Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 188 of 313
Found at i:57892990 original size:21 final size:21
Alignment explanation
Indices: 57892941--57892990 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
57892931 GGGGGTTTCA
57892941 AGGGGGGAAATTAGGGATTTT
1 AGGGGGGAAATTAGGGATTTT
* *
57892962 AGGAGGGAAAGTTGGGGATTTT
1 AGGGGGGAAA-TTAGGGATTTT
57892984 -GGGGGGA
1 AGGGGGGA
57892991 GGGGATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.26, C:0.00, G:0.50, T:0.24
Consensus pattern (21 bp):
AGGGGGGAAATTAGGGATTTT
Found at i:57893176 original size:77 final size:76
Alignment explanation
Indices: 57893024--57893291 Score: 432
Period size: 75 Copynumber: 3.5 Consensus size: 76
57893014 ATTTTTCTAT
* * * *
57893024 AAATTATTTTTTTTAGCGTTTTTTATAAAAATGCCGCTAAATGTTTTTCTATATAAAAT-AGCTA
1 AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGA-CTA
57893088 TTTTTTAAAAGTA
65 TTTTTT-AAAGTA
*
57893101 AAATTATTTTTTGTGGCGCTTTTTTATAAAAACGTCGCTAAATGTTTTGCTATATAAAATGACTA
1 AAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTA
57893166 TTTTTTAAAGTA
65 TTTTTTAAAGTA
*
57893178 AAATTATTTTTTGTGACGTTTTTTATAAAAACG-CGCTAAATGTTTTGCTATATAAAATGACTAT
1 AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTAT
57893242 TTTTTAAAGTA
66 TTTTTAAAGTA
*
57893253 AAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTA
1 AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTA
57893292 TTACTTACCT
Statistics
Matches: 180, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
75 73 0.41
76 20 0.11
77 39 0.22
78 47 0.26
79 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (76 bp):
AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTAT
TTTTTAAAGTA
Found at i:57893309 original size:93 final size:90
Alignment explanation
Indices: 57893211--57893392 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 90
57893201 TATAAAAACG
*
57893211 CGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 CGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTA---TTTGTGGCGTTTTT
57893276 AATAAAAACGCCGCTATTACTTACCTTC
63 AATAAAAACGCCGCTATTACTTACCTTC
* * *
57893304 CGCTAAATATTTTGCTGTATAAAATTACTATTTTTTAAAGTAAAATTATTTGTGGCGTTTTTTAT
1 CGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTGTGGCGTTTTTAAT
*
57893369 AAAAACGCCGCTATTGCTTACCTT
66 AAAAACGCCGCTATTACTTACCTT
57893393 TTGCGGCGTT
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
90 39 0.46
93 45 0.54
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (90 bp):
CGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTGTGGCGTTTTTAAT
AAAAACGCCGCTATTACTTACCTTC
Found at i:57893574 original size:76 final size:76
Alignment explanation
Indices: 57893391--57893574 Score: 323
Period size: 77 Copynumber: 2.4 Consensus size: 76
57893381 ATTGCTTACC
* * *
57893391 TTTTGCGGCGTTTTTTATGAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
57893456 GTAAAATTATT
66 GTAAAATTATT
57893467 TTTTGTGGCGCTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGTGGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
57893532 AGTAAAATTATT
65 AGTAAAATTATT
*
57893544 TTTTGTGGCGTTTTTAATAAAAACGCCGCTA
1 TTTTGTGGCGTTTTTTATAAAAACGCCGCTA
57893575 TTGCTTACCT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 29 0.28
77 74 0.72
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (76 bp):
TTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
GTAAAATTATT
Found at i:57893763 original size:228 final size:230
Alignment explanation
Indices: 57893467--57893908 Score: 746
Period size: 228 Copynumber: 1.9 Consensus size: 230
57893457 TAAAATTATT
* *
57893467 TTTTGTGGCGCTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCGCTTTTTTATAAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
57893532 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCG-TT
66 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTT
* *
57893596 TTTATAAAAACGCCGCTAAATATTTTGCTGTATAAAATGACTATTTTTTAAAGTAAAATTA-TTT
131 TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
57893660 GTGGCGTTTTTTATAAAAACGTCGCTATTGCTTACC
196 GTGGCG-TTTTTATAAAAACGTCGCTATTGCTTACC
* *
57893696 TTTTGCGGCG-TTTTTTATGAAAACGCTGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCGCTTTTTTATAAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
* * *
57893760 AGTAAGATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACTTTTTGCGGCGTTT
66 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTT
*
57893825 TTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
131 TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTA--TT
57893890 TTGTGGCGTTTTTATAAAA
194 TTGTGGCGTTTTTATAAAA
57893909 CGCTGCTAAA
Statistics
Matches: 199, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
228 110 0.55
229 69 0.35
231 11 0.06
232 9 0.05
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (230 bp):
TTTTGCGGCGCTTTTTTATAAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTT
TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
GTGGCGTTTTTATAAAAACGTCGCTATTGCTTACC
Found at i:57893826 original size:116 final size:116
Alignment explanation
Indices: 57893467--57893916 Score: 741
Period size: 116 Copynumber: 3.9 Consensus size: 116
57893457 TAAAATTATT
*
57893467 TTTTGTGGCGCTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
*
57893532 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACC
65 AGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
* *
57893584 TTTTGCGGCG-TTTTTATAAAAACGCCGCTAAATATTTTGCTGTATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
*
57893648 GTAAAATTA---TTTGTGGCGTTTTTTATAAAAACGTCGCTATTGCTTACC
66 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
* * *
57893696 TTTTGCGGCGTTTTTTATGAAAACGCTGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
* *
57893761 GTAAGATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACT
66 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
*
57893812 TTTTGCGGCGTTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
*
57893877 GTAAAATTATTTTTTGTGGCG-TTTTTAT-AAAACGCTGCTA
66 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTA
57893917 AATGTTTTGC
Statistics
Matches: 310, Mismatches: 19, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
112 47 0.15
113 57 0.18
114 11 0.04
115 68 0.22
116 118 0.38
117 9 0.03
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (116 bp):
TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
Found at i:57893926 original size:74 final size:69
Alignment explanation
Indices: 57893811--57893970 Score: 205
Period size: 68 Copynumber: 2.2 Consensus size: 69
57893801 TATTGCTTAC
* *
57893811 TTTTTGCGGCGTTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTTGTGGCG-TTTTTATAAAAACGCCACTAAATGTTTTGC--TAT---ACG-CTATTTTTTAA
57893876 AGTAAAATTAT
59 AGTAAAATTAT
** *
57893887 TTTTTGTGGCGTTTTTAT-AAAACGCTGCTAAATGTTTTGCTATGCGCTATTTTTTAAAGTAAAA
1 TTTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATACGCTATTTTTTAAAGTAAAA
57893951 TTAT
66 TTAT
57893955 TTTTTGTGGCGTTTTT
1 TTTTTGTGGCGTTTTT
57893971 CTTGAAAACG
Statistics
Matches: 79, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
68 38 0.48
69 1 0.01
72 3 0.04
74 20 0.25
75 7 0.09
76 10 0.13
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (69 bp):
TTTTTGTGGCGTTTTTATAAAAACGCCACTAAATGTTTTGCTATACGCTATTTTTTAAAGTAAAA
TTAT
Found at i:57895051 original size:89 final size:89
Alignment explanation
Indices: 57894871--57895052 Score: 206
Period size: 89 Copynumber: 2.0 Consensus size: 89
57894861 CCCCAAACAA
* *
57894871 CTAACCTCTAAACCTTATTTAATATAAAAAATAAAAAACACTAATTAATCTAAATCATAAACCCT
1 CTAACCTCTAAACCTTACTTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCT
* * * *
57894936 AACCCGACCTTGAATCCCTAACCC
66 AACACGACCTCGAATCCATAAACC
* * * ** *
57894960 CTAACC-CTTAAACGTTACTTAATATATAAATTAAAATGCACTAATTAATCTAAACCCTAAACCC
1 CTAACCTC-TAAACCTTACTTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCC
* *
57895024 TAACATGACAC-CGAATCTATAAACC
65 TAACACGAC-CTCGAATCCATAAACC
57895049 CTAA
1 CTAA
57895053 ATCCTTAACT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.01
89 75 0.97
90 1 0.01
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (89 bp):
CTAACCTCTAAACCTTACTTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCT
AACACGACCTCGAATCCATAAACC
Found at i:57895066 original size:7 final size:7
Alignment explanation
Indices: 57895045--57895109 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
57895035 CGAATCTATA
*
57895045 AACCCTA
1 AACCCTT
*
57895052 AATCCTT
1 AACCCTT
*
57895059 AACTCTT
1 AACCCTT
57895066 AA-CCTCT
1 AACCCT-T
57895073 AACCCTT
1 AACCCTT
*
57895080 AACCCCT
1 AACCCTT
57895087 AACCCTT
1 AACCCTT
*
57895094 AACCCAT
1 AACCCTT
*
57895101 AAACCTT
1 AACCCTT
57895108 AA
1 AA
57895110 ATCACAACCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
6 2 0.04
7 41 0.89
8 3 0.07
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (7 bp):
AACCCTT
Found at i:57895098 original size:14 final size:14
Alignment explanation
Indices: 57895058--57895109 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
57895048 CCTAAATCCT
* *
57895058 TAACTCTTAACCTC
1 TAACCCTTAACCCC
57895072 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
57895086 TAACCCTTAACCCA
1 TAACCCTTAACCCC
*
57895100 TAAACCTTAA
1 TAACCCTTAA
57895110 ATCACAACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:57895150 original size:14 final size:15
Alignment explanation
Indices: 57895131--57895160 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57895121 TAAATCAGAG
57895131 TCCCTAA-TCCATAA
1 TCCCTAATTCCATAA
57895145 TCCCTAATTCCATAA
1 TCCCTAATTCCATAA
57895160 T
1 T
57895161 TTATAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
TCCCTAATTCCATAA
Found at i:57895601 original size:41 final size:41
Alignment explanation
Indices: 57895539--57895738 Score: 274
Period size: 41 Copynumber: 4.9 Consensus size: 41
57895529 AAATGTTTTT
* ** *
57895539 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
57895580 GCGGTGCTTTTTTAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
57895621 GCGGCGCTTTTTTAAAAACTCCACTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
57895662 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATATGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
** *
57895703 GCGGCTTTTTTTTAAAAAACGCTGCTAAAGATCTGA
1 GCGGCGCTTTTTT-AAAAACGCCGCTAAAGATCTGA
57895739 AAGTAGAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 119 0.86
42 20 0.14
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:57896372 original size:117 final size:107
Alignment explanation
Indices: 57896062--57896421 Score: 585
Period size: 107 Copynumber: 3.3 Consensus size: 107
57896052 TTATAGGCAC
*
57896062 AAGTTTTTAATTAATATTTATGTAATTAAAAAAAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
57896127 TTACTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
57896169 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
57896234 TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
* *
57896276 AATTTTTTAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
57896341 TTGCTACTAACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGAC--AA----A-A---TTTTACATTCTTTTCTGTAATTTTACA
57896393 AAGTTTTTAATTAATATTTATGTAATTAA
1 AAGTTTTTAATTAATATTTATGTAATTAA
57896422 TATTTATGTA
Statistics
Matches: 237, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
107 178 0.75
109 2 0.01
113 1 0.00
114 1 0.00
117 55 0.23
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (107 bp):
AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
Found at i:57896420 original size:15 final size:15
Alignment explanation
Indices: 57896400--57896436 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
57896390 ACAAAGTTTT
57896400 TAATTAATATTTATG
1 TAATTAATATTTATG
57896415 TAATTAATATTTATG
1 TAATTAATATTTATG
57896430 TAATTAA
1 TAATTAA
57896437 AAATAGTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:57897125 original size:15 final size:15
Alignment explanation
Indices: 57897105--57897141 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
57897095 ACAAAGTTTT
57897105 TAATTAATATTTATG
1 TAATTAATATTTATG
*
57897120 TAATTAATATTTATT
1 TAATTAATATTTATG
57897135 TAATTAA
1 TAATTAA
57897142 AAATAGTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:57899114 original size:19 final size:19
Alignment explanation
Indices: 57899090--57899147 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
57899080 GTGGTGGAGA
*
57899090 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
* * *
57899109 AGAGGAAGAAATAACCATC
1 AGAGGAACAAAGAACCAGC
57899128 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
57899147 A
1 A
57899148 CCATCAGAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.52, C:0.21, G:0.24, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:57899151 original size:25 final size:25
Alignment explanation
Indices: 57899122--57899197 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
57899112 GGAAGAAATA
57899122 ACCATCAGAGGAACAAAGAACCAGC
1 ACCATCAGAGGAACAAAGAACCAGC
* * *
57899147 ACCATCAGAAGAACAAAGAATCAGT
1 ACCATCAGAGGAACAAAGAACCAGC
* * *
57899172 ACCAGT-AGAGGATCAATGAAGCAGC
1 ACCA-TCAGAGGAACAAAGAACCAGC
57899197 A
1 A
57899198 GAGGAACAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.09
Consensus pattern (25 bp):
ACCATCAGAGGAACAAAGAACCAGC
Found at i:57899997 original size:18 final size:18
Alignment explanation
Indices: 57899976--57900015 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
57899966 ATTCTGGAAT
*
57899976 TTTTATAAA-TATTTTGA
1 TTTTAAAAATTATTTTGA
57899993 GTTTTAAAAATTATTTTGA
1 -TTTTAAAAATTATTTTGA
57900012 TTTT
1 TTTT
57900016 TTTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTGA
Found at i:57900016 original size:19 final size:18
Alignment explanation
Indices: 57899974--57900016 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
57899964 AAATTCTGGA
*
57899974 ATTTTTATAAATATTTTG
1 ATTTTTAAAAATATTTTG
*
57899992 AGTTTTAAAAATTATTTTG
1 ATTTTTAAAAA-TATTTTG
57900011 ATTTTT
1 ATTTTT
57900017 TTAATTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAAATATTTTG
Found at i:57906630 original size:17 final size:17
Alignment explanation
Indices: 57906604--57906637 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57906594 GATTAAAAAT
*
57906604 CAAATCTTCTAAGATTA
1 CAAATATTCTAAGATTA
57906621 CAAATATTCTAAGATTA
1 CAAATATTCTAAGATTA
57906638 GTTTCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAATATTCTAAGATTA
Found at i:57910031 original size:22 final size:22
Alignment explanation
Indices: 57910003--57910044 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57909993 GAGCCGTGGA
57910003 GGACCGGAGGTAGATCGGTGTC
1 GGACCGGAGGTAGATCGGTGTC
* *
57910025 GGACCGGAGGTGGATTGGTG
1 GGACCGGAGGTAGATCGGTG
57910045 CCAGAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.14, G:0.50, T:0.19
Consensus pattern (22 bp):
GGACCGGAGGTAGATCGGTGTC
Found at i:57910697 original size:20 final size:20
Alignment explanation
Indices: 57910674--57910712 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57910664 AATGGAATAC
57910674 AATGGGATACT-ATGGGATGT
1 AATGGGATA-TGATGGGATGT
*
57910694 AATGTGATATGATGGGATG
1 AATGGGATATGATGGGATG
57910713 ATTACAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (20 bp):
AATGGGATATGATGGGATGT
Found at i:57911230 original size:19 final size:19
Alignment explanation
Indices: 57911206--57911248 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
57911196 TAATGAACTT
*
57911206 TTAAACCTATACCGACTAA
1 TTAAACCTATACCAACTAA
57911225 TTAAACCTATACCAACTAA
1 TTAAACCTATACCAACTAA
57911244 TTAAA
1 TTAAA
57911249 TTATGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
TTAAACCTATACCAACTAA
Found at i:57915500 original size:18 final size:17
Alignment explanation
Indices: 57915473--57915506 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57915463 CTGGACCTTG
57915473 ACCTGCAGGAGGATAGTA
1 ACCTGCAGGAGG-TAGTA
*
57915491 ACCTGGAGGAGGTAGT
1 ACCTGCAGGAGGTAGT
57915507 GGATGCCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.15, G:0.38, T:0.18
Consensus pattern (17 bp):
ACCTGCAGGAGGTAGTA
Found at i:57915657 original size:15 final size:15
Alignment explanation
Indices: 57915637--57915719 Score: 148
Period size: 15 Copynumber: 5.5 Consensus size: 15
57915627 TGCTGTTGTG
57915637 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
*
57915652 CAGGTGGATATTGCC
1 CAGGTGGATACTGCC
*
57915667 CAGGTGGATATTGCC
1 CAGGTGGATACTGCC
57915682 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
57915697 CAGGTGGATACTGCC
1 CAGGTGGATACTGCC
57915712 CAGGTGGA
1 CAGGTGGA
57915720 AGTAGCGGTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 66 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.22
Consensus pattern (15 bp):
CAGGTGGATACTGCC
Found at i:57916081 original size:11 final size:11
Alignment explanation
Indices: 57916054--57916088 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
57916044 AGACTCTGAA
57916054 AATCAAAACA-
1 AATCAAAACAC
*
57916064 AAACAAAACAC
1 AATCAAAACAC
57916075 AATCAAAACAC
1 AATCAAAACAC
57916086 AAT
1 AAT
57916089 TGATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (11 bp):
AATCAAAACAC
Found at i:57917322 original size:11 final size:11
Alignment explanation
Indices: 57917306--57917332 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
57917296 TAAAAATAAA
57917306 AAAATTATTTT
1 AAAATTATTTT
57917317 AAAATTATTTT
1 AAAATTATTTT
57917328 AAAAT
1 AAAAT
57917333 AAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:57919198 original size:21 final size:20
Alignment explanation
Indices: 57919160--57919199 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
57919150 AAGTTTGTGT
57919160 TATTATTTTTATTTATAAAA
1 TATTATTTTTATTTATAAAA
57919180 TATTATATATTTA-TTATAAA
1 TATTAT-T-TTTATTTATAAA
57919200 CTTAGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTTATAAAA
Found at i:57920803 original size:18 final size:18
Alignment explanation
Indices: 57920780--57920817 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
57920770 TGCGTGTTAT
57920780 AAATGTT-ATGAAATTGTG
1 AAATGTTGAT-AAATTGTG
57920798 AAATGTTGATAAATTGTG
1 AAATGTTGATAAATTGTG
57920816 AA
1 AA
57920818 TACTGGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
AAATGTTGATAAATTGTG
Found at i:57927823 original size:25 final size:25
Alignment explanation
Indices: 57927756--57927823 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
57927746 TTCAAGCGAG
* *
57927756 CCAT-ATCGGGAAGCTCACAAAGAG
1 CCATAATCAGGAAGCTCACAAAGAC
57927780 CCAGTTAAT-AGGAAGCTCACAAAGAC
1 CCA--TAATCAGGAAGCTCACAAAGAC
57927806 CCATAATCAGGAAGCTCA
1 CCATAATCAGGAAGCTCA
57927824 TAAGAGCTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 7 0.18
25 10 0.26
26 19 0.50
27 2 0.05
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (25 bp):
CCATAATCAGGAAGCTCACAAAGAC
Found at i:57928291 original size:21 final size:21
Alignment explanation
Indices: 57928267--57928308 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57928257 TAAATTTAAC
*
57928267 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
57928288 TCAATTCCATTCAATTCACAT
1 TCAATTCAATACAATTCACAT
57928309 CTTAGGCAAA
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:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:57928298 original size:10 final size:11
Alignment explanation
Indices: 57928278--57928308 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
57928268 CAATTTAATA
57928278 CAATTCACATT
1 CAATTCACATT
57928289 CAATTC-CATT
1 CAATTCACATT
57928299 CAATTCACAT
1 CAATTCACAT
57928309 CTTAGGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (11 bp):
CAATTCACATT
Found at i:57930372 original size:12 final size:13
Alignment explanation
Indices: 57930347--57930378 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
57930337 ATTTTTCAGG
57930347 TCATTTTAATTTT
1 TCATTTTAATTTT
57930360 TCATTTTAA-TTT
1 TCATTTTAATTTT
57930372 TCATTTT
1 TCATTTT
57930379 GGAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTAATTTT
Found at i:57930455 original size:58 final size:59
Alignment explanation
Indices: 57930361--57930481 Score: 138
Period size: 58 Copynumber: 2.1 Consensus size: 59
57930351 TTTAATTTTT
* ** * * *
57930361 CATTTT-AATTTTCATTTTGGAAAAAATTACATTCATTTCGAAATGATT-CTATTTCTC
1 CATTTTCATTTTTCATTTTGGAAAAAACCACAATCATTTCCAAATGATTCCTATTGCTC
* * * *
57930418 TATTTTCATTTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTGCTC
1 CATTTTCATTTTTCATTTTGGAAAAAACCACAATCATTTCCAAATGATTCCTATTGCTC
57930477 CATTT
1 CATTT
57930482 CACCATTTCT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 5 0.10
58 34 0.67
59 12 0.24
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (59 bp):
CATTTTCATTTTTCATTTTGGAAAAAACCACAATCATTTCCAAATGATTCCTATTGCTC
Found at i:57932785 original size:30 final size:30
Alignment explanation
Indices: 57932739--57932804 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
57932729 AGACTATTTT
*
57932739 ATTAATGCAATAAATGAATTTGTTTTATTA
1 ATTAATACAATAAATGAATTTGTTTTATTA
*
57932769 ATTAATACAATCAATGAATTTGTTTTATTA
1 ATTAATACAATAAATGAATTTGTTTTATTA
57932799 ATTAAT
1 ATTAAT
57932805 CTGTTTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (30 bp):
ATTAATACAATAAATGAATTTGTTTTATTA
Found at i:57935442 original size:29 final size:30
Alignment explanation
Indices: 57935410--57935479 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
57935400 AAGGAAGCTG
* * *
57935410 TTGTGGCTATCTTTA-TTAAATGAATGTCT
1 TTGTGGATATCTTTATTTAAAAGAATGCCT
* *
57935439 TTGTGGTTATC-TTATTTAAAAGGATGCCT
1 TTGTGGATATCTTTATTTAAAAGAATGCCT
57935468 TTGTGGATATCT
1 TTGTGGATATCT
57935480 CTGTTAGAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.23, C:0.10, G:0.20, T:0.47
Consensus pattern (30 bp):
TTGTGGATATCTTTATTTAAAAGAATGCCT
Found at i:57935490 original size:29 final size:28
Alignment explanation
Indices: 57935378--57935491 Score: 72
Period size: 29 Copynumber: 3.9 Consensus size: 28
57935368 TAAGCGGACA
*
57935378 CCTTTGTGGCA-ATCTCTGTTATAAGGAAG
1 CCTTTGTGG-ATATCTCTGTTA-AAGGATG
* * * *
57935407 -CTGTTGTGGCTATCTTTATTAAATGAATG
1 CCT-TTGTGGATATCTCTGTTAAA-GGATG
* * *
57935436 TCTTTGTGGTTATCT-TATTTAAAAGGATG
1 CCTTTGTGGATATCTCT-GTT-AAAGGATG
57935465 CCTTTGTGGATATCTCTGTTAGAAGGA
1 CCTTTGTGGATATCTCTGTTA-AAGGA
57935492 CGCCCTCATT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
28 6 0.09
29 54 0.82
30 6 0.09
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (28 bp):
CCTTTGTGGATATCTCTGTTAAAGGATG
Found at i:57935878 original size:11 final size:11
Alignment explanation
Indices: 57935862--57935912 Score: 102
Period size: 11 Copynumber: 4.6 Consensus size: 11
57935852 GGGGGGGACG
57935862 ACGCCAAGGCT
1 ACGCCAAGGCT
57935873 ACGCCAAGGCT
1 ACGCCAAGGCT
57935884 ACGCCAAGGCT
1 ACGCCAAGGCT
57935895 ACGCCAAGGCT
1 ACGCCAAGGCT
57935906 ACGCCAA
1 ACGCCAA
57935913 AGGAGTGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.29, C:0.37, G:0.25, T:0.08
Consensus pattern (11 bp):
ACGCCAAGGCT
Found at i:57943102 original size:45 final size:45
Alignment explanation
Indices: 57943038--57943130 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
57943028 AAGTATCATA
57943038 TCATAAGGGAGGCAATTACAGACATTATCGTGGATGTAGTCAAGG
1 TCATAAGGGAGGCAATTACAGACATTATCGTGGATGTAGTCAAGG
57943083 TCATAAGGGAGGCAATTACAGACATTATCGTGGATGTAGTCAAGG
1 TCATAAGGGAGGCAATTACAGACATTATCGTGGATGTAGTCAAGG
57943128 TCA
1 TCA
57943131 CATATAAGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (45 bp):
TCATAAGGGAGGCAATTACAGACATTATCGTGGATGTAGTCAAGG
Found at i:57945070 original size:25 final size:25
Alignment explanation
Indices: 57945037--57945086 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57945027 CTTTAAGTCA
57945037 TCTCTTGTTCATAATGAAAAAATGC
1 TCTCTTGTTCATAATGAAAAAATGC
57945062 TCTCTTGTTCATAATGAAAAAATGC
1 TCTCTTGTTCATAATGAAAAAATGC
57945087 ATTCACTGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (25 bp):
TCTCTTGTTCATAATGAAAAAATGC
Found at i:57946866 original size:54 final size:53
Alignment explanation
Indices: 57946755--57947041 Score: 267
Period size: 54 Copynumber: 5.6 Consensus size: 53
57946745 AAATAAAAAA
* * * * *
57946755 TTTTTGGGTGCTAGCCTGTCAATGGCCGACACTAGCAGTAC----AAAATTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAATACGAAAAAAAATTT
*
57946804 TTTTTGGGTGCTGGTCTGTCAATGGCCTG-CACCAACAATACGAAAAAGAAATTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCC-GACACCAACAATACGAAAAA-AAATTT
* * * *
57946858 TTTTTGGGTGCTGGCCTGTTAATGGCCGTCACCAGCAGTACGAAAAAAAA---
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAATACGAAAAAAAATTT
* *
57946908 ATTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAGTACGAAAAAAAACTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAATACGAAAAAAAA-TTT
** * * **
57946962 TTTTTTTGTGCTGGCCTGTCAATGGCCGGCA-CTAGTATACGAAAAAAAA---
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAATACGAAAAAAAATTT
* *
57947011 ATTTTGGGTGCTGACCT-TCTAATGGCCGACA
1 TTTTTGGGTGCTGGCCTGTC-AATGGCCGACA
57947042 TCAAACTTTA
Statistics
Matches: 199, Mismatches: 27, Indels: 24
0.80 0.11 0.10
Matches are distributed among these distances:
48 2 0.01
49 57 0.29
50 47 0.24
53 20 0.10
54 73 0.37
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (53 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGACACCAACAATACGAAAAAAAATTT
Found at i:57946950 original size:104 final size:104
Alignment explanation
Indices: 57946755--57947041 Score: 368
Period size: 103 Copynumber: 2.8 Consensus size: 104
57946745 AAATAAAAAA
* ***** *
57946755 TTTTTGGGTGCTAGCCTGTCAATGGCCGACACTAGCAGTAC-AAAATTTTTTTTTGGGTGCTGGT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACTAGCAGTACGAAAAAAAAATTTTGGGTGCTGGC
57946819 CTGTCAATGGCCTG-CACCAACAATACGAAAAAGAAA-TTT
66 CTGTCAATGGCC-GACACCAACAATACGAAAAA-AAACTTT
* * *
57946858 TTTTTGGGTGCTGGCCTGTTAATGGCCGTCACCAGCAGTACGAAAAAAAAATTTTGGGTGCTGGC
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACTAGCAGTACGAAAAAAAAATTTTGGGTGCTGGC
*
57946923 CTGTCAATGGCCGACACCAACAGTACGAAAAAAAACTTT
66 CTGTCAATGGCCGACACCAACAATACGAAAAAAAACTTT
** * * *
57946962 TTTTTTTGTGCTGGCCTGTCAATGGCCGGCACTAGTA-TACGAAAAAAAAATTTTGGGTGCTGAC
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGACACTAGCAGTACGAAAAAAAAATTTTGGGTGCTGGC
57947026 CT-TCTAATGGCCGACA
66 CTGTC-AATGGCCGACA
57947042 TCAAACTTTA
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
102 2 0.01
103 80 0.49
104 80 0.49
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (104 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGACACTAGCAGTACGAAAAAAAAATTTTGGGTGCTGGC
CTGTCAATGGCCGACACCAACAATACGAAAAAAAACTTT
Found at i:57948042 original size:31 final size:31
Alignment explanation
Indices: 57947978--57948046 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
57947968 TATTAAAAAT
* *
57947978 AGAAAAATTTAAAAATAAAAGAAATATTTAC
1 AGAAAAATTTAAAAATAAAAGAAAAATTAAC
* *
57948009 AGAATAATTTTAAAAT-AAAGTAAAAATTAAC
1 AGAAAAATTTAAAAATAAAAG-AAAAATTAAC
57948040 AGAAAAA
1 AGAAAAA
57948047 AATTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (31 bp):
AGAAAAATTTAAAAATAAAAGAAAAATTAAC
Found at i:57950204 original size:33 final size:33
Alignment explanation
Indices: 57950127--57950205 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
57950117 ATGGAGTGAT
**
57950127 CGGTGGTCGTCAACGGTGGTTGAAGGTGAACAA
1 CGGTGGTCGTCGGCGGTGGTTGAAGGTGAACAA
**
57950160 CGGTGGTCGTCGGCGGTGGTTG-AGGATGAACCG
1 CGGTGGTCGTCGGCGGTGGTTGAAGG-TGAACAA
57950193 CGGTGGTCGTCGG
1 CGGTGGTCGTCGG
57950206 AATTGCCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.07
33 38 0.93
ACGTcount: A:0.15, C:0.18, G:0.46, T:0.22
Consensus pattern (33 bp):
CGGTGGTCGTCGGCGGTGGTTGAAGGTGAACAA
Found at i:57950604 original size:14 final size:13
Alignment explanation
Indices: 57950587--57950624 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
57950577 TAATTTCATT
57950587 TTTTTCATTTAATA
1 TTTTTCATTTAA-A
57950601 TTTTT-ATTTAAA
1 TTTTTCATTTAAA
57950613 TATTTTCATTTA
1 T-TTTTCATTTA
57950625 TTTATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 10 0.45
14 10 0.45
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTCATTTAAA
Found at i:57950630 original size:14 final size:14
Alignment explanation
Indices: 57950588--57950630 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
57950578 AATTTCATTT
57950588 TTTTCATTTA-ATA
1 TTTTCATTTATATA
* *
57950601 TTTTTATTTAAATA
1 TTTTCATTTATATA
*
57950615 TTTTCATTTATTTA
1 TTTTCATTTATATA
57950629 TT
1 TT
57950631 ATTTTTGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTCATTTATATA
Found at i:57950855 original size:10 final size:10
Alignment explanation
Indices: 57950840--57950873 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
57950830 TCAACCTTTT
57950840 TTTTATTTCA
1 TTTTATTTCA
57950850 TTTTATTTCA
1 TTTTATTTCA
57950860 TTTTTATTTCA
1 -TTTTATTTCA
57950871 TTT
1 TTT
57950874 CATTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATTTCA
Found at i:57950864 original size:11 final size:11
Alignment explanation
Indices: 57950839--57950873 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
57950829 TTCAACCTTT
57950839 TTTTTATTTCA
1 TTTTTATTTCA
57950850 -TTTTATTTCA
1 TTTTTATTTCA
57950860 TTTTTATTTCA
1 TTTTTATTTCA
57950871 TTT
1 TTT
57950874 CATTCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATTTCA
Found at i:57950874 original size:5 final size:5
Alignment explanation
Indices: 57950844--57950917 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
57950834 CCTTTTTTTT
* *
57950844 ATTTC ATTTT ATTTC ATTTTT ATTTC ATTTC A-TTC AAATTTC ATTTCC
1 ATTTC ATTTC ATTTC A-TTTC ATTTC ATTTC ATTTC --ATTTC ATTT-C
* *
57950892 ATTACC ATTTCC CTTTC ATTTC ATTT
1 ATT-TC ATTT-C ATTTC ATTTC ATTT
57950918 AAAAAATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
4 3 0.06
5 31 0.57
6 17 0.31
7 3 0.06
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:57950958 original size:21 final size:21
Alignment explanation
Indices: 57950926--57951027 Score: 63
Period size: 20 Copynumber: 5.0 Consensus size: 21
57950916 TTAAAAAATA
57950926 TATTTTTT-TCAATTTCAATT
1 TATTTTTTCTCAATTTCAATT
57950946 TATTTTTTCTCAA-TTC-ATT
1 TATTTTTTCTCAATTTCAATT
* * *
57950965 TATATTATTTTTTAATTTAAATT
1 TAT-TT-TTTCTCAATTTCAATT
*
57950988 TAACTTTTTCCTC-ATTTC-ATT
1 T-A-TTTTTTCTCAATTTCAATT
** *
57951009 TAAATTTTCT-ATTTTCAAT
1 TATTTTTTCTCAATTTCAAT
57951028 GCAAATTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
19 15 0.24
20 16 0.26
21 14 0.23
22 6 0.10
23 7 0.11
24 3 0.05
25 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTTCTCAATTTCAATT
Found at i:57950965 original size:19 final size:20
Alignment explanation
Indices: 57950926--57950989 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
57950916 TTAAAAAATA
57950926 TATTTTTTTCAATTTCAATT
1 TATTTTTTTCAATTTCAATT
*
57950946 TATTTTTTCTCAA-TTCATTT
1 TATTTTTT-TCAATTTCAATT
* *
57950966 ATATTATTTTTTAATTTAAATT
1 -TATT-TTTTTCAATTTCAATT
57950988 TA
1 TA
57950990 ACTTTTTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 14 0.39
21 13 0.36
22 9 0.25
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTTTCAATTTCAATT
Found at i:57950969 original size:41 final size:43
Alignment explanation
Indices: 57950924--57951061 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 43
57950914 ATTTAAAAAA
*
57950924 TATATT-TTTTTCAATTTCAATTTA-TTTTTTCTCAATTCATT
1 TATATTATTTTTCAATTTCAATTTACTTTTTTCTCATTTCATT
* * *
57950965 TATATTATTTTTTAATTTAAATTTAACTTTTTCCTCATTTCATT
1 TATATTATTTTTCAATTTCAATTT-ACTTTTTTCTCATTTCATT
* * * *
57951009 TAAATTTTCTATTTTCAA-TGCAAATTTATTTTTTTCTCATTTCATTT
1 T--ATATTAT-TTTTCAATTTC-AATTTACTTTTTTCTCATTTCA-TT
57951056 TATATT
1 TATATT
57951062 TAAATTTTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
41 6 0.08
42 15 0.19
43 1 0.01
44 16 0.21
45 4 0.05
46 21 0.27
47 14 0.18
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (43 bp):
TATATTATTTTTCAATTTCAATTTACTTTTTTCTCATTTCATT
Found at i:57951043 original size:27 final size:27
Alignment explanation
Indices: 57951013--57951092 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
57951003 TTCATTTAAA
*
57951013 TTTTCTATTTTCAATGCAAATTTATTT
1 TTTTCTATTTTCAATTCAAATTTATTT
* * * **
57951040 TTTTCTCA-TTTCATTTTATATTTA-AA
1 TTTTCT-ATTTTCAATTCAAATTTATTT
57951066 TTTTCTATTTTCAATTCAAATTT-TTT
1 TTTTCTATTTTCAATTCAAATTTATTT
57951092 T
1 T
57951093 CTCCTCATTT
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
25 1 0.03
26 19 0.49
27 18 0.46
28 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTCTATTTTCAATTCAAATTTATTT
Found at i:57951055 original size:20 final size:20
Alignment explanation
Indices: 57950926--57951055 Score: 57
Period size: 22 Copynumber: 6.0 Consensus size: 20
57950916 TTAAAAAATA
*
57950926 TATTTTTTTC-AATTTCAATT
1 TATTTTTTTCTCATTTC-ATT
*
57950946 TA-TTTTTTCTCAATTCATT
1 TATTTTTTTCTCATTTCATT
* * *
57950965 TATATTATTTTTTAATTTAAATT
1 TAT-TT-TTTTCTCATTT-CATT
* *
57950988 TAACTTTTTCCTCATTTCATT
1 T-ATTTTTTTCTCATTTCATT
* * *
57951009 TAAATTTTCTATTTTCAATGCAAATT
1 T--ATTTT-T-TTCTCATTTC--ATT
57951035 TATTTTTTTCTCATTTCATT
1 TATTTTTTTCTCATTTCATT
57951055 T
1 T
57951056 TATATTTAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
19 12 0.15
20 10 0.12
21 6 0.08
22 28 0.35
23 8 0.10
24 12 0.15
26 4 0.05
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTTTTTTCTCATTTCATT
Found at i:57954095 original size:50 final size:50
Alignment explanation
Indices: 57954019--57954510 Score: 363
Period size: 50 Copynumber: 9.9 Consensus size: 50
57954009 TTGATAAATT
* *
57954019 TGGTGCTGGTCATTGACAGGCCAGCACTCAAAAATTTTTTTTTCGTA-TAC
1 TGGTGCAGGCCATTGACAGGCCAGCAC-CAAAAATTTTTTTTTCGTACTAC
* * * * *
57954069 TGGTGCAGGGCATTGATAGGCTAGCACCCAACAA--TTTTTTTCGTA-TAT
1 TGGTGCAGGCCATTGACAGGCCAGCA-CCAAAAATTTTTTTTTCGTACTAC
*
57954117 TGGTGCTA-GCCATTGACAGGCCAACACCAACAAA--TTTTTTTCGTA-TAC
1 TGGTGC-AGGCCATTGACAGGCCAGCACCAA-AAATTTTTTTTTCGTACTAC
* * * *
57954165 TGTTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTACTGC
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTTCGTACTAC
* ** * * *
57954215 TGGTGCTGGTTATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAG
1 TGGTGCAGGCCATTGACAGGCCAGCA-CC--A-AAAATTTTTTTTTCGTACTAC
* *** *
57954269 TGTTGCCA-ATTATTGACAGGCTAGCACCCAAAAATTCTTTTTTTTCGTACTAC
1 TGGTG-CAGGCCATTGACAGGCCAGCA-CCAAAAA-T-TTTTTTTTCGTACTAC
* * * *
57954322 AGGTG-ACGGCCATTGATAGGCCAGCATC---AATTTTTTTTT-GTATTAC
1 TGGTGCA-GGCCATTGACAGGCCAGCACCAAAAATTTTTTTTTCGTACTAC
* ** * * * * **
57954368 CGGTGTTGGCCATTGACAAGCTAGCACC-CAAATTTTTTTTTTGTACTGG
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTTCGTACTAC
** * *
57954417 TGGTGCCCGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTACTGC
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTTCGTACTAC
* *
57954467 TGGTGCAGGCCATTGACAGGCCTGCACC--CAA-TTTTTTTTCGTAC
1 TGGTGCAGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTTCGTAC
57954511 CCAAATTTTT
Statistics
Matches: 357, Mismatches: 64, Indels: 45
0.77 0.14 0.10
Matches are distributed among these distances:
46 27 0.08
47 27 0.08
48 88 0.25
49 40 0.11
50 93 0.26
51 8 0.02
52 2 0.01
53 32 0.09
54 39 0.11
55 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (50 bp):
TGGTGCAGGCCATTGACAGGCCAGCACCAAAAATTTTTTTTTCGTACTAC
Found at i:57954265 original size:54 final size:53
Alignment explanation
Indices: 57954199--57954320 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 53
57954189 CACCAAAATT
***
57954199 TTTTTTTTCGTACT-GCTGGTGCTGGTTATTGACAGGCCAACACCCAAACAAAAA
1 TTTTTTTTCGTACTAG-TGGTGCCAATTATTGACAGGCCAACACCCAAA-AAAAA
* * * ***
57954253 TTTTTTTTCGTACTAGTGTTGCCAATTATTGACAGGCTAGCACCCAAAAATTC
1 TTTTTTTTCGTACTAGTGGTGCCAATTATTGACAGGCCAACACCCAAAAAAAA
57954306 TTTTTTTTCGTACTA
1 TTTTTTTTCGTACTA
57954321 CAGGTGACGG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
53 17 0.29
54 40 0.69
55 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (53 bp):
TTTTTTTTCGTACTAGTGGTGCCAATTATTGACAGGCCAACACCCAAAAAAAA
Found at i:57954408 original size:49 final size:49
Alignment explanation
Indices: 57954019--57954505 Score: 294
Period size: 48 Copynumber: 9.8 Consensus size: 49
57954009 TTGATAAATT
* * * * *
57954019 TGGTGCTGGTCATTGACAGGCCAGCACTCAAAAATTTTTTTTTCGTA-TAC
1 TGGTGCCGGCCATTGACAGGCTAGCAC-C-CAAATTTTTTTTTTGTACTAC
* * * * * *
57954069 TGGTGCAGGGCATTGATAGGCTAGCACCCAACA-ATTTTTTTCGTA-TAT
1 TGGTGCCGGCCATTGACAGGCTAGCACCCAA-ATTTTTTTTTTGTACTAC
** * * *
57954117 TGGTGCTAGCCATTGACAGGCCAACACCAACAAA--TTTTTTTCGTA-TAC
1 TGGTGCCGGCCATTGACAGGCTAGCACC--CAAATTTTTTTTTTGTACTAC
* * * *
57954165 TGTTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTACTGC
1 TGGTGCCGGCCATTGACAGGCTAGCACCCAAATTTTTTTTTT-GTACTAC
* ** * * * * *
57954215 TGGTGCTGGTTATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAG
1 TGGTGCCGGCCATTGACAGGCTAGCA-CC---C-AAATTTTTTTTTTGTACTAC
* ****
57954269 TGTTGCCAATTATTGACAGGCTAGCACCCAAAAATTCTTTTTTTTCGTACTAC
1 TGGTGCCGGCCATTGACAGGCTAGCACCC--AAATT-TTTTTTTT-GTACTAC
* * * * * *
57954322 AGGTGACGGCCATTGATAGGCCAGCA-TC-AA-TTTTTTTTTGTATTAC
1 TGGTGCCGGCCATTGACAGGCTAGCACCCAAATTTTTTTTTTGTACTAC
* ** * **
57954368 CGGTGTTGGCCATTGACAAGCTAGCACCCAAATTTTTTTTTTGTACTGG
1 TGGTGCCGGCCATTGACAGGCTAGCACCCAAATTTTTTTTTTGTACTAC
* * * *
57954417 TGGTGCCCGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTACTGC
1 TGGTGCCGGCCATTGACAGGCTAGCACCC-AAATTTTTTTTTTGTACTAC
*
57954467 TGGTGCAGGCCATTGACAGGCCT-GCACCC-AATTTTTTTT
1 TGGTGCCGGCCATTGACAGG-CTAGCACCCAAATTTTTTTT
57954506 CGTACCCAAA
Statistics
Matches: 345, Mismatches: 72, Indels: 42
0.75 0.16 0.09
Matches are distributed among these distances:
46 29 0.08
47 9 0.03
48 94 0.27
49 44 0.13
50 92 0.27
51 8 0.02
52 8 0.02
53 25 0.07
54 25 0.07
55 11 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (49 bp):
TGGTGCCGGCCATTGACAGGCTAGCACCCAAATTTTTTTTTTGTACTAC
Found at i:57954454 original size:95 final size:98
Alignment explanation
Indices: 57954280--57954455 Score: 216
Period size: 95 Copynumber: 1.8 Consensus size: 98
57954270 GTTGCCAATT
* * *
57954280 ATTGACAGGCTAGCACCCAAAAATTCTTTTTTTTCGTACTACAGGTGACGGCCATTGATAGGCCA
1 ATTGACAAGCTAGCACCC-AAAATTCTTTTTTTTCGTACTACAGGTGACCGCCATTGACAGGCCA
* **
57954345 GCATCAATTTTTTTTTGTATTACCGGTGTTGGCC
65 GCACCAATAATTTTTTGTATTACCGGTGTTGGCC
*** *
57954379 ATTGACAAGCTAGCACCC-AAATT-TTTTTTTT-GTACTGGTGGTGCCCGCCATTGACAGGCCAG
1 ATTGACAAGCTAGCACCCAAAATTCTTTTTTTTCGTACTACAGGTGACCGCCATTGACAGGCCAG
57954441 CACCCAA-AATTTTTT
66 CA-CCAATAATTTTTT
57954456 TTTCGTACTG
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
95 33 0.50
96 11 0.17
97 5 0.08
99 17 0.26
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (98 bp):
ATTGACAAGCTAGCACCCAAAATTCTTTTTTTTCGTACTACAGGTGACCGCCATTGACAGGCCAG
CACCAATAATTTTTTGTATTACCGGTGTTGGCC
Found at i:57954484 original size:252 final size:249
Alignment explanation
Indices: 57954030--57954497 Score: 588
Period size: 252 Copynumber: 1.9 Consensus size: 249
57954020 GGTGCTGGTC
* * * *
57954030 ATTGACAGGCCAGCACTCAAAAATTTTTTTTTCGTATACTGGTGCAGGGCATTGATAGGCTAGCA
1 ATTGACAGGCCAGCACCCAAAAATTTTTTTTTCGTATACAGGTGCAGGCCATTGATAGGCCAGCA
** *
57954095 CCCAACAATTTTTTTCGTATATTGGTGCTAGCCATTGACAGGCCAACACCAACAAATTTTTTTCG
66 CCCAACAATTTTTTTCGTATACCGGTGCTAGCCATTGACAAGCCAACACC-ACAAATTTTTTTCG
* * *
57954160 TATACTGTTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTACTGCTGGTGCTGGT
130 TATACTGTTGCCCGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTACTGCTGGTGCAGGC
*
57954225 TATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAGTGTTGCCAATT
195 CATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAGTGTTGCCAATT
*
57954280 ATTGACAGGCTAGCACCCAAAAATTCTTTTTTTTCGTACTACAGGTG-ACGGCCATTGATAGGCC
1 ATTGACAGGCCAGCACCCAAAAA-T-TTTTTTTTCGTA-TACAGGTGCA-GGCCATTGATAGGCC
* * * * * * *
57954344 AGCA-TC-A-ATTTTTTTTTGTATTACCGGTGTTGGCCATTGACAAGCTAGCACC-CAAATTTTT
62 AGCACCCAACAATTTTTTTCGTA-TACCGGTGCTAGCCATTGACAAGCCAACACCACAAATTTTT
** *
57954405 TTTTTGTACTGGTGGTGCCCGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTCGTACTGCTG
126 TTCGTATACT-GT--TGCCCGCCATTGACAGGCCAGCA-CCAAAATTTTTTTTTTCGTACTGCTG
**
57954469 GTGCAGGCCATTGACAGGCCTGCACCCAA
187 GTGCAGGCCATTGACAGGCCAACACCCAA
57954498 TTTTTTTTCG
Statistics
Matches: 185, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
249 16 0.09
250 34 0.18
251 26 0.14
252 79 0.43
253 30 0.16
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (249 bp):
ATTGACAGGCCAGCACCCAAAAATTTTTTTTTCGTATACAGGTGCAGGCCATTGATAGGCCAGCA
CCCAACAATTTTTTTCGTATACCGGTGCTAGCCATTGACAAGCCAACACCACAAATTTTTTTCGT
ATACTGTTGCCCGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTCGTACTGCTGGTGCAGGCC
ATTGACAGGCCAACACCCAAACAAAAATTTTTTTTCGTACTAGTGTTGCCAATT
Found at i:57954521 original size:116 final size:115
Alignment explanation
Indices: 57954393--57954621 Score: 316
Period size: 116 Copynumber: 2.0 Consensus size: 115
57954383 ACAAGCTAGC
* * * * *
57954393 ACCCAAATTTTTTTTTT-GTACTGGTGGTGCCCGCCATTGACAGGCCAGCACCCAAAATTTTTTT
1 ACCCAAATTTTTTTTTTAATACTGCTGGTGCCAGCCATTGACAAGCCAGCA--CAAAAATTTTTT
* **
57954457 TTCGTACTGCTGGTGCAGGCCATTGACAGGCCTGCACCCAATTTTTTTTCGT
64 TTCGTACTGCTGGTGCAGGCCACTGACAGGCCAACACCCAATTTTTTTTCGT
* *
57954509 ACCCAAATTTTTTTTTTCAATACTGCTGGTGCCAGCCATTGGCAAGCCATCACAAAAATTTTTTT
1 ACCCAAATTTTTTTTTT-AATACTGCTGGTGCCAGCCATTGACAAGCCAGCACAAAAATTTTTTT
* *
57954574 TCGTACTGGTGGTGCCGGCCACTGACAGGCCAACACCCAATTTTTTTT
65 TCGTACTGCTGGTGCAGGCCACTGACAGGCCAACACCCAATTTTTTTT
57954622 TAATTTTTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
116 72 0.73
118 27 0.27
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (115 bp):
ACCCAAATTTTTTTTTTAATACTGCTGGTGCCAGCCATTGACAAGCCAGCACAAAAATTTTTTTT
CGTACTGCTGGTGCAGGCCACTGACAGGCCAACACCCAATTTTTTTTCGT
Found at i:57954571 original size:68 final size:68
Alignment explanation
Indices: 57954442--57954579 Score: 174
Period size: 68 Copynumber: 2.0 Consensus size: 68
57954432 ACAGGCCAGC
* * **
57954442 ACCCAAAATTTTTTTTTCGTACTGCTGGTGCAGGCCATTGACAGGCCTGCAC-CCAATTTTTTTT
1 ACCCAAAATTTTTTTTTCATACTGCTGGTGCAGGCCATTGACAAGCCTGCACAAAAATTTTTTTT
57954506 CGT
66 CGT
* *
57954509 ACCCAAATTTTTTTTTTCAATACTGCTGGTGCCA-GCCATTGGCAAGCCAT-CACAAAAATTTTT
1 ACCCAAAATTTTTTTTTC-ATACTGCTGGTG-CAGGCCATTGACAAGCC-TGCACAAAAATTTTT
57954572 TTTCGT
63 TTTCGT
57954578 AC
1 AC
57954580 TGGTGGTGCC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
67 17 0.28
68 26 0.43
69 18 0.30
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (68 bp):
ACCCAAAATTTTTTTTTCATACTGCTGGTGCAGGCCATTGACAAGCCTGCACAAAAATTTTTTTT
CGT
Found at i:57954572 original size:67 final size:67
Alignment explanation
Indices: 57954442--57954572 Score: 151
Period size: 67 Copynumber: 2.0 Consensus size: 67
57954432 ACAGGCCAGC
* * * **
57954442 ACCCAAAATTTTTTTTTCGTACTGCTGGTGCAGGCCATTGACAGGCCTGCACCCAATTTTTTTTC
1 ACCCAAAATTTTTTTTTCATACTGCTGGTGCAGGCCATTGACAAGCCTGCACCAAAAATTTTTTC
57954507 GT
66 GT
* *
57954509 ACCCAAATTTTTTTTTTCAATACTGCTGGTGCCA-GCCATTGGCAAGCCAT-CA-CAAAAATTTT
1 ACCCAAAATTTTTTTTTC-ATACTGCTGGTG-CAGGCCATTGACAAGCC-TGCACCAAAAATTTT
57954571 TT
63 TT
57954573 TTCGTACTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
67 26 0.48
68 25 0.46
69 3 0.06
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (67 bp):
ACCCAAAATTTTTTTTTCATACTGCTGGTGCAGGCCATTGACAAGCCTGCACCAAAAATTTTTTC
GT
Found at i:57954619 original size:48 final size:49
Alignment explanation
Indices: 57954512--57954622 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 49
57954502 TTTTCGTACC
* * * *
57954512 CAAATTTTTTTTTTCAATACTGCTGGTGCCAGCCATTGGCAAGCCATCA
1 CAAAATTTTTTTTTCAATACTGCTGGTGCCAGCCACTGACAAGCCAACA
* * * * *
57954561 CAAAAATTTTTTTTC-GTACTGGTGGTGCCGGCCACTGACAGGCCAACA
1 CAAAATTTTTTTTTCAATACTGCTGGTGCCAGCCACTGACAAGCCAACA
**
57954609 CCCAATTTTTTTTT
1 CAAAATTTTTTTTT
57954623 AATTTTTGTA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
48 37 0.74
49 13 0.26
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (49 bp):
CAAAATTTTTTTTTCAATACTGCTGGTGCCAGCCACTGACAAGCCAACA
Found at i:57956050 original size:22 final size:22
Alignment explanation
Indices: 57956025--57956069 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57956015 AATAGTTTTC
57956025 TTTTAAAATAATAAGATTTAAT
1 TTTTAAAATAATAAGATTTAAT
** * *
57956047 TTTTTTAATATTAATATTTAAT
1 TTTTAAAATAATAAGATTTAAT
57956069 T
1 T
57956070 CAATTTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAAAATAATAAGATTTAAT
Found at i:57959814 original size:225 final size:225
Alignment explanation
Indices: 57959413--57959860 Score: 833
Period size: 225 Copynumber: 2.0 Consensus size: 225
57959403 TAGGTCTTCT
* *
57959413 AGTCAGTATGGAGGAGAATATGGGGGTGGTACCACTGGTGGACATTTTCGTGACAGATCAGAGTT
1 AGTCAATATGGAGGAGAATATGGGGGTGGTACCACTAGTGGACATTTTCGTGACAGATCAGAGTT
*
57959478 TGATGGAAATATGTTTCCTGAACCTCGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAAGGAA
66 TGATGGAAATATGTTTCCTGAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAAGGAA
*
57959543 AAGGCAAGAAGCATACTTTTATAGGCTCTTCATCTGGTAAGAGATCGAGTTCTAGTAACCTTGGG
131 AAGGCAAGAAGCATACTTCTATAGGCTCTTCATCTGGTAAGAGATCGAGTTCTAGTAACCTTGGG
57959608 TATAGTGATTCATCTACTAGCACTCAAGCC
196 TATAGTGATTCATCTACTAGCACTCAAGCC
* *
57959638 AGTCAATATGGAGGAGAATATGGGGTTGGTACCACTAGTGGACATTTTCGTGATAGATCAGAGTT
1 AGTCAATATGGAGGAGAATATGGGGGTGGTACCACTAGTGGACATTTTCGTGACAGATCAGAGTT
57959703 TGATGGAAATATGTTTCCTGAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAAGGAA
66 TGATGGAAATATGTTTCCTGAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAAGGAA
*
57959768 AAGGCAAGAAGCATACTTCTATAGGCTCTTCATCTGGTAGGAGATCGAGTTCTAGTAACCTTGGG
131 AAGGCAAGAAGCATACTTCTATAGGCTCTTCATCTGGTAAGAGATCGAGTTCTAGTAACCTTGGG
57959833 TATAGTGATTCATCTACTAGCACTCAAG
196 TATAGTGATTCATCTACTAGCACTCAAG
57959861 GTTTTTATCC
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
225 216 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (225 bp):
AGTCAATATGGAGGAGAATATGGGGGTGGTACCACTAGTGGACATTTTCGTGACAGATCAGAGTT
TGATGGAAATATGTTTCCTGAACCTAGGAGAGATAGAAGTGAACCTAGAGCTCCATCAAAAGGAA
AAGGCAAGAAGCATACTTCTATAGGCTCTTCATCTGGTAAGAGATCGAGTTCTAGTAACCTTGGG
TATAGTGATTCATCTACTAGCACTCAAGCC
Found at i:57965315 original size:29 final size:30
Alignment explanation
Indices: 57965282--57965338 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
57965272 TCAAAAAAAT
57965282 AAAATTAAAGCTTTTTTAA-AATAATTTAA
1 AAAATTAAAGCTTTTTTAAGAATAATTTAA
*
57965311 AAAATTAAAGCTTTTTTAAGAGTAATTT
1 AAAATTAAAGCTTTTTTAAGAATAATTT
57965339 GAGAGGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (30 bp):
AAAATTAAAGCTTTTTTAAGAATAATTTAA
Found at i:57965367 original size:12 final size:10
Alignment explanation
Indices: 57965337--57965379 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
57965327 TAAGAGTAAT
*
57965337 TTGAGAGGAA
1 TTGAGAGAAA
57965347 TTCGAGAGAATA
1 TT-GAGAGAA-A
57965359 TTAGAGAGAAA
1 TT-GAGAGAAA
57965370 TTGAGAGAAA
1 TTGAGAGAAA
57965380 GGATTTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:57965375 original size:10 final size:11
Alignment explanation
Indices: 57965329--57965379 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
57965319 AGCTTTTTTA
* *
57965329 AGAGTAATTTG
1 AGAGAAATTAG
* *
57965340 AGAGGAATTCG
1 AGAGAAATTAG
57965351 AGAGAATATTAG
1 AGAGAA-ATTAG
57965363 AGAGAAATT-G
1 AGAGAAATTAG
57965373 AGAGAAA
1 AGAGAAA
57965380 GGATTTAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.23
11 17 0.49
12 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.29, T:0.22
Consensus pattern (11 bp):
AGAGAAATTAG
Found at i:57965457 original size:18 final size:17
Alignment explanation
Indices: 57965430--57965473 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
57965420 CAATAATGCC
*
57965430 CGGGCACAAACCAATAAA
1 CGGGCCCAAACC-ATAAA
*
57965448 CGGGCCCAAACCATTAA
1 CGGGCCCAAACCATAAA
*
57965465 CAGGCCCAA
1 CGGGCCCAA
57965474 CAACTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.34, G:0.18, T:0.07
Consensus pattern (17 bp):
CGGGCCCAAACCATAAA
Found at i:57967551 original size:13 final size:13
Alignment explanation
Indices: 57967533--57967557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57967523 AAGAGATTTA
57967533 TTTTCTAGTAAAG
1 TTTTCTAGTAAAG
57967546 TTTTCTAGTAAA
1 TTTTCTAGTAAA
57967558 AAATCGAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
TTTTCTAGTAAAG
Found at i:57969539 original size:22 final size:22
Alignment explanation
Indices: 57969514--57969558 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57969504 TGAGCAAATG
57969514 TTCTTTCATTCTTTACGATTTT
1 TTCTTTCATTCTTTACGATTTT
**
57969536 TTCTTTCATTCTTTTGGATTTT
1 TTCTTTCATTCTTTACGATTTT
57969558 T
1 T
57969559 CTGCCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.16, G:0.07, T:0.67
Consensus pattern (22 bp):
TTCTTTCATTCTTTACGATTTT
Found at i:57971879 original size:44 final size:44
Alignment explanation
Indices: 57971831--57972021 Score: 131
Period size: 44 Copynumber: 4.3 Consensus size: 44
57971821 CCAGTAATTC
57971831 TATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCT
* * ** * * * * * *
57971875 TATCTCCCTAAGCAGTAGTAGG-GCAGATCAAGGATGACGGATTT
1 TATCTCCCTAGGCAGCAGT-GGAATATATTAAAGATTACAGATCT
* * * * * * * *
57971919 TACCTCTCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAATATATTAAAG--ATTACAGATCT
57971963 TATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCT
*
57972007 TATCTCCCTAAGCAG
1 TATCTCCCTAGGCAG
57972022 TAGTAGAGCA
Statistics
Matches: 103, Mismatches: 34, Indels: 20
0.66 0.22 0.13
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 20 0.19
44 61 0.59
45 14 0.14
46 1 0.01
47 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCT
Found at i:57972019 original size:132 final size:132
Alignment explanation
Indices: 57971782--57972116 Score: 618
Period size: 132 Copynumber: 2.5 Consensus size: 132
57971772 GTTGATGGCA
* *
57971782 GATTTTACCTCCCTGAGGTTACAGTGAAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGC
1 GATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGC
*
57971847 AGTGGAATATATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGGGCAGATCAAGGATGA
66 AGTGGAATATATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAGGATGA
57971912 CG
131 CG
57971914 GATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGC
1 GATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGC
57971979 AGTGGAATATATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAGGATGA
66 AGTGGAATATATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAGGATGA
57972044 CG
131 CG
*
57972046 GATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GAGCAA
1 GATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAG-GCAG
57972110 CAGTGGA
65 CAGTGGA
57972117 GTAGCAGTAG
Statistics
Matches: 198, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
131 1 0.01
132 197 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (132 bp):
GATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGC
AGTGGAATATATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAGGATGA
CG
Found at i:57972325 original size:43 final size:43
Alignment explanation
Indices: 57972276--57972457 Score: 127
Period size: 44 Copynumber: 4.2 Consensus size: 43
57972266 CCTAAGCTTA
*
57972276 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAG
* * * * *
57972319 CAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTAGGCAG
* * * ** *** * * * *
57972363 TAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTACATTGAAGCCAGT-AATTCTATCTCCCT-AGG-CAG
57972408 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAG
1 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAG
57972451 CAGTGGA
1 CAGTGGA
57972458 ATATATTAAA
Statistics
Matches: 99, Mismatches: 31, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 28 0.28
44 45 0.45
45 18 0.18
46 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAG
Found at i:57972353 original size:44 final size:44
Alignment explanation
Indices: 57972304--57972494 Score: 129
Period size: 44 Copynumber: 4.3 Consensus size: 44
57972294 CCAGTAATTC
* *
57972304 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
* * ** * **** *
57972348 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
* * * * * * *
57972392 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAATAGATTAAAG--ATTACAGATCT
*
57972436 TATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
*
57972480 TATCTCCCTAAGCAG
1 TATCTCCCTAGGCAG
57972495 TAGTAGAGCA
Statistics
Matches: 105, Mismatches: 34, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 20 0.19
44 62 0.59
45 16 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
Found at i:57972485 original size:132 final size:131
Alignment explanation
Indices: 57972248--57972589 Score: 567
Period size: 132 Copynumber: 2.6 Consensus size: 131
57972238 GGAGCAGGTT
* *
57972248 GATGGCGGATTTTACCTCCCTAAGCTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
57972313 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
66 -GGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCA
57972378 AA
130 AA
*
57972380 GATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
57972445 AGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCA
66 -GGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCA
*
57972510 AG
130 AA
* *
57972512 GATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
57972577 GAGCAACAGTGGA
66 G-GCAGCAGTGGA
57972590 GTAGCAGTAG
Statistics
Matches: 197, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.01
132 196 0.99
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (131 bp):
GATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAA
A
Found at i:57972578 original size:473 final size:473
Alignment explanation
Indices: 57971687--57972655 Score: 1715
Period size: 473 Copynumber: 2.0 Consensus size: 473
57971677 GGAGCAGGTT
* **
57971687 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAATTAGATCGAAGATACCAGCCTTACCTC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAGATACCAGCCTTACCTC
* * * *
57971752 TCTTGGTTGCAGTGGAGCAGGTTGATGGCAGATTTTACCTCCCTGAGGTTACAGTGAAGTACATT
66 CCTCGGTTGCAGTGGAGCAGGTTGATGGCAGATTTTACCTCCCTAAGCTTACAGTGAAGTACATT
*
57971817 GAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATCTCC
131 GAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCC
* *
57971882 CTAAGCAGTAGTAGGGCAGATCAAGGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGTACA
196 CTAAGCAGTAGTAGGGCAGATCAAAGATGACGGATTTTACCTCCCTGAGGTTACAGTGGAGTACA
57971947 TTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATCT
261 TTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATCT
57972012 CCCTAAGCAGTAGTAGAGCAGATCAAGGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGTA
326 CCCTAAGCAGTAGTAGAGCAGATCAAGGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGTA
57972077 CATTGAAGCCAGTAATTCTATCTCCCTGAGCAACAGTGGAGTAGCAGTAGATCTTGTCTTCATGT
391 CATTGAAGCCAGTAATTCTATCTCCCTGAGCAACAGTGGAGTAGCAGTAGATCTTGTCTTCATGT
**
57972142 ACTGGCGTGAAGTAGATC
456 ACTGGCACGAAGTAGATC
* *
57972160 AAAGAGAGCAGATCTTGCCTTCCTGTATTGACAGCAAAGCAGATCGAAGATACCAGCCTTACCTC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAGATACCAGCCTTACCTC
* * *
57972225 CCTCGGTTTCAGTGGAGCAGGTTGATGGCGGATTTTACCTCCCTAAGCTTACAGTGGAGTACATT
66 CCTCGGTTGCAGTGGAGCAGGTTGATGGCAGATTTTACCTCCCTAAGCTTACAGTGAAGTACATT
* *
57972290 GAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCC
131 GAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCC
**
57972355 CTAAGCAGTAGT-GGAGCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTAC
196 CTAAGCAGTAGTAGG-GCAGATCAAAGATGACGGATTTTACCTCCCTGAGGTTACAGTGGAGTAC
57972419 ATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATC
260 ATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATC
57972484 TCCCTAAGCAGTAGTAGAGCAGATCAAGGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGT
325 TCCCTAAGCAGTAGTAGAGCAGATCAAGGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGT
57972549 ACATTGAAGCCAGTAATTCTATCTCCCTGAGCAACAGTGGAGTAGCAGTAGATCTTGTCTTCATG
390 ACATTGAAGCCAGTAATTCTATCTCCCTGAGCAACAGTGGAGTAGCAGTAGATCTTGTCTTCATG
57972614 TACTGGCACGAAGTAGATC
455 TACTGGCACGAAGTAGATC
* *
57972633 AAAGATACCAGATCTTGTCTTCC
1 AAAGATAGCAGATCTTGCCTTCC
57972656 CATACTGGTG
Statistics
Matches: 471, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
472 2 0.00
473 469 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (473 bp):
AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAGATACCAGCCTTACCTC
CCTCGGTTGCAGTGGAGCAGGTTGATGGCAGATTTTACCTCCCTAAGCTTACAGTGAAGTACATT
GAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCC
CTAAGCAGTAGTAGGGCAGATCAAAGATGACGGATTTTACCTCCCTGAGGTTACAGTGGAGTACA
TTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAATATATTAAAGATTACAGATCTTATCT
CCCTAAGCAGTAGTAGAGCAGATCAAGGATGACGGATTTTACCTCTCTGAGGTTACAGTGGAGTA
CATTGAAGCCAGTAATTCTATCTCCCTGAGCAACAGTGGAGTAGCAGTAGATCTTGTCTTCATGT
ACTGGCACGAAGTAGATC
Found at i:57972751 original size:89 final size:89
Alignment explanation
Indices: 57972598--57973037 Score: 702
Period size: 89 Copynumber: 5.0 Consensus size: 89
57972588 GAGTAGCAGT
** *
57972598 AGATCTTGTCTTCATGTACTGGCACGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
*
57972663 GTGGCGAAGTAGATCGAAGAAAAC
66 GTGGCGAAGTAGATCGAAGAAAGC
* * *
57972687 ATATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
* *
57972752 GTGGCGAAGCAGATAGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
*
57972776 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
* *
57972841 GTGGCGAAGCAGATAGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
* * *
57972865 AGATCTTGTCTTCATGTACTTGCGTGAAGTAGATCAAAGAGAACATATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
*
57972930 GTGGCGAAGTGGATCGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
* * *
57972954 AGATCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGAGAGCAGATCTTGTCTTCCCATA-TG
1 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
57973018 GTGGCGAAGTAGATCGAAGA
66 GTGGCGAAGTAGATCGAAGA
57973038 TACAAGTTTT
Statistics
Matches: 328, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
88 21 0.06
89 307 0.94
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAGC
Found at i:57973752 original size:18 final size:17
Alignment explanation
Indices: 57973725--57973768 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
57973715 CAATAATGTC
*
57973725 CGGGCACAAACCAATAAA
1 CGGGCCCAAACC-ATAAA
*
57973743 CGGGCCCAAACCATTAA
1 CGGGCCCAAACCATAAA
*
57973760 CAGGCCCAA
1 CGGGCCCAA
57973769 CAACTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.41, C:0.34, G:0.18, T:0.07
Consensus pattern (17 bp):
CGGGCCCAAACCATAAA
Found at i:57975044 original size:16 final size:16
Alignment explanation
Indices: 57975023--57975056 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57975013 TATTGTACAT
* *
57975023 ATATATATGTATTTGA
1 ATATATACGTATATGA
57975039 ATATATACGTATATGA
1 ATATATACGTATATGA
57975055 AT
1 AT
57975057 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:57978447 original size:20 final size:19
Alignment explanation
Indices: 57978390--57978458 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 19
57978380 AAAAATATTT
57978390 TTTAAAATACTAATTATAAATA
1 TTTAAAATA-T-ATT-TAAATA
**
57978412 TTTAATGTTATATTTAAATA
1 TTTAA-AATATATTTAAATA
*
57978432 TTTAAAATATAGTTTATATA
1 TTTAAAATATA-TTTAAATA
57978452 TTCTAAA
1 TT-TAAA
57978459 TAATTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.10
20 20 0.51
21 7 0.18
22 6 0.15
23 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (19 bp):
TTTAAAATATATTTAAATA
Found at i:57978706 original size:13 final size:13
Alignment explanation
Indices: 57978690--57978739 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
57978680 TTTAAACCAA
*
57978690 ACTTTTCAAAATC
1 ACTTTTTAAAATC
*
57978703 ACTTCTTAAAAGT-
1 ACTTTTTAAAA-TC
*
57978716 ACTTTTTAAAAGC
1 ACTTTTTAAAATC
57978729 ACTTTTTAAAA
1 ACTTTTTAAAA
57978740 AAATGATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 30 0.97
14 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
ACTTTTTAAAATC
Found at i:57978720 original size:26 final size:26
Alignment explanation
Indices: 57978690--57978739 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
57978680 TTTAAACCAA
*
57978690 ACTTTTCAAAATCACTTCTTAAAAGT
1 ACTTTTCAAAAGCACTTCTTAAAAGT
* *
57978716 ACTTTTTAAAAGCACTTTTTAAAA
1 ACTTTTCAAAAGCACTTCTTAAAA
57978740 AAATGATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTTAAAAGT
Found at i:57979597 original size:22 final size:23
Alignment explanation
Indices: 57979572--57979627 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
57979562 TAAATGTGTT
57979572 AAAATTATTAATTAAAAATAA-A
1 AAAATTATTAATTAAAAATAATA
* *
57979594 AAAAATATT--TTTAAAATAATA
1 AAAATTATTAATTAAAAATAATA
*
57979615 CAAATGTATTAAT
1 AAAAT-TATTAAT
57979628 ATCTAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 9 0.35
21 4 0.15
22 12 0.46
24 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATTATTAATTAAAAATAATA
Found at i:57979747 original size:24 final size:24
Alignment explanation
Indices: 57979694--57979747 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
57979684 TTCTAATTAA
* *
57979694 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
*
57979718 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATAATTAAAATTTAT
57979742 ATTTTA
1 ATTTTA
57979748 TATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:57979874 original size:20 final size:20
Alignment explanation
Indices: 57979849--57979886 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57979839 TTTGTTACTT
57979849 AATATTATATATCTAAAATA
1 AATATTATATATCTAAAATA
* *
57979869 AATATTTTATTTCTAAAA
1 AATATTATATATCTAAAA
57979887 GTATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATTATATATCTAAAATA
Found at i:57980141 original size:18 final size:18
Alignment explanation
Indices: 57980115--57980149 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57980105 GAGTTAAACG
*
57980115 AATCGAGTTATTCGAGTT
1 AATCAAGTTATTCGAGTT
57980133 AATCAAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
57980150 CAACTCGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:57980217 original size:9 final size:9
Alignment explanation
Indices: 57980200--57980254 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
57980190 TGAATTTTCG
57980200 AATTCGAAT
1 AATTCGAAT
*
57980209 AACTCGAAT
1 AATTCGAAT
*
57980218 AACTCGAAT
1 AATTCGAAT
57980227 AATTCGAAT
1 AATTCGAAT
57980236 AATTCGAAT
1 AATTCGAAT
57980245 AATTCGAAT
1 AATTCGAAT
57980254 A
1 A
57980255 TCAAACTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:57986515 original size:154 final size:154
Alignment explanation
Indices: 57986235--57986539 Score: 601
Period size: 154 Copynumber: 2.0 Consensus size: 154
57986225 AATTTTTGGT
57986235 AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
1 AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
57986300 ACCAGTTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
66 ACCAGTTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
57986365 ATCTAACTAATATTCCTATAGCAA
131 ATCTAACTAATATTCCTATAGCAA
*
57986389 AATCAAACCGACAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
1 AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
57986454 ACCAGTTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
66 ACCAGTTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
57986519 ATCTAACTAATATTCCTATAG
131 ATCTAACTAATATTCCTATAG
57986540 TAGACTATGA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 150 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (154 bp):
AATCAAACCGAAAATATTGCTACAAATGAAATAAAATCTGAAAATTTAGGAAAATCATCTACTCA
ACCAGTTCCATATAGAATAGATGATCTAAACAAAAGAAATGATGTTCAATGAGGAATATATTTAG
ATCTAACTAATATTCCTATAGCAA
Found at i:57989156 original size:42 final size:43
Alignment explanation
Indices: 57989066--57989204 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 43
57989056 CTCCTAGATT
* * *
57989066 TGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAAACA
1 TGGTCTTACACGTAATCAAATATCGATGCCAATGTACCAAACA
* *
57989109 GGGTCTTACACG-AAGTCAAATA-CGATGCCAATGTACCAGACA
1 TGGTCTTACACGTAA-TCAAATATCGATGCCAATGTACCAAACA
* * * *
57989151 TGGTCTTACACGTAATTCTCAA-ATCGATGCCAACGTCCCAAACG
1 TGGTCTTACACGTAA-TC-AAATATCGATGCCAATGTACCAAACA
*
57989195 TGGTTTTACA
1 TGGTCTTACA
57989205 TGAAATCACA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 30 0.38
43 22 0.28
44 27 0.34
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGTAATCAAATATCGATGCCAATGTACCAAACA
Found at i:57993447 original size:26 final size:26
Alignment explanation
Indices: 57993418--57993469 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
57993408 AGTAATAATG
57993418 ACGCAGCAA-AGCTGCCAATAACAGTA
1 ACGCAGCAAGA-CTGCCAATAACAGTA
*
57993444 ACGCAGCAAGACTGCCAGTAACAGTA
1 ACGCAGCAAGACTGCCAATAACAGTA
57993470 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.27, G:0.21, T:0.12
Consensus pattern (26 bp):
ACGCAGCAAGACTGCCAATAACAGTA
Found at i:57993678 original size:27 final size:27
Alignment explanation
Indices: 57993648--57993946 Score: 318
Period size: 27 Copynumber: 11.1 Consensus size: 27
57993638 ACAGTTATTC
*
57993648 TACCCATCAAGGGTATTTCGGTCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* * * *
57993675 TACCCATCGAGAGTATTTCAATAATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* *
57993702 TACCCGTCAAGGGCATTTCGATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
57993729 TACCCATCAAGGGTATTTCGATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* **
57993756 TACCCTTCGGGGGTATTTC-ATTCATTT
1 TACCCATCAAGGGTATTTCGA-TCATTT
*
57993783 TACCTATCAAGGGTATTTC-AGTCATTT
1 TACCCATCAAGGGTATTTCGA-TCATTT
*
57993810 TACCCATCAAGGGTATTTCAATCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* * *
57993837 TACCCTTCAAGGGTATTTCAATAATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* ** *
57993864 TACCCTTTGAGGGTATTTCGGTCATTT
1 TACCCATCAAGGGTATTTCGATCATTT
* *
57993891 TACCCTTCGA-GGTAATTTCGATCATTT
1 TACCCATCAAGGGT-ATTTCGATCATTT
** *
57993918 TACCCATTGAGGGTGATTT-GGTCATTT
1 TACCCATCAAGGGT-ATTTCGATCATTT
57993945 TA
1 TA
57993947 GGCCCATTAC
Statistics
Matches: 233, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.02
27 221 0.95
28 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (27 bp):
TACCCATCAAGGGTATTTCGATCATTT
Found at i:57993946 original size:81 final size:81
Alignment explanation
Indices: 57993648--57993936 Score: 377
Period size: 81 Copynumber: 3.6 Consensus size: 81
57993638 ACAGTTATTC
* * * *
57993648 TACCCATCAAGGGTATTTCGGTCATTTTACCCATCGAGAGTATTTCAATAATTTTACCCGTCAAG
1 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATAATTTTACCCTTCAAG
* *
57993713 GGCATTTCGATCATTT
66 GGTATTTCGGTCATTT
* * *
57993729 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCATTCATTTTA-CCTATCAA
1 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATAATTTTACCCT-TCAA
*
57993793 GGGTATTTCAGTCATTT
65 GGGTATTTCGGTCATTT
* * **
57993810 TACCCATCAAGGGTATTTCAATCATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTTGAG
1 TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATAATTTTACCCTTCAAG
57993875 GGTATTTCGGTCATTT
66 GGTATTTCGGTCATTT
* *
57993891 TACCCTTCGA-GGTAATTTCGATCATTTTACCCATT-GAGGGTGATTT
1 TACCCATCAAGGGT-ATTTCGATCATTTTACCC-TTCGAGGGT-ATTT
57993937 GGTCATTTTA
Statistics
Matches: 181, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
80 5 0.03
81 167 0.92
82 9 0.05
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (81 bp):
TACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATAATTTTACCCTTCAAG
GGTATTTCGGTCATTT
Found at i:57999392 original size:43 final size:43
Alignment explanation
Indices: 57999341--57999436 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
57999331 TCCCAAACGT
57999341 GGTCTTACATGGAA-TCAAATATCGATGAC-ACTGTCCCAGACAG
1 GGTCTTACATGGAAGTCAAATA-CGATGACGA-TGTCCCAGACAG
* * * *
57999384 GGTTTTACA-CGAAGTCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGGAAGTCAAATACGATGACGATGTCCCAGACAG
57999426 GGTCTTACATG
1 GGTCTTACATG
57999437 TAATTATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
42 28 0.64
43 16 0.36
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGGAAGTCAAATACGATGACGATGTCCCAGACAG
Found at i:58006260 original size:13 final size:13
Alignment explanation
Indices: 58006242--58006278 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
58006232 AGAACGAAAC
58006242 AGAGAAGAAAAAG
1 AGAGAAGAAAAAG
58006255 AGAGAAAGAAAAAG
1 AGAG-AAGAAAAAG
58006269 -GAGAA-AAAAA
1 AGAGAAGAAAAA
58006279 ATTAGGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 2 0.09
13 7 0.30
14 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAAAG
Found at i:58006260 original size:25 final size:25
Alignment explanation
Indices: 58006219--58006279 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
58006209 GAATAGAAAA
* * *
58006219 AGAAGAACAAAGTAGAACGAAACA-G
1 AGAAGAA-AAAGGAGAAAGAAAAAGG
58006244 AGAAGAAAAAGAGAGAAAGAAAAAGG
1 AGAAGAAAAAG-GAGAAAGAAAAAGG
*
58006270 AGAAAAAAAA
1 AGAAGAAAAA
58006280 TTAGGGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.13
25 16 0.53
26 10 0.33
ACGTcount: A:0.69, C:0.05, G:0.25, T:0.02
Consensus pattern (25 bp):
AGAAGAAAAAGGAGAAAGAAAAAGG
Found at i:58006265 original size:14 final size:14
Alignment explanation
Indices: 58006242--58006279 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
58006232 AGAACGAAAC
58006242 AGAG-AAGAAAAAG
1 AGAGAAAGAAAAAG
58006255 AGAGAAAGAAAAAG
1 AGAGAAAGAAAAAG
58006269 -GAGAAA-AAAAA
1 AGAGAAAGAAAAA
58006280 TTAGGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAAAAAG
Found at i:58010629 original size:69 final size:71
Alignment explanation
Indices: 58010503--58010633 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 71
58010493 GTTCTGGACA
* * *
58010503 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTTAGTTTGTTAGTGAGTAGAAGATGAAACTGTTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
58010568 TGGCAG
66 TGGCAG
* ** *
58010574 TTGTTTTGATTGTCTGCTGGAACTTGTT-CTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTG
58010634 GAACTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
69 25 0.47
70 3 0.06
71 25 0.47
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.43
Consensus pattern (71 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
TGGCAG
Found at i:58011834 original size:33 final size:33
Alignment explanation
Indices: 58011743--58011860 Score: 125
Period size: 33 Copynumber: 3.6 Consensus size: 33
58011733 GTGAAGTTGT
* *
58011743 TTTTTGGTCAATTATACATACACCAACAATGT-T
1 TTTTAGGTCAATTATACATACACCAACAA-GTAA
* * *
58011776 TTTTAGGGT-AAATA-AAATTAAACCAACAAGTAA
1 TTTTA-GGTCAATTATACA-TACACCAACAAGTAA
* *
58011809 TTTTAGGTCAACTATACATACACCAACAATTAA
1 TTTTAGGTCAATTATACATACACCAACAAGTAA
58011842 TTTTAGGTCAATTATACAT
1 TTTTAGGTCAATTATACAT
58011861 GCTTTATAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
32 7 0.10
33 58 0.83
34 5 0.07
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (33 bp):
TTTTAGGTCAATTATACATACACCAACAAGTAA
Found at i:58015007 original size:18 final size:17
Alignment explanation
Indices: 58014979--58015013 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58014969 ATTATTAAGA
*
58014979 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58014996 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58015014 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58015025 original size:120 final size:120
Alignment explanation
Indices: 58014887--58015270 Score: 716
Period size: 120 Copynumber: 3.2 Consensus size: 120
58014877 ATTTTCAAGT
58014887 AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAA
1 AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAA
58014952 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
66 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
* * *
58015007 AATATATTTAATATTAATTAT-TTCAAATTATCTTTTACAGTATCATATATTATGATTTGAGTAA
1 AATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAA
*
58015071 ATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
65 ATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
58015127 AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAA
1 AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAA
58015192 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
66 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
58015247 AATATATTTAATAATAATTATGTT
1 AATATATTTAATAATAATTATGTT
58015271 TAAATATGAT
Statistics
Matches: 254, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
119 2 0.01
120 250 0.98
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAA
TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAA
Found at i:58015127 original size:18 final size:17
Alignment explanation
Indices: 58015099--58015133 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58015089 ATTATTAAGA
*
58015099 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58015116 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58015134 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58015247 original size:18 final size:17
Alignment explanation
Indices: 58015219--58015253 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58015209 ATTATTAAGA
*
58015219 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58015236 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58015254 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58015510 original size:16 final size:16
Alignment explanation
Indices: 58015489--58015524 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
58015479 GATTTGCTAT
58015489 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58015505 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58015521 TACA
1 TACA
58015525 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58025167 original size:41 final size:41
Alignment explanation
Indices: 58025122--58025248 Score: 236
Period size: 41 Copynumber: 3.1 Consensus size: 41
58025112 ACCTTTAATA
*
58025122 AAAGTCCTAGTACAATGACTCATACAAACTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
58025163 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
*
58025204 AAAGTCTTAGTACAATGACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
58025245 AAAG
1 AAAG
58025249 GATAATAATT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (41 bp):
AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
Found at i:58033646 original size:21 final size:21
Alignment explanation
Indices: 58033622--58033662 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58033612 AGAGAAAAAG
58033622 AAATACAAAACCTTAAGGAAC
1 AAATACAAAACCTTAAGGAAC
* **
58033643 AAATTCAAATTCTTAAGGAA
1 AAATACAAAACCTTAAGGAA
58033663 ACGGGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.22
Consensus pattern (21 bp):
AAATACAAAACCTTAAGGAAC
Found at i:58033874 original size:14 final size:14
Alignment explanation
Indices: 58033845--58033884 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
58033835 ACGAAACAGA
*
58033845 AAAAAGAAAAGCAGC
1 AAAAAGAAAA-AAGC
58033860 AAAAAGAAAAAAGC
1 AAAAAGAAAAAAGC
*
58033874 AAAAGGAAAAA
1 AAAAAGAAAAA
58033885 CCTTAGGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.75, C:0.07, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGC
Found at i:58038210 original size:41 final size:41
Alignment explanation
Indices: 58038153--58038320 Score: 291
Period size: 41 Copynumber: 4.1 Consensus size: 41
58038143 GATTTTTATC
58038153 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
* * *
58038194 CTTTACTTTTATTAAAGGCTGTATAAGTCATTGTATTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
58038235 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTGCTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
58038276 CTTTACTTTTATTAAAGTTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
58038317 CTTT
1 CTTT
58038321 TATTAAAGGT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.45
Consensus pattern (41 bp):
CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
Found at i:58041104 original size:17 final size:16
Alignment explanation
Indices: 58041082--58041117 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
58041072 AAGACAAGTA
58041082 TCAAAATCGTTTTAGGG
1 TCAAAA-CGTTTTAGGG
*
58041099 TCAAAACTTTTTAGGG
1 TCAAAACGTTTTAGGG
58041115 TCA
1 TCA
58041118 CAAAAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (16 bp):
TCAAAACGTTTTAGGG
Found at i:58044104 original size:31 final size:31
Alignment explanation
Indices: 58044066--58044138 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
58044056 TAACAGGATG
* * * *
58044066 TGAAACTAGTAGGATGCGAAGCTAGCGGAAT
1 TGAAACTAGCAGAAAGCGAAGCTAACGGAAT
*
58044097 TGAAACTAGCAGAAAGCGAAGCTAACGGGAT
1 TGAAACTAGCAGAAAGCGAAGCTAACGGAAT
*
58044128 TGAAGCTAGCA
1 TGAAACTAGCA
58044139 AGAAGCAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.16
Consensus pattern (31 bp):
TGAAACTAGCAGAAAGCGAAGCTAACGGAAT
Found at i:58048405 original size:124 final size:124
Alignment explanation
Indices: 58048184--58048438 Score: 379
Period size: 124 Copynumber: 2.1 Consensus size: 124
58048174 AAATAGTGGG
** * * *
58048184 AAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
58048249 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTT-ACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGATCATGTAAGAAATAATTTTTTTTTGACG-TTTCTGAGCAAATAGTATA
* *
58048308 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* * *
58048373 TCGCTACAGTTGATCATGTAGGAAATAA-TTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAG-TGATCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATA
58048432 AAATCGC
1 AAATCGC
58048439 GCCCTCGTGG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 99 0.84
125 19 0.16
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGATCATGTAAGAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:58053154 original size:440 final size:439
Alignment explanation
Indices: 58052333--58053192 Score: 1562
Period size: 440 Copynumber: 2.0 Consensus size: 439
58052323 NNNNNNNACT
*
58052333 GGGGGATTCGGTTCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTCCTTCCTCTAGCTT
1 GGGGGATTCGGCTCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTCCTTCCTCTAGCTT
58052398 TCGACGGCGGTTGTTCTTCCTCGGGTGGTGATTGTTGTTCTTCCGGTTCGGCATCTGCTTGTCGG
66 TCGACGGCGGTTGTTCTTCCTCGGGTGGTGATTGTTGTTCTTCCGGTTCGGCATCTGCTTGTCGG
*
58052463 ACTTGGGACGATGATCCTCCTTCAAAGAATAGTGTATGTGGAGGTGTTTGCATCATGAACGGTGA
131 ACTTGGGACGATGATCCACCTTCAAAGAATAGTGTATGTGGAGGTGTTTGCATCATGAACGGTGA
* *
58052528 CTGAGTTTGAAAGCCATGCGTTGCTAGCGATTGGTAAAAAGGAGAGCTCCCCGACGGCCCCCTTT
196 CGGAGTTTGAAAGCCATGCGTTGCTAGCGATTGGTAAAAAGGAGAGCTCCCCGACGGCCCCCCTT
*
58052593 GCGACCCCTCCTGCGCCGATGGCCTAGTTATCGGTGGTCCGCTCGACATTACAGTAAATGGAGCT
261 GCGACCCCTCCTGCGCCGATGGCCTAGTTATCGGTGGTCCGCTCGACATTACAGGAAATGGAGCT
*
58052658 GATCCGTGCATTTGGCTCCAACCTGCCATAGGATTCGGAAAAGGATACACGTACGGGTTAGGGTA
326 GATCCGGGCATTTGGCTCCAACCTGCCATAGGATTCGGAAAAGGATACACGTACGGGTTAGGGTA
58052723 CATATAAAGGCTAGGAAACATACCTGGCATNGTAATCAATGTCTATGACC
391 CATATAAAGGCTAGGAAACATACCTGGCAT-GTAATCAATGTCTATGACC
* *
58052773 GGGGGATTCGGCTCCACATGGCAGG-GGTCGACGGTTACGCGTTGGATTCCTCCTTCCTCTAGCT
1 GGGGGATTCGGCTCCACATGGC-GGCCGTCGACGGTTACGCGCTGGATTCCTCCTTCCTCTAGCT
58052837 TTCGACGGCGGTTGTTCTTCCTCGGGTGGTGATTGTTGTTCTTCCGGTTCGGCATCTGCTTGTCG
65 TTCGACGGCGGTTGTTCTTCCTCGGGTGGTGATTGTTGTTCTTCCGGTTCGGCATCTGCTTGTCG
*
58052902 GACTTGGGGCGATGATCCACCTTCAAAGAATAGTGTATGTGGAGGTGTTTTGCATCATGAACGGT
130 GACTTGGGACGATGATCCACCTTCAAAGAATAGTGTATGTGGAGGTG-TTTGCATCATGAACGGT
*
58052967 GACGGAGTTTGAAAGCCATGCGTTGCTGGCGATTGGTAAAAAGGAGAGCT-CCCGACGGCCCCCC
194 GACGGAGTTTGAAAGCCATGCGTTGCTAGCGATTGGTAAAAAGGAGAGCTCCCCGACGGCCCCCC
*
58053031 TTGCGACCCCTCCTGCGCCGATGGCCTAGTTATCGGTGGTCCGCTCGGCATTACAGGAAATGGAG
259 TTGCGACCCCTCCTGCGCCGATGGCCTAGTTATCGGTGGTCCGCTCGACATTACAGGAAATGGAG
*
58053096 CTGATCCGGGCATTTGGCTCCAACCTGCCATAGGATTCGGAAAAGGATACATGTACGGGTTAGGG
324 CTGATCCGGGCATTTGGCTCCAACCTGCCATAGGATTCGGAAAAGGATACACGTACGGGTTAGGG
*
58053161 TACATATAAGGGCTAGGAAACATACCTGGCAT
389 TACATATAAAGGCTAGGAAACATACCTGGCAT
58053193 CATAGGGAAA
Statistics
Matches: 405, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
440 338 0.83
441 67 0.17
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.27
Consensus pattern (439 bp):
GGGGGATTCGGCTCCACATGGCGGCCGTCGACGGTTACGCGCTGGATTCCTCCTTCCTCTAGCTT
TCGACGGCGGTTGTTCTTCCTCGGGTGGTGATTGTTGTTCTTCCGGTTCGGCATCTGCTTGTCGG
ACTTGGGACGATGATCCACCTTCAAAGAATAGTGTATGTGGAGGTGTTTGCATCATGAACGGTGA
CGGAGTTTGAAAGCCATGCGTTGCTAGCGATTGGTAAAAAGGAGAGCTCCCCGACGGCCCCCCTT
GCGACCCCTCCTGCGCCGATGGCCTAGTTATCGGTGGTCCGCTCGACATTACAGGAAATGGAGCT
GATCCGGGCATTTGGCTCCAACCTGCCATAGGATTCGGAAAAGGATACACGTACGGGTTAGGGTA
CATATAAAGGCTAGGAAACATACCTGGCATGTAATCAATGTCTATGACC
Found at i:58054821 original size:14 final size:15
Alignment explanation
Indices: 58054804--58054837 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
58054794 AATAAATATC
58054804 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
58054818 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
58054833 TAAAA
1 TAAAA
58054838 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:58054970 original size:29 final size:30
Alignment explanation
Indices: 58054936--58054993 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
58054926 TGAAAATATT
58054936 AAAAATGTTAAAATTAT-TTTAAAAAAATA
1 AAAAATGTTAAAATTATCTTTAAAAAAATA
* *
58054965 AAAAATTTTAAAATTTTCTTTAAAAAAAT
1 AAAAATGTTAAAATTATCTTTAAAAAAAT
58054994 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAAATGTTAAAATTATCTTTAAAAAAATA
Found at i:58055065 original size:22 final size:22
Alignment explanation
Indices: 58055035--58055076 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58055025 ATTTGGAGAT
*
58055035 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
58055057 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
58055077 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:58055097 original size:52 final size:51
Alignment explanation
Indices: 58055026--58055128 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
58055016 TTAATATGGA
* * * *
58055026 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAAG-GAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTAAGAGAAATTTT-GAAGAGAA-TTGAGAG
58055077 TTTGAGAGAATTTTGGAAGGAAATTAAGAGAAATTTTGAAGAGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTAAGAGAAATTTTGAAGAGAATTGAGAG
58055129 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.73
53 8 0.18
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTAAGAGAAATTTTGAAGAGAATTGAGAG
Found at i:58055106 original size:22 final size:22
Alignment explanation
Indices: 58055078--58055169 Score: 109
Period size: 22 Copynumber: 4.2 Consensus size: 22
58055068 ATTTGAGAGT
58055078 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
58055100 TTAAGAGAAATTTT-GAA-GAGAA
1 TTGAGAG-AATTTTGGAAGGA-AA
*
58055122 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
58055144 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
58055166 TTGA
1 TTGA
58055170 TATTGAATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
21 12 0.20
22 38 0.64
23 8 0.14
24 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:58055127 original size:44 final size:44
Alignment explanation
Indices: 58055078--58055169 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
58055068 ATTTGAGAGT
*
58055078 TTGAGAGAA-TTTTGGAAGGAAATTAAGAGAAATTTTGAA-GAGAA
1 TTGAGAGAATTTTTGAAAGG-AATTAAGAGAAATTTTGAAGGA-AA
* *
58055122 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTAAGAGAAATTTTGAAGGAAA
58055166 TTGA
1 TTGA
58055170 TATTGAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 32 0.74
45 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTAAGAGAAATTTTGAAGGAAA
Found at i:58061295 original size:22 final size:24
Alignment explanation
Indices: 58061260--58061304 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
58061250 CTCTAAATCT
58061260 TAAAAAAATAAAAAT-CCTAACCC
1 TAAAAAAATAAAAATCCCTAACCC
58061283 TAAAAAAAT-AAAATCCCTAACC
1 TAAAAAAATAAAAATCCCTAACC
58061305 TTAGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.60, C:0.22, G:0.00, T:0.18
Consensus pattern (24 bp):
TAAAAAAATAAAAATCCCTAACCC
Found at i:58061645 original size:19 final size:19
Alignment explanation
Indices: 58061621--58061674 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
58061611 TTTAAATATT
58061621 TTTTTATAAATTTTAATTA
1 TTTTTATAAATTTTAATTA
* *
58061640 TTTTTATAATTTTTATTTA
1 TTTTTATAAATTTTAATTA
* * *
58061659 TGTTTAGAAAATTTAA
1 TTTTTATAAATTTTAA
58061675 AAGTTTTTAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATAAATTTTAATTA
Done.