTTGTTAAATGATAAATTTGAAATA
* *
29445652 TTATTTGTTAAATGATAAATTTTAAATA
1 TTAGTTGTTAAATGATAAATTTGAAATA
29445680 TTAGTTGTTA
1 TTAGTTGTTA
29445690 TTTAAAAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (28 bp):
TTAGTTGTTAAATGATAAATTTGAAATA
Found at i:29445961 original size:29 final size:29
Alignment explanation
Indices: 29445926--29446167 Score: 190
Period size: 29 Copynumber: 8.4 Consensus size: 29
29445916 TCATCGACCA
29445926 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * * *
29445955 ATGAAAAGGGATAGTTTTGGCCATTGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* *
29445984 ATG-AAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
29446012 ATGAACAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * * *
29446041 ATGAAAAAGGAT-GGTGACGACCATCAACT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
* * * *
29446070 ATG-AAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
*
29446098 ATGAAAAGGGATAGCTTC-AGCTGTCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
* * *
29446127 ATGAAAATGGACAGC-TCTAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
*
29446156 ATAAAAAGGGAT
1 ATGAAAAGGGAT
29446168 GGTGGCGACC
Statistics
Matches: 173, Mismatches: 34, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
28 54 0.31
29 117 0.68
30 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:29446044 original size:57 final size:57
Alignment explanation
Indices: 29445930--29446142 Score: 166
Period size: 57 Copynumber: 3.7 Consensus size: 57
29445920 CGACCAATGA
* * * * *
29445930 AAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTTTTGGCCATTGAATATG
1 AAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACCATCGAATATG
* * * *
29445987 AAAGGGATAGCTTCGGCTATCGAATATGAACAGGGATAGCTTCGACTATCGATTATG
1 AAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACCATCGAATATG
* * * * * *
29446044 AAAAAGGAT-GGTGACGACCATC-AACTATG-AAAGGGAT-GGTGACGACCATCGAATATG
1 -AAAGGGATAGCT-TCGACTATCGAA-TATGAAAAGGGATAGCT-TCGACCATCGAATATG
* * * *
29446101 AAAAGGGATAGCTTC-AGCTGTCGATTATGAAAATGGACAGCT
1 -AAAGGGATAGCTTCGA-CTATCGAATATGAAAAGGGATAGCT
29446143 CTAGCTATCG
Statistics
Matches: 119, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
56 3 0.03
57 88 0.74
58 26 0.22
59 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (57 bp):
AAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACCATCGAATATG
Found at i:29446073 original size:86 final size:86
Alignment explanation
Indices: 29445926--29446133 Score: 251
Period size: 86 Copynumber: 2.4 Consensus size: 86
29445916 TCATCGACCA
* *** * *
29445926 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTTTTGGCCATTGAATATGAAAG
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAAGGATAGTGACGACCATTCAATATGAAAG
* * *
29445991 GGATAGCT-TCGGCTATCGAAT
66 GGAT-GCTGACGACCATCGAAT
* *
29446012 ATGAACAGGGATAGCTTCGACTATCGATTATGAAAAAGGATGGTGACGACCA-TCAACTATGAAA
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAAGGATAGTGACGACCATTCAA-TATGAAA
*
29446076 GGGATGGTGACGACCATCGAAT
65 GGGATGCTGACGACCATCGAAT
*
29446098 ATGAAAAGGGATAGCTTC-AGCTGTCGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGA-CTATCGATTATGAAAA
29446134 TGGACAGCTC
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 6 0.06
86 99 0.94
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (86 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAAGGATAGTGACGACCATTCAATATGAAAG
GGATGCTGACGACCATCGAAT
Found at i:29446087 original size:28 final size:29
Alignment explanation
Indices: 29446005--29446253 Score: 136
Period size: 29 Copynumber: 8.6 Consensus size: 29
29445995 AGCTTCGGCT
* * * *
29446005 ATCGAATATGAACAGGGATAGCT-TCGACT
1 ATCGAATATGAAAAGGGAT-GGTGACGACC
* *
29446034 ATCGATTATGAAAAAGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
29446063 ATC-AACTATG-AAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* * *
29446091 ATCGAATATGAAAAGGGATAGCT-TC-AGCT
1 ATCGAATATGAAAAGGGAT-GGTGACGA-CC
* * * * * * *
29446120 GTCGATTATGAAAATGGACAGCT--CTAGCT
1 ATCGAATATGAAAAGGGA-TGGTGACGA-CC
* * *
29446149 ATCGATTATAAAAAGGGATGGTGGCGACC
1 ATCGAATATGAAAAGGGATGGTGACGACC
* *
29446178 ATC-AACTATGAAAAGGGTTGGTGACAACC
1 ATCGAA-TATGAAAAGGGATGGTGACGACC
* * ** *
29446207 ATCGATTAATTAAAAGGGATGGTTTCAACC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACC
29446237 ATCGAATATGAAAAGGG
1 ATCGAATATGAAAAGGG
29446254 TCGGTTACAA
Statistics
Matches: 173, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
28 32 0.18
29 112 0.65
30 29 0.17
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACGACC
Found at i:29446130 original size:115 final size:116
Alignment explanation
Indices: 29445975--29446253 Score: 350
Period size: 115 Copynumber: 2.4 Consensus size: 116
29445965 ATAGTTTTGG
* * * *
29445975 CCATTGAATATG-AAAGGGATAGCTTCGGCTATCGAATATGAACAGGGATAGCTTCGA-CTATCG
1 CCATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGACAGC-TCGAGCTATCG
*
29446038 ATTATGAAAAA-GGATGGTGACGACCATCAACTATG-AAAGGGATGGTGACGA
65 ATTAT-AAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAA
* * * *
29446089 CCATCGAATATGAAAAGGGATAGCTTCAGCTGTCGATTATGAAAATGGACAGCTCTAGCTATCGA
1 CCATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGACAGCTCGAGCTATCGA
* *
29446154 TTATAAAAAGGGATGGTGGCGACCATCAACTATGAAAAGGGTTGGTGACAA
66 TTATAAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAA
* * * * * *
29446205 CCATCGATTAATTAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGG
1 CCATCGAAT-ATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGG
29446254 TCGGTTACAA
Statistics
Matches: 140, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
114 19 0.14
115 68 0.49
116 22 0.16
117 31 0.22
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (116 bp):
CCATCGAATATGAAAAGGGATAGCTTCAGCTATCGAATATGAAAAGGGACAGCTCGAGCTATCGA
TTATAAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAA
Found at i:29446224 original size:30 final size:29
Alignment explanation
Indices: 29446034--29446253 Score: 142
Period size: 29 Copynumber: 7.6 Consensus size: 29
29446024 AGCTTCGACT
* *
29446034 ATCGATTATGAAAAAGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* * *
29446063 ATCAACTATG-AAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* * * * *
29446091 ATCGAATATGAAAAGGGATAGCT-TCAGCT
1 ATCGATTATGAAAAGGGAT-GGTGACAACC
* * * * * *
29446120 GTCGATTATGAAAATGGACAGCT--CTAGCT
1 ATCGATTATGAAAAGGGA-TGGTGAC-AACC
* * *
29446149 ATCGATTATAAAAAGGGATGGTGGCGACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* * *
29446178 ATCAACTATGAAAAGGGTTGGTGACAACC
1 ATCGATTATGAAAAGGGATGGTGACAACC
* **
29446207 ATCGATTAATTAAAAGGGATGGTTTCAACC
1 ATCGATT-ATGAAAAGGGATGGTGACAACC
*
29446237 ATCGAATATGAAAAGGG
1 ATCGATTATGAAAAGGG
29446254 TCGGTTACAA
Statistics
Matches: 148, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
28 28 0.19
29 93 0.63
30 27 0.18
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGACAACC
Found at i:29446238 original size:59 final size:58
Alignment explanation
Indices: 29446149--29446269 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 58
29446139 AGCTCTAGCT
* *
29446149 ATCGATTATAAAAAGGGATGGTGGCGACCATC-AACTATGAAAAGGGTTGGTGACAACC
1 ATCGATTATAAAAAGGGATGGTGGCAACCATCGAA-TATGAAAAGGGTCGGTGACAACC
* ** * *
29446207 ATCGATTAATTAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGTCGGTTACAACT
1 ATCGATT-ATAAAAAGGGATGGTGGCAACCATCGAATATGAAAAGGGTCGGTGACAACC
29446266 ATCG
1 ATCG
29446270 TTTAGCACAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 7 0.13
59 45 0.83
60 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (58 bp):
ATCGATTATAAAAAGGGATGGTGGCAACCATCGAATATGAAAAGGGTCGGTGACAACC
Found at i:29446259 original size:29 final size:28
Alignment explanation
Indices: 29446175--29446269 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 28
29446165 GATGGTGGCG
*
29446175 ACCATC-AACTATGAAAAGGGTTGGTGACA
1 ACCATCGAA-TATGAAAAGGG-TGGTTACA
* * *
29446204 ACCATCGATTAATTAAAAGGGATGGTTTCA
1 ACCATCGAAT-ATGAAAAGGG-TGGTTACA
29446234 ACCATCGAATATGAAAAGGGTCGGTTACA
1 ACCATCGAATATGAAAAGGGT-GGTTACA
*
29446263 ACTATCG
1 ACCATCG
29446270 TTTAGCACAC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.52
30 25 0.46
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (28 bp):
ACCATCGAATATGAAAAGGGTGGTTACA
Found at i:29447328 original size:20 final size:20
Alignment explanation
Indices: 29447303--29447341 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29447293 AACATTAAAA
29447303 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
29447323 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
29447342 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:29448496 original size:27 final size:27
Alignment explanation
Indices: 29448457--29448510 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29448447 TACAAGCTAT
29448457 AAATCGGTATGCTCACACGAGATGTGA
1 AAATCGGTATGCTCACACGAGATGTGA
* * * *
29448484 AAATGGGTCTGCTTACACGAGCTGTGA
1 AAATCGGTATGCTCACACGAGATGTGA
29448511 GTTAGAACGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (27 bp):
AAATCGGTATGCTCACACGAGATGTGA
Found at i:29470133 original size:37 final size:37
Alignment explanation
Indices: 29470073--29470152 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
29470063 GCACACAAGC
* * *
29470073 AATCTAACCGAAAACACGCCAAATACTCATAAGATCT
1 AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
* * *
29470110 AATCCAACCAAAAACACGTCAAATGCTCGTAAGACCT
1 AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
29470147 AATCCA
1 AATCCA
29470153 CCTGATAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.29, G:0.09, T:0.17
Consensus pattern (37 bp):
AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
Found at i:29471637 original size:17 final size:18
Alignment explanation
Indices: 29471615--29471649 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29471605 AATTTTAGGG
29471615 GCAAAA-TTGAATAAAAT
1 GCAAAAGTTGAATAAAAT
*
29471632 GCAAAAGTTGCATAAAAT
1 GCAAAAGTTGAATAAAAT
29471650 TTAAATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.23
Consensus pattern (18 bp):
GCAAAAGTTGAATAAAAT
Found at i:29471959 original size:18 final size:20
Alignment explanation
Indices: 29471926--29471966 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
29471916 GACTAAATTG
29471926 AATATTTATGAAAAATGT-A
1 AATATTTATGAAAAATGTGA
*
29471945 AATATTTAT-ACAAATGTGA
1 AATATTTATGAAAAATGTGA
29471964 AAT
1 AAT
29471967 TGAGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (20 bp):
AATATTTATGAAAAATGTGA
Found at i:29483433 original size:26 final size:26
Alignment explanation
Indices: 29483380--29483434 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
29483370 AACACACCAA
* * *
29483380 TATCGCAGCAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGATACCAATAACAG
*
29483406 TATCGCAGCAAAGATGCCAATAACAG
1 TATCGCAGCAAAGATACCAATAACAG
29483432 TAT
1 TAT
29483435 ACTACCTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGATACCAATAACAG
Found at i:29483602 original size:27 final size:27
Alignment explanation
Indices: 29483571--29483657 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
29483561 GGCCATATTA
* *
29483571 GTCATTTCATCTCT-TAGGGGTGTTTTG
1 GTCATTTCATC-CTATAGGGGTATTTCG
*
29483598 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTCATCCTATAGGGGTATTTCG
* * *
29483625 GTCATTTTA-CACTATTGGTGTATTTCG
1 GTCATTTCATC-CTATAGGGGTATTTCG
29483652 GTCATT
1 GTCATT
29483658 CATTGACCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 3 0.06
27 50 0.94
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (27 bp):
GTCATTTCATCCTATAGGGGTATTTCG
Found at i:29488460 original size:41 final size:42
Alignment explanation
Indices: 29488407--29488504 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
29488397 CCACTATCCG
*
29488407 AGACA-GGTTCTTACACGTAACA-AA-TACGATG-CTAATGTCCC
1 AGACATGG-TCTTACACGTAACACAAGT-CGATGTC-AATGCCCC
*
29488448 AGACATGGTCTTAAACGTAACACAAGTCGATGTCAATGCCCC
1 AGACATGGTCTTACACGTAACACAAGTCGATGTCAATGCCCC
*
29488490 AGACGTGGTCTTACA
1 AGACATGGTCTTACA
29488505 TGATAACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
41 18 0.37
42 29 0.59
43 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (42 bp):
AGACATGGTCTTACACGTAACACAAGTCGATGTCAATGCCCC
Found at i:29510597 original size:26 final size:26
Alignment explanation
Indices: 29510563--29510630 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
29510553 CGTAACAAAG
*
29510563 CTACGAGTAATAGTATCGCAGAAAAA
1 CTACCAGTAATAGTATCGCAGAAAAA
* * * * *
29510589 CTGCCAGTAACAGTATTGCAGCAAAG
1 CTACCAGTAATAGTATCGCAGAAAAA
*
29510615 CTACCAATAATAGTAT
1 CTACCAGTAATAGTAT
29510631 ACTACCTCCA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (26 bp):
CTACCAGTAATAGTATCGCAGAAAAA
Found at i:29510843 original size:27 final size:27
Alignment explanation
Indices: 29510795--29510907 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
29510785 GGTATAACAC
*
29510795 TCATTTTACCCTATGTGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
29510822 TCATTTTACCCTTTG-GGTGTATTTCGG
1 TCATTTTACCCTATGAGG-GTATTTCGA
* *
29510849 TCATTTTACCCAAT-AGGGGTATTTCAA
1 TCATTTTACCCTATGA-GGGTATTTCGA
* *
29510876 TTATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
29510903 TCATT
1 TCATT
29510908 CATTGACCTC
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.03
27 66 0.93
28 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:29510858 original size:54 final size:54
Alignment explanation
Indices: 29510795--29510907 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
29510785 GGTATAACAC
* * *
29510795 TCATTTTACCCTAT-GTGGGTATTTCGATCATTTTACCCTTTG-GGTGTATTTCGG
1 TCATTTTACCCAATAG-GGGTATTTCAATCATTTTACCCTATGAGG-GTATTTCGG
*
29510849 TCATTTTACCCAATAGGGGTATTTCAATTATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCAATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGG
29510903 TCATT
1 TCATT
29510908 CATTGACCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 50 0.94
55 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (54 bp):
TCATTTTACCCAATAGGGGTATTTCAATCATTTTACCCTATGAGGGTATTTCGG
Found at i:29520486 original size:13 final size:14
Alignment explanation
Indices: 29520457--29520489 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
29520447 TTATCAAATA
*
29520457 TTCTGTTTATCTTT
1 TTCTTTTTATCTTT
29520471 TTCTTTTTAT-TTT
1 TTCTTTTTATCTTT
29520484 TTCTTT
1 TTCTTT
29520490 ACTTTCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (14 bp):
TTCTTTTTATCTTT
Found at i:29524532 original size:12 final size:13
Alignment explanation
Indices: 29524513--29524545 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
29524503 ATATTTATCC
29524513 ATTCAAATATCAA
1 ATTCAAATATCAA
29524526 ATT-AAATATCAA
1 ATTCAAATATCAA
29524538 ATTCAAAT
1 ATTCAAAT
29524546 GTCATTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTCAAATATCAA
Found at i:29527211 original size:15 final size:15
Alignment explanation
Indices: 29527193--29527223 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29527183 ATTTCTCCTT
29527193 AAATAATTAATAAAA
1 AAATAATTAATAAAA
29527208 AAATAATTAATAAAA
1 AAATAATTAATAAAA
29527223 A
1 A
29527224 TATTCACGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAATTAATAAAA
Found at i:29531315 original size:4 final size:4
Alignment explanation
Indices: 29531306--29531337 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
29531296 AAGTTTTATT
*
29531306 TTTA TTTA TTTA TTTA TTTA TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
29531338 CTTAGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:29531716 original size:19 final size:20
Alignment explanation
Indices: 29531691--29531750 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
29531681 GAGCCATTTG
29531691 AAGGGAGTTGTGAGATCTTT
1 AAGGGAGTTGTGAGATCTTT
*
29531711 -AGGGAGAT-T-AGAGTCATTT
1 AAGGGAGTTGTGAGA-TC-TTT
29531730 GAAGGGAGTTGTGAGATCTTT
1 -AAGGGAGTTGTGAGATCTTT
29531751 CGAGATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 10 0.31
21 10 0.31
22 3 0.09
23 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.35, T:0.33
Consensus pattern (20 bp):
AAGGGAGTTGTGAGATCTTT
Found at i:29531721 original size:40 final size:40
Alignment explanation
Indices: 29531672--29531750 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
29531662 TTCTTTGGAG
29531672 GGGAGATTAGAGCCATTTGAAGGGAGTTGTGAGATCTTTA
1 GGGAGATTAGAGCCATTTGAAGGGAGTTGTGAGATCTTTA
*
29531712 GGGAGATTAGAGTCATTTGAAGGGAGTTGTGAGATCTTT
1 GGGAGATTAGAGCCATTTGAAGGGAGTTGTGAGATCTTT
29531751 CGAGATTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.06, G:0.35, T:0.32
Consensus pattern (40 bp):
GGGAGATTAGAGCCATTTGAAGGGAGTTGTGAGATCTTTA
Found at i:29531737 original size:21 final size:21
Alignment explanation
Indices: 29531672--29531737 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
29531662 TTCTTTGGAG
*
29531672 GGGAGATTAGAGCCATTTGAA
1 GGGAGATTAGAGTCATTTGAA
*
29531693 GGGAG-TTGTGAGATC-TTT--A
1 GGGAGATT-AGAG-TCATTTGAA
29531712 GGGAGATTAGAGTCATTTGAA
1 GGGAGATTAGAGTCATTTGAA
29531733 GGGAG
1 GGGAG
29531738 TTGTGAGATC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
18 2 0.06
19 12 0.33
20 4 0.11
21 17 0.47
22 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.38, T:0.27
Consensus pattern (21 bp):
GGGAGATTAGAGTCATTTGAA
Found at i:29538080 original size:28 final size:29
Alignment explanation
Indices: 29538013--29538083 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 29
29538003 AAATAATGAA
29538013 TATAATAAATATAAATATATAACAAATTTTC
1 TATAATAAATAT--ATATATAACAAATTTTC
* *
29538044 TTTAA-AAATATATATATAACAAA-TTTG
1 TATAATAAATATATATATAACAAATTTTC
29538071 TATAATAAATATA
1 TATAATAAATATA
29538084 CTTATTATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.19
28 19 0.53
30 6 0.17
31 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (29 bp):
TATAATAAATATATATATAACAAATTTTC
Found at i:29538998 original size:15 final size:12
Alignment explanation
Indices: 29538967--29539009 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
29538957 TTTTCTTCTT
29538967 AAATTTTATTAA
1 AAATTTTATTAA
29538979 AAATTTTAATGTACA
1 AAATTTT-AT-TA-A
*
29538994 AAATTTTTTTAA
1 AAATTTTATTAA
29539006 AAAT
1 AAAT
29539010 AATTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 12 0.44
13 4 0.15
14 3 0.11
15 8 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
AAATTTTATTAA
Found at i:29542071 original size:61 final size:60
Alignment explanation
Indices: 29541975--29542117 Score: 160
Period size: 61 Copynumber: 2.4 Consensus size: 60
29541965 TAATGTCATT
** * * *
29541975 CTGGATTGCCCGACAACAATGACTGCCATCCCAGGTTGCCTGAAAACAATGGCTTACCATA
1 CTGGATTGCTTGACAACGATGACTGCCATCCCAGGTTCCCCGAAAACAATGGCTTACCA-A
* * ** * *
29542036 CTGGATTGCTTGACAACGATGATTGCCATCTCAGGTTCCCCGGTAACAATTGCTTACCAC
1 CTGGATTGCTTGACAACGATGACTGCCATCCCAGGTTCCCCGAAAACAATGGCTTACCAA
*
29542096 CTTGGATTGCTTGACAATGATG
1 C-TGGATTGCTTGACAACGATG
29542118 GTTTCTTAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
60 1 0.01
61 68 0.99
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (60 bp):
CTGGATTGCTTGACAACGATGACTGCCATCCCAGGTTCCCCGAAAACAATGGCTTACCAA
Found at i:29543146 original size:15 final size:14
Alignment explanation
Indices: 29543126--29543160 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
29543116 TTTACATTTC
*
29543126 AATTTTAAATTTTAA
1 AATTTTAAA-ATTAA
29543141 AATTTTAAAATTAA
1 AATTTTAAAATTAA
29543155 AATTTT
1 AATTTT
29543161 CATACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTTAAAATTAA
Found at i:29550615 original size:34 final size:34
Alignment explanation
Indices: 29550577--29550663 Score: 129
Period size: 34 Copynumber: 2.6 Consensus size: 34
29550567 TAGATACGTG
* *
29550577 GATAACTACACCACACTAGATAGCTCAATAAAGT
1 GATAACTACACCACACCAAATAGCTCAATAAAGT
* * *
29550611 GATAACTACACCACACCAAATGGCTCGATAGAGT
1 GATAACTACACCACACCAAATAGCTCAATAAAGT
29550645 GATAACTACACCACACCAA
1 GATAACTACACCACACCAA
29550664 GGCACTATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.17
Consensus pattern (34 bp):
GATAACTACACCACACCAAATAGCTCAATAAAGT
Found at i:29552687 original size:13 final size:12
Alignment explanation
Indices: 29552656--29552686 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29552646 GATCTTTTCT
29552656 CATTTTTAGTTC
1 CATTTTTAGTTC
*
29552668 CATTTTTATTTC
1 CATTTTTAGTTC
29552680 CATTTTT
1 CATTTTT
29552687 TGAGAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.03, T:0.65
Consensus pattern (12 bp):
CATTTTTAGTTC
Found at i:29567534 original size:13 final size:14
Alignment explanation
Indices: 29567507--29567533 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29567497 TATGATCATA
29567507 AAAAATCATTTTTT
1 AAAAATCATTTTTT
29567521 AAAAATCATTTTT
1 AAAAATCATTTTT
29567534 AGTTAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAAATCATTTTTT
Found at i:29567777 original size:16 final size:16
Alignment explanation
Indices: 29567752--29567784 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29567742 GTACACTCAT
*
29567752 GATATGAGTGAAAAAA
1 GATATAAGTGAAAAAA
29567768 GATATAAGTGAAAAAA
1 GATATAAGTGAAAAAA
29567784 G
1 G
29567785 TTATGAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (16 bp):
GATATAAGTGAAAAAA
Found at i:29580143 original size:22 final size:22
Alignment explanation
Indices: 29580117--29580161 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29580107 AGATCAACAC
29580117 AAATAT-AATCACATACATATCA
1 AAATATCAATCACA-ACATATCA
* *
29580139 AAATATCCATCTCAACATATCA
1 AAATATCAATCACAACATATCA
29580161 A
1 A
29580162 TCATCATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATATCAATCACAACATATCA
Found at i:29596891 original size:44 final size:44
Alignment explanation
Indices: 29596841--29596928 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
29596831 TTCTTCATAT
*
29596841 ACTAGTACAGA-TCATAATTATTCACAATTCACTAAAATTCTATG
1 ACTAGTACA-ATTCATAATTATTCACAATTCACAAAAATTCTATG
29596885 ACTAGTACAATTCATAATTATTCACAATTCACAAAAATTCTATG
1 ACTAGTACAATTCATAATTATTCACAATTCACAAAAATTCTATG
29596929 TAAATTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (44 bp):
ACTAGTACAATTCATAATTATTCACAATTCACAAAAATTCTATG
Found at i:29605948 original size:446 final size:446
Alignment explanation
Indices: 29605110--29606009 Score: 1566
Period size: 446 Copynumber: 2.0 Consensus size: 446
29605100 AGAAACCAAA
* * * *
29605110 GATACAATAATTCGGTCTGAAGCTTGAGCTCCTACCAGAGCTTATGCAATCCATGCACGCAAGGA
1 GATA-AATAATTCAGTCTAAAGCTTGAGCTCCTACCAGAACTTATACAATCCATGCACGCAAGGA
* *
29605175 GGCCTCAGCTCTTGATGTTATTGCTGGTACCTTTTCTATCTTTGATGTCACTGTGAATGCATTAA
65 GGCCTCAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTGATGTCACTATGAATGCATTAA
29605240 TTGAACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAGAGTTTACCAGTT
130 TTGAACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAGAGTTTACCAGTT
* * *
29605305 GAGTCAACTAGTTATGTCATTCAAGTAATGAACCCGTTAGGTTAACGTGTCATAATTGATCTAGT
195 GAGTCAACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTCATAATTGATCTAGT
*
29605370 TTGGAAATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCATTGATTTGATGTTATTGTCTT
260 TTGGAAATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCACTGATTTGATGTTATTGTCTT
*
29605435 TTAATGAGTTTGACAATATTCTAGGAATGGATTGGTTGATGGTACACAATGTTGTAGTGAATTGC
325 TTAATGAGTTTGACAATATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTGAATTGC
* *
29605500 AAACAAAAATGAATTGATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
390 AAACAAAAACGAATTAATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
*
29605557 GATAAATAATTCAGTCTAAAGCTTGAGCTCCTACCAGAACTTATACAATCCATGCATGCAAGGAG
1 GATAAATAATTCAGTCTAAAGCTTGAGCTCCTACCAGAACTTATACAATCCATGCACGCAAGGAG
* * *
29605622 GCCTCAGCTCTTGATGTTATTTCTAGTACCTTTTCTATCTTTGATGTCACTATGTATGCATTGAT
66 GCCTCAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTGATGTCACTATGAATGCATTAAT
*
29605687 TGAACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAATAGTTTACCAGTTG
131 TGAACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAGAGTTTACCAGTTG
* * *
29605752 AGTCAACTGGTTATGTCATTCAATTAACGAACCTATTAGGTTAAAGTGTCATAATTGATCTAGTT
196 AGTCAACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTCATAATTGATCTAGTT
* *
29605817 TGGAAATAATGTCCACTGAAAATTCAAGGCTATAACTTTCCTACTGATTTGATGTTATTGTCTTT
261 TGGAAATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCACTGATTTGATGTTATTGTCTTT
* *
29605882 TAATGTGTTTGACATTATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTGAATTGCA
326 TAATGAGTTTGACAATATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTGAATTGCA
29605947 AACAAAAACGAATTAATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
391 AACAAAAACGAATTAATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
29606003 GATAAAT
1 GATAAAT
29606010 CTGATTGCGC
Statistics
Matches: 428, Mismatches: 25, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
446 424 0.99
447 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (446 bp):
GATAAATAATTCAGTCTAAAGCTTGAGCTCCTACCAGAACTTATACAATCCATGCACGCAAGGAG
GCCTCAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTGATGTCACTATGAATGCATTAAT
TGAACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAGAGTTTACCAGTTG
AGTCAACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTCATAATTGATCTAGTT
TGGAAATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCACTGATTTGATGTTATTGTCTTT
TAATGAGTTTGACAATATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTGAATTGCA
AACAAAAACGAATTAATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
Found at i:29611542 original size:23 final size:24
Alignment explanation
Indices: 29611512--29611558 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
29611502 ATTAAAACCC
29611512 AAATAATTAATAAA-AT-ATTTTA
1 AAATAATTAATAAATATAATTTTA
*
29611534 AAATGAATTATTAAATATAATTTTA
1 AAAT-AATTAATAAATATAATTTTA
29611559 TATTTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 2 0.10
25 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAATTAATAAATATAATTTTA
Found at i:29612458 original size:28 final size:28
Alignment explanation
Indices: 29612419--29612598 Score: 220
Period size: 28 Copynumber: 6.5 Consensus size: 28
29612409 CTATTCAGTG
*
29612419 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAAT
* * *
29612446 ACAGTATCAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAAT
29612474 ACAGTAACAGTGTGGGCCTTAACCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAAT
* * *
29612502 ATAGTAACAGTTTAGGCCTTAACCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAAT
* *
29612530 ACAGTAATAGTTTGGGCCTTAACCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAAT
* ** *
29612558 ATAG-ATTTAGTGTGGGCCTTAGCCCAAT
1 ACAGTA-ACAGTGTGGGCCTTAACCCAAT
29612586 ACAGTAACAGTGT
1 ACAGTAACAGTGT
29612599 AGTGCAATAA
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.05
28 125 0.95
29 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAACCCAAT
Found at i:29612500 original size:56 final size:56
Alignment explanation
Indices: 29612419--29612598 Score: 256
Period size: 56 Copynumber: 3.2 Consensus size: 56
29612409 CTATTCAGTG
* *
29612419 ACAGT-ACAGTGTGGGCCTTAGCCCAATACAGTATCAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAATATAGTATCAGTGTAGGCCTTAGCCCAAT
* * *
29612474 ACAGTAACAGTGTGGGCCTTAACCCAATATAGTAACAGTTTAGGCCTTAACCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAATATAGTATCAGTGTAGGCCTTAGCCCAAT
* * * *
29612530 ACAGTAATAGTTTGGGCCTTAACCCAATATAG-ATTTAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAACCCAATATAGTA-TCAGTGTAGGCCTTAGCCCAAT
29612586 ACAGTAACAGTGT
1 ACAGTAACAGTGT
29612599 AGTGCAATAA
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
55 6 0.06
56 103 0.94
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (56 bp):
ACAGTAACAGTGTGGGCCTTAACCCAATATAGTATCAGTGTAGGCCTTAGCCCAAT
Found at i:29612981 original size:27 final size:27
Alignment explanation
Indices: 29612961--29613050 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
29612951 GGGTATAACA
* *
29612961 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCG
* *
29612988 GTCATTTTAGCTTATAAGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCG
29613015 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCTTATAGGGGTATTTCG
*
29613042 ATCATTTTA
1 GTCATTTTA
29613051 TCCTCTGGGG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCTTATAGGGGTATTTCG
Found at i:29614357 original size:28 final size:28
Alignment explanation
Indices: 29614324--29614573 Score: 252
Period size: 28 Copynumber: 8.9 Consensus size: 28
29614314 GTATAGTGTA
* *
29614324 GGCCTTAGCCCATTACAGTAACAGTGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
29614352 GACCTTAGCCCAATATAGTAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* * * *
29614380 GGTCTTACCCCAATACAATAATAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
** *
29614408 GGCCTTAGCCTGATACAATAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* * *
29614436 GGACTTACCCCAATATAGTAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
29614464 GGCCTTAGCCCAAAACAGTAACAATATG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
29614492 GGCCTTAGCCCAATACA-AAATCAGTGTG
1 GGCCTTAGCCCAATACAGTAA-CAATGTG
* * *
29614520 GGCTTTAGCCTAATACAG-AATCAGTGTG
1 GGCCTTAGCCCAATACAGTAA-CAATGTG
* * *
29614548 GGTCTTAGCCAAATAAAGTAACAATG
1 GGCCTTAGCCCAATACAGTAACAATG
29614574 CAGTGCAATA
Statistics
Matches: 182, Mismatches: 37, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
27 2 0.01
28 178 0.98
29 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAGTAACAATGTG
Found at i:29614704 original size:26 final size:26
Alignment explanation
Indices: 29614675--29614781 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
29614665 AACACACCAA
29614675 TATCGCAGCAAAGATGCCAGTAATAG
1 TATCGCAGCAAAGATGCCAGTAATAG
*
29614701 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGATGCCAGTAATAG
*
29614727 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGATGCCAGTAATAG
* *
29614753 TATCGTAGCAAAGATGCCAGTAAAAG
1 TATCGCAGCAAAGATGCCAGTAATAG
29614779 TAT
1 TAT
29614782 ATGTGGCGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGATGCCAGTAATAG
Found at i:29615214 original size:107 final size:108
Alignment explanation
Indices: 29615016--29615221 Score: 254
Period size: 107 Copynumber: 1.9 Consensus size: 108
29615006 GGTATAACAC
* * * ** *
29615016 TCATTTTACCCTATGGAGGTATTTCGGTCATTTTATCTTATAAGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTATGGAGGTATTTCGCTCATTTTACCCTATAAGGGTATTTCAGTCAATTTACCC
* **
29615081 TATTAGGGTATTTTGGTCATTCTACCCTA-GGGGTTATTTCGG
66 TATGAGGGTATTTCAGTCATTCTACCCTATGGGGTTATTTCGG
* * ** *
29615123 TCATTTTACCCTATGGGGGTATTTTGCTCATTTTACCCTATGGGGGTATTTCAGTTAATTTACCC
1 TCATTTTACCCTATGGAGGTATTTCGCTCATTTTACCCTATAAGGGTATTTCAGTCAATTTACCC
*
29615188 TATGGGGGTATTTCAGTCAATT-TACCCTATGGGG
66 TATGAGGGTATTTCAGTC-ATTCTACCCTATGGGG
29615222 GCTTTTCAGC
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
107 75 0.91
108 7 0.09
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (108 bp):
TCATTTTACCCTATGGAGGTATTTCGCTCATTTTACCCTATAAGGGTATTTCAGTCAATTTACCC
TATGAGGGTATTTCAGTCATTCTACCCTATGGGGTTATTTCGG
Found at i:29615220 original size:27 final size:27
Alignment explanation
Indices: 29615016--29615222 Score: 245
Period size: 27 Copynumber: 7.7 Consensus size: 27
29615006 GGTATAACAC
*
29615016 TCATTTTACCCTATGGAGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * ** *
29615043 TCATTTTATCTTATAAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
29615070 TCATTTTACCCTATTAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
29615097 TCATTCTACCCTA-GGGGTTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
29615123 TCATTTTACCCTATGGGGGTATTTTGC
1 TCATTTTACCCTATGGGGGTATTTCGG
*
29615150 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
29615177 TTAATTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
29615204 TCAATTTACCCTATGGGGG
1 TCATTTTACCCTATGGGGG
29615223 CTTTTCAGCT
Statistics
Matches: 155, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.14
27 134 0.86
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:29636409 original size:40 final size:40
Alignment explanation
Indices: 29636355--29636673 Score: 462
Period size: 40 Copynumber: 8.0 Consensus size: 40
29636345 GGATTGAACT
* * * *
29636355 GGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
29636395 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
29636435 GGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
29636475 GGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
29636515 AGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
29636555 GGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
29636595 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * * *
29636635 GGA-ACTAGTCACTAGCGCAAATGCCTTTGGGACTTAGCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
29636674 AGTTATCATC
Statistics
Matches: 253, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.01
40 251 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:29636568 original size:120 final size:120
Alignment explanation
Indices: 29636355--29636673 Score: 525
Period size: 120 Copynumber: 2.7 Consensus size: 120
29636345 GGATTGAACT
* * *
29636355 GGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGC
1 GGATATAG-TAACTCGCACAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
29636419 CTTCGGGACTTAGCCCGGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
65 CTTCGGGACTTAGCCCGGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
*
29636475 GGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCC
1 GGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
29636540 TTCGGGACTTAGCCCGGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
66 TTCGGGACTTAGCCCGGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
* * * *
29636595 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGC
1 GGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
*
29636659 CTTTGGGACTTAGCC
65 CTTCGGGACTTAGCC
29636674 AGTTATCATC
Statistics
Matches: 187, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 2 0.01
120 185 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
GGATATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
TTCGGGACTTAGCCCGGATATAGTATCTTGCACAAATGCCTTCGGCACTTAGCCC
Found at i:29639387 original size:26 final size:26
Alignment explanation
Indices: 29639356--29639463 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
29639346 TGAAATGCCC
*
29639356 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
29639382 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
29639408 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
29639434 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29639460 ATCA
1 ATCA
29639464 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29641063 original size:29 final size:29
Alignment explanation
Indices: 29640998--29641116 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 29
29640988 TACATACATG
* *
29640998 CATATGGCCCACTAGGCTCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * * *
29641026 CAAATGGCCCATTTGGCACAATTCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
*
29641055 CATATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * *
29641084 TATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
29641113 -ATAT
1 CATAT
29641117 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 21 0.28
29 55 0.72
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:29641066 original size:57 final size:58
Alignment explanation
Indices: 29640998--29641116 Score: 152
Period size: 58 Copynumber: 2.1 Consensus size: 58
29640988 TACATACATG
* ** * *
29640998 CATATGGCCCACTAGGCTCAA-TCTTATTCAAATGGCCCATTTGGCACAATTCATATT
1 CATATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTAGGCACAAATCATATT
* * *
29641055 CATATGGCCCACTAGGCCCAATTCACATTTATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTAGGCACAAATCATATT
29641113 -ATAT
1 CATAT
29641117 TCATGCTCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 24 0.45
58 29 0.55
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (58 bp):
CATATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTAGGCACAAATCATATT
Found at i:29641208 original size:18 final size:18
Alignment explanation
Indices: 29641185--29641220 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29641175 TGGGCCCAAC
*
29641185 AGCCCATCATGCCCATTT
1 AGCCCATCAGGCCCATTT
*
29641203 AGCCCATCCGGCCCATTT
1 AGCCCATCAGGCCCATTT
29641221 GGCCAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.42, G:0.14, T:0.25
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:29654132 original size:40 final size:40
Alignment explanation
Indices: 29654076--29654252 Score: 268
Period size: 40 Copynumber: 4.5 Consensus size: 40
29654066 GGGCGTTACA
*
29654076 CGGGCTAAGTCTCGAAGGCATTTGTGCTATTGATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATTATATC
*
29654116 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATTATATC
* *
29654156 CGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATTATATC
* *
29654196 CGGGCTAAGACCCGAAGGCATTTGTGCGAATTG-TTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-TATTGATTATATC
*
29654236 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
29654253 TACTTGGGTT
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.11
40 107 0.86
41 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATTATATC
Found at i:29655949 original size:27 final size:27
Alignment explanation
Indices: 29655913--29656016 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
29655903 AGTCGATAAG
* *
29655913 TTGTAGAATTAGCAAAATATCCCTAG-T
1 TTGTAAAATTACCAAAATA-CCCTAGAT
*
29655940 TTGTAAAATTACCAAAATACCCTTGAT
1 TTGTAAAATTACCAAAATACCCTAGAT
* ** * * *
29655967 TTGTGAAATTACTGAAATACCATCGAC
1 TTGTAAAATTACCAAAATACCCTAGAT
*
29655994 TTGTAAAATTACCAAAGTACCCT
1 TTGTAAAATTACCAAAATACCCT
29656017 CAATTTACAG
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 5 0.08
27 57 0.92
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTAGAT
Found at i:29656068 original size:27 final size:27
Alignment explanation
Indices: 29655944--29656070 Score: 78
Period size: 27 Copynumber: 4.7 Consensus size: 27
29655934 CCTAGTTTGT
* **
29655944 AAAATTACCA-AAATACCCTTGATTTGT
1 AAAATTA-CAGAAATACCCTCGATTTAC
* * * * **
29655971 GAAATTACTGAAATACCATCGACTTGT
1 AAAATTACAGAAATACCCTCGATTTAC
* *
29655998 AAAATTACCA-AAGTACCCTCAATTTAC
1 AAAATTA-CAGAAATACCCTCGATTTAC
* * ***
29656025 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACAGAAATACCCTCGATTTAC
29656052 AAAATTACAGAAATACCCT
1 AAAATTACAGAAATACCCT
29656071 TGTAAGGTAG
Statistics
Matches: 73, Mismatches: 24, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
26 2 0.03
27 70 0.96
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTCGATTTAC
Found at i:29656501 original size:8 final size:8
Alignment explanation
Indices: 29656488--29656535 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
29656478 ATGAGCCAAA
*
29656488 AATGGGTC
1 AATGGGCC
29656496 AATGGGCC
1 AATGGGCC
*
29656504 AATGGGCT
1 AATGGGCC
*
29656512 AACGGGCC
1 AATGGGCC
29656520 AATGGGCC
1 AATGGGCC
*
29656528 AACGGGCC
1 AATGGGCC
29656536 CACTTTGGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (8 bp):
AATGGGCC
Found at i:29656782 original size:55 final size:55
Alignment explanation
Indices: 29656717--29656826 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
29656707 ACGTATGCCA
29656717 TGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAACGTT
1 TGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAACGTT
*
29656772 TGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAGCGTT
1 TGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAACGTT
29656827 CTGGCAGCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (55 bp):
TGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAACGTT
Found at i:29656889 original size:27 final size:26
Alignment explanation
Indices: 29656845--29656896 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29656835 CTCGCTGCAA
*
29656845 TCTGGTGACCTCGCCACATATATCTGT
1 TCTGGTGACCTCACCACA-ATATCTGT
* *
29656872 TCTGGTGACTTCATCACAATATCTG
1 TCTGGTGACCTCACCACAATATCTG
29656897 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCACCACAATATCTGT
Found at i:29665741 original size:27 final size:27
Alignment explanation
Indices: 29665638--29665747 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 27
29665628 AGTGGATAAG
* *
29665638 TTGTAGAATTACCAAAATACCC-CTAGT
1 TTGTAAAATTACCAAAATACCCTCGA-T
* * *
29665665 TTGTAAAACTACCAAAATACCCCCAAT
1 TTGTAAAATTACCAAAATACCCTCGAT
* ** *
29665692 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAT
*
29665719 TTGTAAAATTACCAAAGTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
29665746 TT
1 TT
29665748 ACAGAATTAC
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 65 0.97
28 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAT
Found at i:29665793 original size:27 final size:28
Alignment explanation
Indices: 29665697--29665795 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 28
29665687 CCAATTTGTG
* * **
29665697 AAATTA-CTGAAATACCCTCGACTTGTA
1 AAATTACCAGAAATACCCTCGATTTACA
*
29665724 AAATTACCA-AAGTACCCTCGATTTACA
1 AAATTACCAGAAATACCCTCGATTTACA
* ***
29665751 GAATTACC-GTTTTACCCTCGATTTACA
1 AAATTACCAGAAATACCCTCGATTTACA
*
29665778 AAATTA-TAGAAATACCCT
1 AAATTACCAGAAATACCCT
29665796 TGTAAGGTAG
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (28 bp):
AAATTACCAGAAATACCCTCGATTTACA
Found at i:29665809 original size:27 final size:27
Alignment explanation
Indices: 29665779--29665832 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
29665769 CGATTTACAA
* *
29665779 AATTATAGAAATACCCTTGTAAGGTAG
1 AATTACAGAAATACCCCTGTAAGGTAG
*
29665806 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTACAGAAATACCCCTGTAAGGTAG
29665833 GACTACTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGTAAGGTAG
Found at i:29666530 original size:27 final size:26
Alignment explanation
Indices: 29666486--29666537 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29666476 CTCGCTGCAA
*
29666486 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
29666513 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
29666538 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Done.