Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 210 of 221
Found at i:61646047 original size:21 final size:22
Alignment explanation
Indices: 61645977--61646071 Score: 77
Period size: 23 Copynumber: 4.2 Consensus size: 22
61645967 TATTATGCCT
61645977 AAAAAA-AAGACAAAAAAACAATA
1 AAAAAACAAGA-AAAAAAA-AATA
* *
61646000 ATAATAACAAGAAAAACAAAAACA
1 A-AAAAACAAGAAAAA-AAAAATA
*
61646024 AAAAAACAA-AACAAAAAAATA
1 AAAAAACAAGAAAAAAAAAATA
* * *
61646045 AAAAAATAAAGAAAAGAAAAAGA
1 AAAAAA-CAAGAAAAAAAAAATA
61646068 AAAA
1 AAAA
61646072 TCAAGATGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
21 12 0.21
22 6 0.10
23 21 0.36
24 12 0.21
25 7 0.12
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAAACAAGAAAAAAAAAATA
Found at i:61646050 original size:35 final size:34
Alignment explanation
Indices: 61645977--61646059 Score: 78
Period size: 35 Copynumber: 2.4 Consensus size: 34
61645967 TATTATGCCT
* * * *
61645977 AAAAAAAAGACAAAAAAACAATAATAATAACAAGA
1 AAAAAAAAAACAAAAAAACAATAACAA-AAAAAAA
* *
61646012 AAAACAAAAACAAAAAAACAA-AACAAAAAAATA
1 AAAAAAAAAACAAAAAAACAATAACAAAAAAAAA
* *
61646045 AAAAAATAAAGAAAA
1 AAAAAAAAAACAAAA
61646060 GAAAAAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 17 0.43
34 4 0.10
35 19 0.47
ACGTcount: A:0.82, C:0.08, G:0.04, T:0.06
Consensus pattern (34 bp):
AAAAAAAAAACAAAAAAACAATAACAAAAAAAAA
Found at i:61647499 original size:78 final size:76
Alignment explanation
Indices: 61646922--61648879 Score: 1992
Period size: 78 Copynumber: 25.3 Consensus size: 76
61646912 TTTCAAGATT
* * * * * *
61646922 TATTTTTCAAATTCTATTTTTGGAAAAAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCACGG
1 TATTTTTCAATTTCTGTTTTT--CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61646987 G-TCATC-CTGAGG
64 GTTCA-CGCTGAGG
* * *
61646999 TATTTTTCAATTTTTGTTTTTTAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-
1 TATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
61647063 TCATC-CTGAGG
66 TCA-CGCTGAGG
* * * *
61647074 TA-TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTTGGG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
61647138 -TCATC-CTGAGG
65 TTCA-CGCTGAGG
* * * *
61647149 TA-TTTTCAATTTATGTTTTTTTTAAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGG
1 TATTTTTCAATTTCTG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61647213 G-TCATC-CTGAGG
64 GTTCA-CGCTGAGG
*
61647225 TA-TTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
61647289 -TCATC-CTGAGA
65 TTCA-CGCTGAGG
* * * * * **
61647300 TATTTTTCATTTTATCTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTAAGG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
61647365 -TCATC-CTGAGG
65 TTCA-CGCTGAGG
* * *
61647376 TA-TTTTCAATTTATGTTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGG
1 TATTTTTCAATTTCTGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61647440 GTTACACGCTGAGG
64 GTT-CACGCTGAGG
* * *
61647454 TATTTTTCAATTTCTGTTTTTCAAAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGA
1 TATTTTTCAATTTCTGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
61647519 TCACACGATGAGG
65 T-TCACGCTGAGG
61647532 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
61647597 -TCAGACGCTGAGG
65 TTC--ACGCTGAGG
* *
61647610 TATTTTTCAATTTTTGTTTTTCAAATAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TATTTTTCAATTTCTGTTTTTCAAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
61647675 TCACACGCTGAGG
65 T-TCACGCTGAGG
* *
61647688 TATTTTTCAATTTCTGTTTTTCAAAAATAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAG
1 TATTTTTCAATTTCTGTTTTTC-AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
61647753 ATCACACGCTGAGG
64 GT-TCACGCTGAGG
* * *
61647767 TATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGATGTGAGTTGAGCCTCGAG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
61647832 -TCACG-TCGAGA
65 TTCACGCT-GAGG
* *
61647843 TATTTTTCAATTTTTGGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* * *
61647908 TCGCATGCCGAGG
65 T-TCACGCTGAGG
**
61647921 TATTCTTTTCAAATTT-TACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TA-T-TTTTC-AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
61647985 GGGTCTCACGCTGAGG
62 GGGT-TCACGCTGAGG
* *
61648001 TA-TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGG-
1 TATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
61648063 TCACATGCCGAGG
66 TCAC--GCTGAGG
* * *
61648076 TATTTCTTTTAAATTTCT-TTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTG
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * *
61648139 GGTCGCATGCCGAGG
63 GGT-TCACGCTGAGG
*
61648154 TATTCTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 TA-T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61648218 GTCTCACGCTGAGG
64 GT-TCACGCTGAGG
* * * * *
61648232 TA-TTTTAAATTTTTGTTTTTC-GAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGG-
1 TATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
61648294 TCACATGAC-GAGG
66 TCAC--G-CTGAGG
* * *
61648307 TATTTCTTTTAAATTGCT-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * *
61648370 GGTCGCATGCCGAGG
63 GGT-TCACGCTGAGG
* *
61648385 TATTCTTTTCAATTTCTGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGG
1 TA-T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61648449 GTCTCACGCTGAGG
64 GT-TCACGCTGAGG
* * *
61648463 TA-TTTTAAATTTTTGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGT
1 TATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
61648525 TCACATG-TCGAGG
66 TCAC--GCT-GAGG
* * *
61648538 TATTTCTTTTAAATTT-TTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 TA--T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * *
61648601 GGTCGCATGCCGAGG
63 GGT-TCACGCTGAGG
* *
61648616 TATTCTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
1 TA-T-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61648680 GTCTCACGCTGAGG
64 GT-TCACGCTGAGG
* * * **
61648694 TA-TTTTAAATTTCTGTTTTTC-AAAAATGAACTCATAATGCGA-ATGGTGAGTTGAGCCTCAAG
1 TATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGA-GGTGAGTTGAGCCTCGGG
*
61648756 -TCACATGCCGAGG
65 TTCAC--GCTGAGG
* * *
61648769 TATTTCTTTTTAATTTTTGCTTTTCAAAAAAAAGAGAAATCAACTCATATTGCGAGAGGTGAGTT
1 TA--T-TTTTCAATTTCTGTTTTTC------AA-A-AAATCAACTCATATTGCGAGAGGTGAGTT
*
61648834 GAGCCTC-GGTTGCACGCTGAGC
55 GAGCCTCGGGTT-CACGCTGAGG
* * *
61648856 TA-TTCTCGATTTCTGCTTTTCAAA
1 TATTTTTCAATTTCTGTTTTTCAAA
61648880 TAAAAGGAAA
Statistics
Matches: 1660, Mismatches: 143, Indels: 157
0.85 0.07 0.08
Matches are distributed among these distances:
73 16 0.01
74 27 0.02
75 416 0.25
76 248 0.15
77 86 0.05
78 572 0.34
79 155 0.09
80 73 0.04
81 5 0.00
83 15 0.01
86 1 0.00
87 9 0.01
88 33 0.02
89 4 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (76 bp):
TATTTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
TCACGCTGAGG
Found at i:61648214 original size:231 final size:230
Alignment explanation
Indices: 61646947--61648842 Score: 2227
Period size: 231 Copynumber: 8.2 Consensus size: 230
61646937 ATTTTTGGAA
* * *
61646947 AAAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCACGGGT--CAT-CCTGAGGTATTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCC-GAGGTATTTTTCAA
* * *
61647009 TTTTTGTTTTTTAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG--TCATC-CTG
65 TTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCA-CGCTG
* * * *
61647071 AGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATGCGAGAA-GTGAGTTGAGCCTT
129 AGGTATTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTC
* *
61647135 GGGT--CAT-CCTGAGGTATTTTCAATTT--ATGTTTTTTTTA
192 GGGTCACATGCC-GAGGTA-TTTC-TTTTAAAT-TTTTTTTTC
* *
61647173 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGT--CAT-CCTGAGGTA-TTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCC-GAGGTATTTTTCAA
*
61647234 TTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--TCATC-CT
65 TTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCA-CGCT
* * * * * * * *
61647296 GAGATATTTTTCATTTTATCTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAACCT
128 GAGGTA-TTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
** *
61647361 AAGGT--CAT-CCTGAGGTA----TTTTCAATTTATGTTTTTC
191 CGGGTCACATGCC-GAGGTATTTCTTTTAAATTT-T-TTTTTC
* * ** * *
61647397 AAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTTACACGCTGAGGTATTTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTTTTC
* * * * *
61647462 AATTTCTGTTTTTCAAAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGATCACACGA
63 AATTTCTGTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGC
* *
61647527 TGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
127 TGAGGTA-TTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
* * * * *
61647592 TCGGGTCAGACGCTGAGGTA-TT-TTTCAATTTTTGTTTTTC
190 TCGGGTCACATGCCGAGGTATTTCTTTTAAATTTT-TTTTTC
* * * *
61647632 AAATAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCA
1 -AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTTTTCA
* * * *
61647697 ATTTCTGTTTTTCAAAAATAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGATCACACGC
64 ATTTCTGTTTTTC-AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGC
* * * *
61647762 TGAGGTATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGATGTGAGTTGAGCC
127 TGAGGTA-TTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
* * * *
61647827 TCGAGTCAC--GTCGA-G-ATAT-TTTTCAATTTTTGGTTTTC
190 TCGGGTCACATGCCGAGGTATTTCTTTTAAATTTTT--TTTTC
61647865 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTTTT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTA-T-TTTT
**
61647930 CAAATTT-TACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCAC
62 C-AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCAC
61647994 GCTGAGGTATTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
125 GCTGAGGTATTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
61648058 TCGGGTCACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTC
190 TCGGGTCACATGCCGAGGTATTTCTTTTAAATTT-TTTTTTC
* *
61648100 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTCTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTA-T-TTTTCA
*
61648165 ATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGCTG
64 ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGCTG
* * *
61648229 AGGTATTTTAAATTTTTGTTTTTC-GAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGG
129 AGGTATTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
* *
61648293 GTCACATGACGAGGTATTTCTTTTAAATTGCTTTTTTC
194 GTCACATGCCGAGGTATTTCTTTTAAATT-TTTTTTTC
*
61648331 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTCTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTA-T-TTTTCA
* *
61648396 ATTTCTGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGTCTCACGCTG
64 ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGCTG
*
61648460 AGGTATTTTAAATTTTTGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
129 AGGTATTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
* *
61648524 TTCACATGTCGAGGTATTTCTTTTAAATTTTTTTTTTC
194 GTCACATGCCGAGGTATTTCTTTTAAA-TTTTTTTTTC
*
61648562 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCGCATGCCGAGGTATTCTTTTCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTA-T-TTTTCA
* *
61648627 ATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCTCACGCTG
64 ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGCTG
* * * **
61648691 AGGTATTTTAAATTTCTGTTTTTC-AAAAATGAACTCATAATGCGAATGGTGAGTTGAGCCTCAA
129 AGGTATTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG
*
61648755 GTCACATGCCGAGGTATTTCTTTTTAATTTTTGCTTTTC
194 GTCACATGCCGAGGTATTTCTTTTAAATTTTT--TTTTC
61648794 AAAAAAAAGAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 -------A-A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
61648843 TTGCACGCTG
Statistics
Matches: 1509, Mismatches: 108, Indels: 91
0.88 0.06 0.05
Matches are distributed among these distances:
221 3 0.00
222 2 0.00
223 3 0.00
224 5 0.00
225 17 0.01
226 104 0.07
227 105 0.07
229 14 0.01
230 57 0.04
231 617 0.41
232 87 0.06
233 152 0.10
234 131 0.09
235 148 0.10
236 23 0.02
237 2 0.00
239 1 0.00
240 1 0.00
241 37 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (230 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTTTTCAAT
TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGCTGAG
GTATTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGT
CACATGCCGAGGTATTTCTTTTAAATTTTTTTTTC
Found at i:61649054 original size:30 final size:30
Alignment explanation
Indices: 61649014--61649146 Score: 128
Period size: 30 Copynumber: 4.4 Consensus size: 30
61649004 TGTGTTTAAA
61649014 AAAATTTACATTTTAACCCCTAAAATTTTTC
1 AAAA-TTACATTTTAACCCCTAAAATTTTTC
* * *
61649045 AAAATTACATGTCAACCTCTAAACA-TTTT-
1 AAAATTACATTTTAACCCCTAAA-ATTTTTC
* * * * * *
61649074 GAAATTACATTTTGACCTCTGAACTTTCTC
1 AAAATTACATTTTAACCCCTAAAATTTTTC
61649104 AAAATTACATTTTAACCCCT-AAATTTTCTC
1 AAAATTACATTTTAACCCCTAAAATTTT-TC
*
61649134 AAAATTATATTTT
1 AAAATTACATTTT
61649147 GGCCTCAGAA
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
29 26 0.32
30 51 0.62
31 5 0.06
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAAATTTTTC
Found at i:61649681 original size:16 final size:17
Alignment explanation
Indices: 61649651--61649683 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
61649641 GGTCTGAACG
61649651 AAGGAGAAGAAAAAAGA
1 AAGGAGAAGAAAAAAGA
61649668 AAGGAGAA-AAAAAAGA
1 AAGGAGAAGAAAAAAGA
61649684 GAAGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AAGGAGAAGAAAAAAGA
Found at i:61649686 original size:28 final size:28
Alignment explanation
Indices: 61649654--61649737 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
61649644 CTGAACGAAG
61649654 GAGAAGAAAAAAGAAAGGAGAAAAAAAA
1 GAGAAGAAAAAAGAAAGGAGAAAAAAAA
* *
61649682 GAGAAGAAAGAAG-AAGGAAGAAAAAAGA
1 GAGAAGAAAAAAGAAAGG-AGAAAAAAAA
* **
61649710 GGGAA-AGAAAAAGAAAAAAGAAAAAAAA
1 GAGAAGA-AAAAAGAAAGGAGAAAAAAAA
61649738 TTAAATCAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 5 0.11
28 39 0.85
29 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (28 bp):
GAGAAGAAAAAAGAAAGGAGAAAAAAAA
Found at i:61649692 original size:25 final size:25
Alignment explanation
Indices: 61649658--61649728 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
61649648 ACGAAGGAGA
*
61649658 AGAAAAAAGAAAGGAGAAAAAAAAG
1 AGAAGAAAGAAAGGAGAAAAAAAAG
*
61649683 AGAAGAAAGAAGAAGGA-AGAAAAAAG
1 AGAAGAAAG-A-AAGGAGAAAAAAAAG
* *
61649709 AG-GGAAAGAAA-AAGAAAAAA
1 AGAAGAAAGAAAGGAGAAAAAA
61649729 GAAAAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 1 0.03
23 7 0.18
24 1 0.03
25 13 0.34
26 11 0.29
27 5 0.13
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (25 bp):
AGAAGAAAGAAAGGAGAAAAAAAAG
Found at i:61649714 original size:14 final size:14
Alignment explanation
Indices: 61649656--61649735 Score: 76
Period size: 14 Copynumber: 5.7 Consensus size: 14
61649646 GAACGAAGGA
61649656 GAAGAAAAAAGAAAG
1 GAAGAAAAAAG-AAG
61649671 G-AGAAAAAA-AAG
1 GAAGAAAAAAGAAG
*
61649683 AGAAGAAAGAAGAAG
1 -GAAGAAAAAAGAAG
*
61649698 GAAGAAAAAAGAGG
1 GAAGAAAAAAGAAG
*
61649712 GAA-AGAAAAAGAAA
1 GAAGA-AAAAAGAAG
*
61649726 AAAGAAAAAA
1 GAAGAAAAAA
61649736 AATTAAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 44 0.81
15 5 0.09
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAGAAAAAAGAAG
Found at i:61649736 original size:8 final size:7
Alignment explanation
Indices: 61649657--61649735 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 7
61649647 AACGAAGGAG
61649657 AAGAAAA
1 AAGAAAA
*
61649664 AAGAAAG
1 AAGAAAA
*
61649671 GAGAAAA
1 AAGAAAA
*
61649678 AA-AAGAG
1 AAGAA-AA
*
61649685 AAGAAAG
1 AAGAAAA
**
61649692 AAGAAGG
1 AAGAAAA
61649699 AAGAAAA
1 AAGAAAA
**
61649706 AAGAGGGA
1 AAGA-AAA
61649714 AAG-AAA
1 AAGAAAA
61649720 AAGAAAA
1 AAGAAAA
61649727 AAGAAAA
1 AAGAAAA
61649734 AA
1 AA
61649736 AATTAAATCA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
6 6 0.11
7 44 0.79
8 6 0.11
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:61649853 original size:16 final size:17
Alignment explanation
Indices: 61649832--61649866 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
61649822 AGTAGCAGCC
61649832 CAAAAAAAAAGAA-AAG
1 CAAAAAAAAAGAAGAAG
*
61649848 CAAAAAAGAAGAAGAAG
1 CAAAAAAAAAGAAGAAG
61649865 CA
1 CA
61649867 GACCACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.74, C:0.09, G:0.17, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAGAAGAAG
Found at i:61650037 original size:10 final size:10
Alignment explanation
Indices: 61650022--61650091 Score: 83
Period size: 10 Copynumber: 7.2 Consensus size: 10
61650012 AGCCCAGTCC
61650022 AAAAAAAGAG
1 AAAAAAAGAG
61650032 AAAAAAA-AG
1 AAAAAAAGAG
*
61650041 AAAAAGAGAG
1 AAAAAAAGAG
*
61650051 GAAAAAAGA-
1 AAAAAAAGAG
61650060 AAAAAAAGAG
1 AAAAAAAGAG
61650070 AAGAAAAA-AG
1 AA-AAAAAGAG
*
61650080 AAAAAAAAAG
1 AAAAAAAGAG
61650090 AA
1 AA
61650092 GAAGAAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
9 21 0.40
10 26 0.50
11 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:61650050 original size:19 final size:19
Alignment explanation
Indices: 61650022--61650103 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
61650012 AGCCCAGTCC
61650022 AAAAAAAGAGAAAAAAAAG
1 AAAAAAAGAGAAAAAAAAG
* *
61650041 AAAAAGAGAG-GAAAAAAG
1 AAAAAAAGAGAAAAAAAAG
61650059 AAAAAAAAGAGAAGAAAAAAG
1 -AAAAAAAGAGAA-AAAAAAG
* * *
61650080 AAAAAAAAAGAAGAAGAAG
1 AAAAAAAGAGAAAAAAAAG
61650099 AAAAA
1 AAAAA
61650104 GGGGGTTCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
18 7 0.13
19 28 0.53
20 11 0.21
21 7 0.13
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAGAAAAAAAAG
Found at i:61650083 original size:20 final size:20
Alignment explanation
Indices: 61650022--61650103 Score: 100
Period size: 21 Copynumber: 4.2 Consensus size: 20
61650012 AGCCCAGTCC
61650022 AAAAAAAGAGAA-AAAAAAG
1 AAAAAAAGAGAAGAAAAAAG
*
61650041 --AAAAAGAGAGGAAAAAAG
1 AAAAAAAGAGAAGAAAAAAG
61650059 AAAAAAAAGAGAAGAAAAAAG
1 -AAAAAAAGAGAAGAAAAAAG
* *
61650080 AAAAAAAAAGAAG-AAGAAG
1 AAAAAAAGAGAAGAAAAAAG
61650099 AAAAA
1 AAAAA
61650104 GGGGGTTCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.16
18 7 0.13
19 10 0.18
20 12 0.22
21 17 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAGAAGAAAAAAG
Found at i:61650453 original size:16 final size:16
Alignment explanation
Indices: 61650434--61650500 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 16
61650424 AAAAAAATCC
*
61650434 TCGTGTTTCGAAATTT
1 TCGTGTTTCAAAATTT
61650450 TCGTGTCTTCAAAAAATTTT
1 TCGTGT-TTC--AAAA-TTT
*
61650470 CTCGTGTTTCAAAATTC
1 -TCGTGTTTCAAAATTT
61650487 TCGTGTTTTCAAAA
1 TCGTG-TTTCAAAA
61650501 ATAAGGCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 11 0.26
17 13 0.30
18 4 0.09
19 3 0.07
20 6 0.14
21 6 0.14
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (16 bp):
TCGTGTTTCAAAATTT
Found at i:61650464 original size:37 final size:37
Alignment explanation
Indices: 61650423--61650501 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
61650413 TAAATTTTCA
* *
61650423 AAAAAAAATCCTCGTGTTTCGAAATTTTCGTGTCTTC
1 AAAAAAAATCCTCGTGTTTCAAAATTCTCGTGTCTTC
** * *
61650460 AAAAAATTTTCTCGTGTTTCAAAATTCTCGTGTTTTC
1 AAAAAAAATCCTCGTGTTTCAAAATTCTCGTGTCTTC
61650497 AAAAA
1 AAAAA
61650502 TAAGGCAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (37 bp):
AAAAAAAATCCTCGTGTTTCAAAATTCTCGTGTCTTC
Found at i:61650501 original size:18 final size:17
Alignment explanation
Indices: 61650426--61650502 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 17
61650416 ATTTTCAAAA
*
61650426 AAAAATCCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
* *
61650443 -GAAATTTTCGTGTCTTC
1 AAAAATTCTCGTGT-TTC
61650460 AAAAAATTTTCTCGTGTTTC
1 -AAAAA--TTCTCGTGTTTC
61650480 -AAAATTCTCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
61650497 AAAAAT
1 AAAAAT
61650503 AAGGCAACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
16 18 0.38
17 7 0.15
18 9 0.19
19 3 0.06
20 3 0.06
21 8 0.17
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:61650673 original size:36 final size:35
Alignment explanation
Indices: 61650630--61650801 Score: 154
Period size: 36 Copynumber: 4.9 Consensus size: 35
61650620 AAAAAATCCA
**
61650630 GTGTTTTCAAAAATTTCCAT-TTTCCAAATTTTTTTC
1 GTGTTTTCAAAAATTTCCATGTTT-CAAA-AATTTTC
**
61650666 GTGTTTTCTAAAAATTTCTGTGTTTCAAAAATTTTC
1 GTGTTTTC-AAAAATTTCCATGTTTCAAAAATTTTC
* *
61650702 GTGTTTTCAAAAATTTTCGTAT-TTTCAAAAAATTTC
1 GTGTTTTCAAAAA-TTTC-CATGTTTCAAAAATTTTC
* * * *
61650738 GTGTTTTCAACAA-TTCTCATGTTTCTAGAATTCTC
1 GTGTTTTCAAAAATTTC-CATGTTTCAAAAATTTTC
* *
61650773 GTG-TTTCAAAAATTTCCGTGTTTAAAAAA
1 GTGTTTTCAAAAATTTCCATGTTTCAAAAA
61650802 ATTTGCTTCA
Statistics
Matches: 112, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
34 22 0.20
35 21 0.19
36 50 0.45
37 16 0.14
38 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (35 bp):
GTGTTTTCAAAAATTTCCATGTTTCAAAAATTTTC
Found at i:61650697 original size:17 final size:18
Alignment explanation
Indices: 61650634--61650800 Score: 120
Period size: 18 Copynumber: 9.5 Consensus size: 18
61650624 AATCCAGTGT
*
61650634 TTTCAAAAATTTC-CAT-
1 TTTCAAAAATTTCTCGTG
** *
61650650 TTTCCAAATTTTTTTCGTG
1 TTT-CAAAAATTTCTCGTG
61650669 TTTTCTAAAAATTTCT-GTG
1 -TTTC-AAAAATTTCTCGTG
61650688 TTTCAAAAATTT-TCGTG
1 TTTCAAAAATTTCTCGTG
*
61650705 TTTTCAAAAATTT-TCGTAT
1 -TTTCAAAAATTTCTCGT-G
*
61650724 TTTCAAAAAATT-TCGTG
1 TTTCAAAAATTTCTCGTG
* *
61650741 TTTTCAACAA-TTCTCATG
1 -TTTCAAAAATTTCTCGTG
* *
61650759 TTTCTAGAA-TTCTCGTG
1 TTTCAAAAATTTCTCGTG
61650776 TTTCAAAAATTTC-CGTG
1 TTTCAAAAATTTCTCGTG
61650793 TTT-AAAAA
1 TTTCAAAAA
61650801 AATTTGCTTC
Statistics
Matches: 123, Mismatches: 17, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
16 9 0.07
17 48 0.39
18 52 0.42
19 4 0.03
20 10 0.08
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.47
Consensus pattern (18 bp):
TTTCAAAAATTTCTCGTG
Found at i:61650801 original size:17 final size:17
Alignment explanation
Indices: 61650634--61650800 Score: 101
Period size: 17 Copynumber: 9.5 Consensus size: 17
61650624 AATCCAGTGT
*
61650634 TTTCAAAAATTTCCAT-
1 TTTCAAAAATTTCCGTG
** *
61650650 TTTCCAAATTTTTTTCGTG
1 TTT-CAAA-AATTTCCGTG
*
61650669 TTTTCTAAAAATTTCTGTG
1 -TTTC-AAAAATTTCCGTG
*
61650688 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTCCGTG
* *
61650705 TTTTCAAAAATTTTCGTAT
1 -TTTCAAAAATTTCCGT-G
61650724 TTTCAAAAAATTT-CGTG
1 TTTC-AAAAATTTCCGTG
* *
61650741 TTTTCAACAA-TTCTCATG
1 -TTTCAAAAATTTC-CGTG
* *
61650759 TTTCTAGAA-TTCTCGTG
1 TTTCAAAAATTTC-CGTG
61650776 TTTCAAAAATTTCCGTG
1 TTTCAAAAATTTCCGTG
61650793 TTT-AAAAA
1 TTTCAAAAA
61650801 AATTTGCTTC
Statistics
Matches: 120, Mismatches: 19, Indels: 24
0.74 0.12 0.15
Matches are distributed among these distances:
16 10 0.08
17 47 0.39
18 42 0.35
19 15 0.12
20 6 0.05
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.47
Consensus pattern (17 bp):
TTTCAAAAATTTCCGTG
Found at i:61651315 original size:26 final size:24
Alignment explanation
Indices: 61651279--61651329 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
61651269 CTCTACCAAA
61651279 ATTAAATTTAAATAATAAAAATATAT
1 ATTAAATTT-AATAAT-AAAATATAT
*
61651305 ATTAAATTTAATTATAAAATATAT
1 ATTAAATTTAATAATAAAATATAT
61651329 A
1 A
61651330 ACTATCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 5 0.21
26 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAAATTTAATAATAAAATATAT
Found at i:61651344 original size:28 final size:25
Alignment explanation
Indices: 61651293--61651345 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 25
61651283 AATTTAAATA
* *
61651293 ATAAAAATATATATTAAATTTAATT
1 ATAAAAATATATATCAAATATAATT
61651318 ATAAAATATATAACTATCAAATATAATT
1 ATAAAA-ATAT-A-TATCAAATATAATT
61651346 CTTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 1 0.04
28 12 0.52
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAAATATATATCAAATATAATT
Found at i:61660765 original size:9 final size:9
Alignment explanation
Indices: 61660747--61660807 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
61660737 TTATCTAAAT
*
61660747 TTTTTAATA
1 TTTTTCATA
61660756 TTTTTCATA
1 TTTTTCATA
*
61660765 TATTTCTATAA
1 TTTTTC-AT-A
61660776 TTTTTCATA
1 TTTTTCATA
*
61660785 TTTCTACA-A
1 TTT-TTCATA
61660794 TTTTTTCATA
1 -TTTTTCATA
61660804 TTTT
1 TTTT
61660808 ATGATTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 25 0.60
10 11 0.26
11 6 0.14
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTCATA
Found at i:61660780 original size:20 final size:20
Alignment explanation
Indices: 61660755--61660804 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
61660745 ATTTTTTAAT
*
61660755 ATTTTTCATATATTTCTATA
1 ATTTTTCATATATTTCTACA
61660775 ATTTTTC--ATATTTCTACA
1 ATTTTTCATATATTTCTACA
61660793 ATTTTTTCATAT
1 A-TTTTTCATAT
61660805 TTTATGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.42
19 6 0.23
20 7 0.27
21 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTCATATATTTCTACA
Found at i:61660787 original size:18 final size:18
Alignment explanation
Indices: 61660764--61660815 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
61660754 TATTTTTCAT
61660764 ATATTTCTATAATTTTTC
1 ATATTTCTATAATTTTTC
*
61660782 ATATTTCTACAATTTTTTC
1 ATATTTCTATAA-TTTTTC
*
61660801 ATATTT-TATGATTTT
1 ATATTTCTATAATTTT
61660816 CATTGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 12 0.40
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTCTATAATTTTTC
Found at i:61660798 original size:19 final size:18
Alignment explanation
Indices: 61660764--61660806 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
61660754 TATTTTTCAT
*
61660764 ATATTTCTATAATTTTTC
1 ATATTTCTACAATTTTTC
61660782 ATATTTCTACAATTTTTTC
1 ATATTTCTACAA-TTTTTC
61660801 ATATTT
1 ATATTT
61660807 TATGATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTCTACAATTTTTC
Found at i:61668308 original size:18 final size:21
Alignment explanation
Indices: 61668285--61668328 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
61668275 CATATACATG
61668285 CATACA-TTTT-A-TAATACA
1 CATACATTTTTAATTAATACA
61668303 CATACATTTTTAATTAATACA
1 CATACATTTTTAATTAATACA
61668324 CATAC
1 CATAC
61668329 TTACACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 1 0.04
21 12 0.52
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (21 bp):
CATACATTTTTAATTAATACA
Found at i:61669134 original size:106 final size:108
Alignment explanation
Indices: 61668867--61669175 Score: 329
Period size: 106 Copynumber: 2.9 Consensus size: 108
61668857 AAAAGAAAAT
* * * *
61668867 TTTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGAAAATGTACCCTAACGTGTTGGGTTT
1 TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
* * *
61668932 CGATTTCTAGTTCGACCAAAATAGCCAAATACCCTTTTTAAAC
66 CGATTACTAGTTCGACCAAAATAGCCAAATACCATTTTGAAAC
* * * * * * * *
61668975 TTTCAAAATAAGACCATATTTCGCGTTTGGAAATTTGAGAAAATGTGTCCTAACATGTTGGGTTT
1 TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
* * * * * *
61669040 CGATTACTCGTTTGGCC-AAATAGTCGAATATCATTTTGAAA-
66 CGATTACTAGTTCGACCAAAATAGCCAAATACCATTTTGAAAC
* * * *
61669081 TTTTAAAACGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
* * *
61669146 CGATTTA-TCGTTCGA-CTAAATAGCGAAATA
66 CGA-TTACTAGTTCGACCAAAATAGCCAAATA
61669176 TCCTCTTAAA
Statistics
Matches: 163, Mismatches: 36, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
105 1 0.01
106 72 0.44
107 22 0.13
108 68 0.42
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (108 bp):
TTTCAAAACAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGTTGGGTTT
CGATTACTAGTTCGACCAAAATAGCCAAATACCATTTTGAAAC
Found at i:61670038 original size:67 final size:68
Alignment explanation
Indices: 61669949--61670086 Score: 199
Period size: 68 Copynumber: 2.0 Consensus size: 68
61669939 GATTTTTTTC
* *
61669949 TTAAAGGATTATTAAACTTATAAACCTGTG-TTTTTTAAGGGATAAATCTTAAAGA-TATACATG
1 TTAAAGGATTATTAAACTTATAAACCTGTGTTTTTTTAAGGGATAAATATCAAA-ACTATACATG
61670012 AAAT
65 AAAT
* * *
61670016 TTAAGGGATTTTTAAACTTATAAACCTGTGTTTTTTTTAGGGATAAATATCAAAACTATACATGA
1 TTAAAGGATTATTAAACTTATAAACCTGTGTTTTTTTAAGGGATAAATATCAAAACTATACATGA
*
61670081 ACT
66 AAT
61670084 TTA
1 TTA
61670087 GTCTAATGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
67 29 0.46
68 34 0.54
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (68 bp):
TTAAAGGATTATTAAACTTATAAACCTGTGTTTTTTTAAGGGATAAATATCAAAACTATACATGA
AAT
Found at i:61677442 original size:23 final size:22
Alignment explanation
Indices: 61677406--61677448 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
61677396 AAATTATAAA
61677406 ATATAAAAAAATATATATGTTC
1 ATATAAAAAAATATATATGTTC
61677428 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
61677449 ATGTGAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTTC
Found at i:61679503 original size:13 final size:13
Alignment explanation
Indices: 61679485--61679509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61679475 CTTAACCAAC
61679485 AAACAAAAAAACA
1 AAACAAAAAAACA
61679498 AAACAAAAAAAC
1 AAACAAAAAAAC
61679510 CCTAGCCCTA
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAACA
Found at i:61680566 original size:6 final size:6
Alignment explanation
Indices: 61680555--61680591 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
61680545 CATTTTGAGG
*
61680555 TTTTTA TTTTTA TTTTTA TTTTT- TTATTA -TTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
61680592 CGGTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 8 0.30
6 19 0.70
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:61680630 original size:15 final size:14
Alignment explanation
Indices: 61680599--61680640 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
61680589 TTTCGGTTTG
61680599 TTTGTT-TTATTA-
1 TTTGTTGTTATTAT
61680611 TTTGTTGTTATTAT
1 TTTGTTGTTATTAT
61680625 TGTTGTTGTTATTAT
1 T-TTGTTGTTATTAT
61680640 T
1 T
61680641 ATCACCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.22
13 6 0.22
14 1 0.04
15 14 0.52
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
TTTGTTGTTATTAT
Found at i:61680772 original size:12 final size:12
Alignment explanation
Indices: 61680757--61680859 Score: 56
Period size: 12 Copynumber: 8.6 Consensus size: 12
61680747 TTATTATGCG
61680757 TTGTATTATTTA
1 TTGTATTATTTA
61680769 TTG--TTA-TTA
1 TTGTATTATTTA
* *
61680778 TCGTTGTTATTTA
1 TTG-TATTATTTA
* *
61680791 TTGTTGTTGTTATTA
1 TTG-TATTATT--TA
61680806 TTGT-T-ATTTA
1 TTGTATTATTTA
*
61680816 TTGTTTTATTTA
1 TTGTATTATTTA
*
61680828 TTGTTTTATTTA
1 TTGTATTATTTA
61680840 TTGTTATTATGTTA
1 TTG-TATTAT-TTA
61680854 TT-TATT
1 TTGTATT
61680860 GATGTCTCAT
Statistics
Matches: 76, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
9 5 0.07
10 9 0.12
11 1 0.01
12 32 0.42
13 18 0.24
14 6 0.08
15 5 0.07
ACGTcount: A:0.18, C:0.01, G:0.12, T:0.69
Consensus pattern (12 bp):
TTGTATTATTTA
Found at i:61680797 original size:25 final size:25
Alignment explanation
Indices: 61680747--61680849 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 25
61680737 TAATATTTTC
*
61680747 TTATTATGCGTTG-TA-TTATTTATTG
1 TTATTAT-CGTTGTTATTTA-TTGTTG
61680772 TTATTATCGTTGTTATTTATTGTTG
1 TTATTATCGTTGTTATTTATTGTTG
* **
61680797 TTGTTATTATTGTTATTTATTGTT-
1 TTATTATCGTTGTTATTTATTGTTG
* *
61680821 TTATTTATTGTT-TTATTTATTGTTA
1 TTA-TTATCGTTGTTATTTATTGTTG
61680846 TTAT
1 TTAT
61680850 GTTATTTATT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
24 20 0.29
25 45 0.66
26 3 0.04
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (25 bp):
TTATTATCGTTGTTATTTATTGTTG
Found at i:61680797 original size:37 final size:35
Alignment explanation
Indices: 61680756--61680860 Score: 114
Period size: 37 Copynumber: 3.0 Consensus size: 35
61680746 CTTATTATGC
61680756 GTTGTATTATTTATTGTTATTATCGTTGTTATTTATT
1 GTTGT-TTATTTATTGTTATTATCGTT-TTATTTATT
*
61680793 GTTGTTGT-TATTATTGTTATTTATTGTTTTATTTATT
1 GTTGTT-TAT-TTATTGTTA-TTATCGTTTTATTTATT
61680830 G-T-TTTATTTATTGTTATTAT-G--TTATTTATT
1 GTTGTTTATTTATTGTTATTATCGTTTTATTTATT
61680860 G
1 G
61680861 ATGTCTCATT
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
30 10 0.16
32 1 0.02
33 4 0.06
34 10 0.16
35 3 0.05
36 3 0.05
37 25 0.40
38 7 0.11
ACGTcount: A:0.18, C:0.01, G:0.13, T:0.68
Consensus pattern (35 bp):
GTTGTTTATTTATTGTTATTATCGTTTTATTTATT
Found at i:61680852 original size:8 final size:9
Alignment explanation
Indices: 61680766--61680860 Score: 65
Period size: 9 Copynumber: 10.7 Consensus size: 9
61680756 GTTGTATTAT
61680766 TTATTGTTA
1 TTATTGTTA
* *
61680775 TTATCGTTG
1 TTATTGTTA
* *
61680784 TTATTTATTG
1 TTA-TTGTTA
*
61680794 TTGTTGTTA
1 TTATTGTTA
61680803 TTATTGTTA
1 TTATTGTTA
61680812 TTTATTGTT-
1 -TTATTGTTA
61680821 TTA-T-TTA
1 TTATTGTTA
*
61680828 TTGTT-TTA
1 TTATTGTTA
61680836 TTTATTGTTA
1 -TTATTGTTA
61680846 TTA-TGTTA
1 TTATTGTTA
61680854 TTTATTG
1 -TTATTG
61680861 ATGTCTCATT
Statistics
Matches: 68, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 12 0.18
9 32 0.47
10 19 0.28
ACGTcount: A:0.18, C:0.01, G:0.13, T:0.68
Consensus pattern (9 bp):
TTATTGTTA
Found at i:61681603 original size:74 final size:74
Alignment explanation
Indices: 61681461--61681603 Score: 234
Period size: 74 Copynumber: 1.9 Consensus size: 74
61681451 AAAGGATTTC
* * * *
61681461 TGGCGACTCTCATGTTCGTTTTCATTTTCAAAATCCAAGTCGACCCGTTTTTCAAAAAAGTTGTT
1 TGGCGACTCTCATGTTCGTTTTCATTTTCAAAATCCAAGTCCACCCATTTTTCAAAAAAGTGGAT
61681526 TCGATAGCT
66 TCGATAGCT
61681535 TGGCGACTC-CACTGTTCGTTTTCATTTTCAAAATCCAAGTCCACCCATTTTTCAAAAAAGTGGA
1 TGGCGACTCTCA-TGTTCGTTTTCATTTTCAAAATCCAAGTCCACCCATTTTTCAAAAAAGTGGA
61681599 TTCGA
65 TTCGA
61681604 CAGAAATATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 2 0.03
74 62 0.97
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (74 bp):
TGGCGACTCTCATGTTCGTTTTCATTTTCAAAATCCAAGTCCACCCATTTTTCAAAAAAGTGGAT
TCGATAGCT
Found at i:61688671 original size:30 final size:30
Alignment explanation
Indices: 61688615--61688672 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
61688605 AATGGAGAAT
* *
61688615 AAATTTAAAACTCTACTTTTTTTTTTAAGA
1 AAATTTAAAACTCTACTTTATATTTTAAGA
61688645 AAATTTAAAACTCTA-TTTAATATTTTAA
1 AAATTTAAAACTCTACTTT-ATATTTTAA
61688673 ATAAATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (30 bp):
AAATTTAAAACTCTACTTTATATTTTAAGA
Found at i:61689666 original size:37 final size:35
Alignment explanation
Indices: 61689558--61689669 Score: 100
Period size: 39 Copynumber: 3.1 Consensus size: 35
61689548 CAGAAAAAAG
* * *
61689558 AATTATCAAAAAATATAAGAATTATTAAA-TATCAA
1 AATTATAAAAAAATATAAGATTTAATAAATTAT-AA
* * * *
61689593 AATAATAAAAATATATGAAAATTAATATAAACTTATAA
1 AATTATAAAAAAATAT-AAGATTTA-ATAAA-TTATAA
61689631 ATATTATAAAAAAATATAAGATTCTAATAAATTATAA
1 A-ATTATAAAAAAATATAAGATT-TAATAAATTATAA
61689668 AA
1 AA
61689670 AAATCTTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
35 13 0.22
36 6 0.10
37 11 0.18
38 13 0.22
39 17 0.28
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (35 bp):
AATTATAAAAAAATATAAGATTTAATAAATTATAA
Found at i:61689688 original size:22 final size:23
Alignment explanation
Indices: 61689662--61689715 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
61689652 TTCTAATAAA
*
61689662 TTATAAAAAAATCT-TTAAAATT
1 TTATAAAAAAAACTATTAAAATT
*
61689684 TTATAAAAAAAAGTATTAAAATT
1 TTATAAAAAAAACTATTAAAATT
*
61689707 ATATAAAAA
1 TTATAAAAA
61689716 CCATCAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TTATAAAAAAAACTATTAAAATT
Found at i:61689753 original size:22 final size:20
Alignment explanation
Indices: 61689659--61689784 Score: 62
Period size: 20 Copynumber: 6.2 Consensus size: 20
61689649 AGATTCTAAT
* * *
61689659 AAATTATAAAAAAATCTTTA
1 AAATTATATAAAAATATATA
* *
61689679 AAATTTTATAAAAAAAAGTATTA
1 AAATTATAT-AAAAATA-TA-TA
* *
61689702 AAATTATATAAAAACCAT-CA
1 AAATTATATAAAAA-TATATA
*
61689722 AAA-CA-ATAAAAATATATTA
1 AAATTATATAAAAATATA-TA
**
61689741 AAATTGATATAAACCTATA-A
1 AAATT-ATATAAAAATATATA
*
61689761 AAATTATAAAAAAATAATATA
1 AAATTATATAAAAAT-ATATA
61689782 AAA
1 AAA
61689785 ATTAAACTAG
Statistics
Matches: 78, Mismatches: 17, Indels: 21
0.67 0.15 0.18
Matches are distributed among these distances:
17 2 0.03
18 7 0.09
19 12 0.15
20 20 0.26
21 10 0.13
22 16 0.21
23 11 0.14
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATTATATAAAAATATATA
Found at i:61689770 original size:39 final size:38
Alignment explanation
Indices: 61689697--61689772 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 38
61689687 TAAAAAAAAG
*
61689697 TATTAAAATTATATAAAAACCATCAAAACAATAAAAATA
1 TATTAAAATTATAT-AAAACCATAAAAACAATAAAAATA
**
61689736 TATTAAAATTGATAT-AAACCTATAAAAATTATAAAAA
1 TATTAAAATT-ATATAAAACC-ATAAAAACAATAAAAA
61689773 AATAATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 5 0.16
39 23 0.72
40 4 0.12
ACGTcount: A:0.62, C:0.08, G:0.01, T:0.29
Consensus pattern (38 bp):
TATTAAAATTATATAAAACCATAAAAACAATAAAAATA
Found at i:61694400 original size:7 final size:7
Alignment explanation
Indices: 61694388--61694412 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61694378 TACGCTACTG
61694388 AATATAA
1 AATATAA
61694395 AATATAA
1 AATATAA
61694402 AATATAA
1 AATATAA
61694409 AATA
1 AATA
61694413 GATATTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:61699187 original size:73 final size:70
Alignment explanation
Indices: 61699093--61699228 Score: 157
Period size: 73 Copynumber: 1.9 Consensus size: 70
61699083 TTTTATAATT
* * * *
61699093 CAAAAAAAAAAACATTGATGAATAAAATTGCA-AGAGCTGTGCAGTGGTCAAAATAAAATTAATT
1 CAAAAAAAAAAACATCGATGAATAAAACTG-AGAGAGCTGTGCACTGGTCAAAAGAAAATTAATT
61699157 GTTCAC
65 GTTCAC
** * *
61699163 CAAAAAAAAAAACAATAACGATGAATTCAACTGAGGGAGGTGTGCACTGGTCAAAAGAAAATTAA
1 CAAAAAAAAAAAC-AT--CGATGAATAAAACTGAGAGAGCTGTGCACTGGTCAAAAGAAAATTAA
61699228 T
63 T
61699229 CGACAATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
70 13 0.24
71 2 0.04
72 1 0.02
73 38 0.70
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (70 bp):
CAAAAAAAAAAACATCGATGAATAAAACTGAGAGAGCTGTGCACTGGTCAAAAGAAAATTAATTG
TTCAC
Found at i:61707892 original size:87 final size:87
Alignment explanation
Indices: 61707726--61707916 Score: 212
Period size: 87 Copynumber: 2.2 Consensus size: 87
61707716 CCAGTTTGTG
*
61707726 GATGAACCACCAGTGTCTGCAGATAAACTACCAGTAGGTGATGAATGCACAAAGTATTTGCAGAT
1 GATGAACCACCAGTGTTTGCAGATAAACTACCAGTAGGTGATGAATGCACAAAGTATTTGCAGAT
**
61707791 AAAAGTTGTCAGTAAGATT-GCA
66 AAAAGTACTCAGTAA-ATTCGCA
* * * *
61707813 GATGAACCACCAGTGTTTGTAGATAAACTGCCAGTAGGTTG-TGAGTGCACAACA-TAATTT-TA
1 GATGAACCACCAGTGTTTGCAGATAAACTACCAGTAGG-TGATGAATGCACAA-AGT-ATTTGCA
**
61707875 GATAAAAGCTACT-AGTAAATTCGTG
63 GATAAAAG-TACTCAGTAAATTCGCA
*
61707900 GATAAACCACCAGTGTT
1 GATGAACCACCAGTGTT
61707917 GCTGATTATT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
86 3 0.03
87 77 0.87
88 9 0.10
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (87 bp):
GATGAACCACCAGTGTTTGCAGATAAACTACCAGTAGGTGATGAATGCACAAAGTATTTGCAGAT
AAAAGTACTCAGTAAATTCGCA
Found at i:61708062 original size:38 final size:38
Alignment explanation
Indices: 61708011--61708108 Score: 133
Period size: 38 Copynumber: 2.6 Consensus size: 38
61708001 ACAAGAACAA
*
61708011 TAGACATGCTTAACATGTATTCGGTTCAACAATAGTAG
1 TAGACATGCTTAACATGTATTCGGTTCAACAATAATAG
* * * *
61708049 TAGACATGCTTAACATGTATTAGGTTTAATAGTAATAG
1 TAGACATGCTTAACATGTATTCGGTTCAACAATAATAG
* *
61708087 TAGGCATGTTTAACATGTATTC
1 TAGACATGCTTAACATGTATTC
61708109 AATTTAATAG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (38 bp):
TAGACATGCTTAACATGTATTCGGTTCAACAATAATAG
Found at i:61708115 original size:38 final size:38
Alignment explanation
Indices: 61708011--61708133 Score: 122
Period size: 38 Copynumber: 3.2 Consensus size: 38
61708001 ACAAGAACAA
* * * * * *
61708011 TAGACATGCTTAACATGTATTCGGTTCAACAATAGTAG
1 TAGACATGCTTAACATGTATTAGATTTAATAGTAATAG
*
61708049 TAGACATGCTTAACATGTATTAGGTTTAATAGTAATAG
1 TAGACATGCTTAACATGTATTAGATTTAATAGTAATAG
* * ** *
61708087 TAGGCATGTTTAACATGTATTCA-ATTTAATAGCGACAG
1 TAGACATGCTTAACATGTATT-AGATTTAATAGTAATAG
61708125 TAGACATGC
1 TAGACATGC
61708134 AACCAGTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 70 0.99
39 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (38 bp):
TAGACATGCTTAACATGTATTAGATTTAATAGTAATAG
Found at i:61708312 original size:13 final size:13
Alignment explanation
Indices: 61708294--61708318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61708284 GAATTAATAT
61708294 GTGTGAAAATTTC
1 GTGTGAAAATTTC
61708307 GTGTGAAAATTT
1 GTGTGAAAATTT
61708319 TATTGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:61709474 original size:43 final size:42
Alignment explanation
Indices: 61709411--61709536 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 42
61709401 AGGATTCCGT
*
61709411 TATGTGTTATCGTGTAAGACCATGTCTGGGACGTTGGCATCAAC
1 TATGTGTTA-CGTGTAAGACCATGTTTGGGACGTTGGCATC-AC
* **
61709455 T-TGTGTTTACGTGTAAGACCCTGTTTGGGACAG-TGGCATCGT
1 TATGTG-TTACGTGTAAGACCATGTTTGGGAC-GTTGGCATCAC
* * *
61709497 TATGTGATTACATGTAAGACCACGTTTGGGATGTTGGCAT
1 TATGTG-TTACGTGTAAGACCATGTTTGGGACGTTGGCAT
61709537 TGTAAAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 62 0.90
44 5 0.07
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (42 bp):
TATGTGTTACGTGTAAGACCATGTTTGGGACGTTGGCATCAC
Found at i:61710537 original size:23 final size:23
Alignment explanation
Indices: 61710502--61710795 Score: 356
Period size: 23 Copynumber: 12.7 Consensus size: 23
61710492 ACTAGGTATA
*
61710502 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
61710525 TATAAATGTTGTCCAATTTAGTG
1 TATAAATGCTGTCCAATTTGGTG
*
61710548 TATAAATTGCTGTCCAATTTAGTG
1 TATAAA-TGCTGTCCAATTTGGTG
*
61710572 TATATATGCT-TCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
61710594 TATAAAATGCTGTCCAATTTGGTG
1 TAT-AAATGCTGTCCAATTTGGTG
*
61710618 TATATATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
61710641 TATATATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
61710664 TATAAAATGTTATCCGATTTGGTG
1 TAT-AAATGCTGTCCAATTTGGTG
*
61710688 TATAAATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
61710711 TATATATGCTGTCCAATTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
* * * *
61710734 TATATATGCTGTCCGATTGGGTA
1 TATAAATGCTGTCCAATTTGGTG
* * *
61710757 TATAAATGATGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
*
61710780 TATAAAAGCTGTCCAA
1 TATAAATGCTGTCCAA
61710796 ACAGGGTAGA
Statistics
Matches: 240, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.06
23 170 0.71
24 56 0.23
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:61710720 original size:116 final size:116
Alignment explanation
Indices: 61710500--61710795 Score: 398
Period size: 116 Copynumber: 2.6 Consensus size: 116
61710490 TGACTAGGTA
* * * *
61710500 TATATATATGCTGTCCAATTTGGTGTATAAATGTTGTCCAATTTAGTGTATAAATTGCTGTCCAA
1 TATATATATGCTGTCCAATTTGGTGTATAAATGATGTCCAATTTGGTGTATAAAATGCTATCCAA
*
61710565 TTTAGTGTATATATGCTTCCAATTTGGTGTATAAAATGCTGTCCAATTTGG
66 TTTAGTGTATAAATGCTTCCAATTTGGTGTATAAAATGCTGTCCAATTTGG
* * * * * *
61710616 TGTATATATGCTGTCCAATTTGGTGTATATATGCTATCCAATTTGGTGTATAAAATGTTATCCGA
1 TATATATATGCTGTCCAATTTGGTGTATAAATGATGTCCAATTTGGTGTATAAAATGCTATCCAA
* *
61710681 TTTGGTGTATAAATGCTATCCAATTTGGTGTAT-ATATGCTGTCCAATTTGG
66 TTTAGTGTATAAATGCT-TCCAATTTGGTGTATAAAATGCTGTCCAATTTGG
* * * * * *
61710732 TATATATATGCTGTCCGATTGGGTATATAAATGATGTCCGATTTGATGTATAAAA-GCTGTCCAA
1 TATATATATGCTGTCCAATTTGGTGTATAAATGATGTCCAATTTGGTGTATAAAATGCTATCCAA
61710796 ACAGGGTAGA
Statistics
Matches: 155, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
115 6 0.04
116 134 0.86
117 15 0.10
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (116 bp):
TATATATATGCTGTCCAATTTGGTGTATAAATGATGTCCAATTTGGTGTATAAAATGCTATCCAA
TTTAGTGTATAAATGCTTCCAATTTGGTGTATAAAATGCTGTCCAATTTGG
Found at i:61713002 original size:3 final size:3
Alignment explanation
Indices: 61712990--61713063 Score: 64
Period size: 3 Copynumber: 24.7 Consensus size: 3
61712980 GTTAATATAG
* * * *
61712990 TAA T-A TAA TAA TAA TGAA TCAC TAA AAA TAA -AA AAA TAA -AA AAGA
1 TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A
61713035 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61713064 CAATTAACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.10
3 46 0.78
4 7 0.12
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:61715967 original size:22 final size:22
Alignment explanation
Indices: 61715940--61715990 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
61715930 CTCTCTAATC
61715940 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
61715962 CTCTCAATTTCCTTTCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
61715984 CTCTCAA
1 CTCTCAA
61715991 ACCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:61716098 original size:30 final size:32
Alignment explanation
Indices: 61716045--61716112 Score: 122
Period size: 31 Copynumber: 2.2 Consensus size: 32
61716035 CTCTCAAATC
61716045 TATTTTTTTAAAATAATTATTAA-TTTTTTTA
1 TATTTTTTTAAAATAATTATTAATTTTTTTTA
61716076 TATTTTTTTAAAATAATT-TTAATTTTTTTTA
1 TATTTTTTTAAAATAATTATTAATTTTTTTTA
61716107 TATTTT
1 TATTTT
61716113 CATCAATGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (32 bp):
TATTTTTTTAAAATAATTATTAATTTTTTTTA
Found at i:61716224 original size:14 final size:15
Alignment explanation
Indices: 61716205--61716234 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
61716195 TTTGTAATTA
61716205 TTATTTAAG-ATTTT
1 TTATTTAAGTATTTT
61716219 TTATTTAAGTATTTT
1 TTATTTAAGTATTTT
61716234 T
1 T
61716235 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTATTTAAGTATTTT
Found at i:61717205 original size:7 final size:7
Alignment explanation
Indices: 61717193--61717217 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61717183 AGTCGATTGA
61717193 TATTTAG
1 TATTTAG
61717200 TATTTAG
1 TATTTAG
61717207 TATTTAG
1 TATTTAG
61717214 TATT
1 TATT
61717218 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:61717890 original size:18 final size:18
Alignment explanation
Indices: 61717869--61717903 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61717859 AAGTATGTTT
* *
61717869 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
61717887 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
61717904 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:61718426 original size:5 final size:5
Alignment explanation
Indices: 61718418--61718443 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61718408 AATTGAAAAC
61718418 CCTAA CCTAA CCTAA CCTAA CCTAA C
1 CCTAA CCTAA CCTAA CCTAA CCTAA C
61718444 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CCTAA
Found at i:61718468 original size:29 final size:29
Alignment explanation
Indices: 61718428--61718872 Score: 682
Period size: 29 Copynumber: 15.8 Consensus size: 29
61718418 CCTAACCTAA
*
61718428 CCTAA-CCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
61718456 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
61718485 CCTAA-CCTAACCT--A--AA-TAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718508 CCTAACCCTAACCTAACTTAATT-AAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718536 CCTAACCTTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718565 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
61718594 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
61718623 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718652 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718681 CCTAACCCTAACCTAAATTAATTAAAAAT
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718710 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718739 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
* *
61718768 CCTAACCCTCACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
61718797 CCTAA--C---CCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
* *
61718821 CCTAACCTTAATCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAAATTAATTAAAAAC
*
61718850 CCTAACCCTAACCTAACTTAATT
1 CCTAACCCTAACCTAAATTAATT
61718873 TGATAAATTT
Statistics
Matches: 383, Mismatches: 21, Indels: 25
0.89 0.05 0.06
Matches are distributed among these distances:
23 12 0.03
24 32 0.08
26 1 0.00
27 1 0.00
28 41 0.11
29 296 0.77
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (29 bp):
CCTAACCCTAACCTAAATTAATTAAAAAC
Found at i:61718802 original size:18 final size:20
Alignment explanation
Indices: 61718800--61718837 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
61718790 TAAAAACCCT
61718800 AACCCTAA-ATTAAT-TAAA
1 AACCCTAACATTAATCTAAA
*
61718818 AACCCTAACCTTAATCTAAA
1 AACCCTAACATTAATCTAAA
61718838 TTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (20 bp):
AACCCTAACATTAATCTAAA
Found at i:61718942 original size:56 final size:56
Alignment explanation
Indices: 61718870--61719053 Score: 275
Period size: 56 Copynumber: 3.3 Consensus size: 56
61718860 ACCTAACTTA
* *
61718870 ATTTGATAAATTTTACTAACCATTAACACAATTTTTGGACTTGATAATTTTAGTTT
1 ATTTCATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTT
* **
61718926 ATTTCATAAATTTTACTAACCATTAATACAATTTTTGG-CTTAATAATTTTA-CAT
1 ATTTCATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTT
* *
61718980 ATTTTGAT-AATTTTACTAACCATTAACACAATTTCTGGACTTAATAATTTTAGTTT
1 A-TTTCATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTT
61719036 ATTTCATAAATTTTACTA
1 ATTTCATAAATTTTACTA
61719054 TTTCTTACAT
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
54 30 0.27
55 35 0.31
56 48 0.42
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (56 bp):
ATTTCATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTT
Found at i:61724109 original size:26 final size:26
Alignment explanation
Indices: 61724073--61724122 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
61724063 AGGTATATTA
*
61724073 TTTTTGTTTTT-TTTCTCTGCTTGTGC
1 TTTTTATTTTTGTTTCTCTG-TTGTGC
61724099 TTTTTATTTTTGTTTCTCTGTTGT
1 TTTTTATTTTTGTTTCTCTGTTGT
61724123 TTTACAGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.02, C:0.12, G:0.14, T:0.72
Consensus pattern (26 bp):
TTTTTATTTTTGTTTCTCTGTTGTGC
Found at i:61726084 original size:13 final size:13
Alignment explanation
Indices: 61726063--61726094 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61726053 ATGTGTTTAA
*
61726063 ATTTAGTAACCTT
1 ATTTGGTAACCTT
61726076 ATTTGGTAACCTT
1 ATTTGGTAACCTT
61726089 ATTTGG
1 ATTTGG
61726095 CATGACAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (13 bp):
ATTTGGTAACCTT
Found at i:61730691 original size:46 final size:46
Alignment explanation
Indices: 61730624--61730714 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
61730614 CATTTTCCTA
*
61730624 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTGAATTCTG
1 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCTG
61730670 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCT
1 TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCT
61730715 TCTCCACTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (46 bp):
TAGAGTTGAGTGTTTTTCCTTCCTTTCAAAAATATAGTAAATTCTG
Found at i:61731145 original size:68 final size:69
Alignment explanation
Indices: 61731030--61731162 Score: 223
Period size: 68 Copynumber: 1.9 Consensus size: 69
61731020 TTGCCTTCTA
* *
61731030 ATATATCTCGTTCACTTATTTGCAACGCTTCCTCTCTCCAT-AAAAAAAATTCTCTTCAATTCCA
1 ATATATCTCGTTCACTTATTTGCAACACTTCCTCTCTCCATAAAAAAAAACTCTCTTCAATTCCA
61731094 ACTC
66 ACTC
**
61731098 ATATATCTCGTTCACTTATTTGCAACACTTCCTCTCTCCATTTAAAAAAACTCTCTTCAATTCCA
1 ATATATCTCGTTCACTTATTTGCAACACTTCCTCTCTCCATAAAAAAAAACTCTCTTCAATTCCA
61731163 GACTGTTGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
68 40 0.66
69 21 0.34
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (69 bp):
ATATATCTCGTTCACTTATTTGCAACACTTCCTCTCTCCATAAAAAAAAACTCTCTTCAATTCCA
ACTC
Found at i:61731641 original size:106 final size:106
Alignment explanation
Indices: 61731499--61731711 Score: 329
Period size: 106 Copynumber: 2.0 Consensus size: 106
61731489 AAATATCGCT
*
61731499 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCGAGTTAATC-GAGAAGAAAATCATGCC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCAAGTTAATCAG-GAAGAAAATCATGCC
* *
61731563 TCGTAAGTTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
65 CCGTAAGGTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
* * * *
61731605 AATTAAATCAAATTTTATGAAGAATGTCTTCGTATTTCAAGTTAATCAGGAAGAGAATCATGCCC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCAAGTTAATCAGGAAGAAAATCATGCCC
**
61731670 CGTAAGGTAGGGCACGATGTCTCGAATCCCTGAAAATAAGA
66 CGTAAGGTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
61731711 A
1 A
61731712 TGCTCATTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 96 0.99
107 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATGCCTTCATATTTCAAGTTAATCAGGAAGAAAATCATGCCC
CGTAAGGTAGGGCACGATGTCTCGAATCCCCAAAAATAAGA
Found at i:61733143 original size:51 final size:52
Alignment explanation
Indices: 61733088--61733195 Score: 116
Period size: 51 Copynumber: 2.1 Consensus size: 52
61733078 TTTTATTCTG
*
61733088 ATTTTTCATCTAG-ATTT-ATCTTTTTCATTCTTCTT-TCTTTTTCTTATTTTC
1 ATTTTTCATCTAGAATTTGAT-TTTTTCATTCTTCTTCT-TTTTTCTTATTTTA
* * * * *
61733139 A-TTTTGATCTTGAATTTGATTTTTTCTTTTTTCTTCTTTTTTTTTATTTTA
1 ATTTTTCATCTAGAATTTGATTTTTTCATTCTTCTTCTTTTTTCTTATTTTA
61733190 ATTTTT
1 ATTTTT
61733196 TGATTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
50 9 0.19
51 31 0.66
52 7 0.15
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.70
Consensus pattern (52 bp):
ATTTTTCATCTAGAATTTGATTTTTTCATTCTTCTTCTTTTTTCTTATTTTA
Found at i:61733194 original size:25 final size:24
Alignment explanation
Indices: 61733175--61733228 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
61733165 TTTTTTCTTC
*
61733175 TTTTTTTTTATTTTAATTTTTTGA
1 TTTTTTTTTACTTTAATTTTTTGA
*
61733199 TTTTTTTTTACTTTGA--TTTTGA
1 TTTTTTTTTACTTTAATTTTTTGA
61733221 TTTTTTTT
1 TTTTTTTT
61733229 CTTCCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 14 0.50
24 14 0.50
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.80
Consensus pattern (24 bp):
TTTTTTTTTACTTTAATTTTTTGA
Found at i:61733239 original size:21 final size:22
Alignment explanation
Indices: 61733192--61733244 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
61733182 TTATTTTAAT
**
61733192 TTTTTGATTTTTTTTTACTTTGA
1 TTTTTGA-TTTTTTTTACTTCCA
61733215 -TTTTGATTTTTTTT-CTTCCA
1 TTTTTGATTTTTTTTACTTCCA
61733235 TTTTTGATTT
1 TTTTTGATTT
61733245 GAGCCTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 17 0.63
22 6 0.22
ACGTcount: A:0.11, C:0.08, G:0.08, T:0.74
Consensus pattern (22 bp):
TTTTTGATTTTTTTTACTTCCA
Found at i:61737393 original size:11 final size:12
Alignment explanation
Indices: 61737376--61737451 Score: 66
Period size: 12 Copynumber: 6.4 Consensus size: 12
61737366 ATATAGAAGC
*
61737376 AATAATATTAGT
1 AATAATAATAGT
61737388 -ATAATAATAGT
1 AATAATAATAGT
61737399 AATAATAAT-GAT
1 AATAATAATAG-T
* * *
61737411 AACACTAATAAT
1 AATAATAATAGT
*
61737423 AATAATAATAAT
1 AATAATAATAGT
* *
61737435 AATATTAATAAT
1 AATAATAATAGT
61737447 AATAA
1 AATAA
61737452 ACTTAAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
11 11 0.21
12 42 0.79
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:61737464 original size:3 final size:3
Alignment explanation
Indices: 61737388--61737451 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
61737378 TAATATTAGT
* * * *
61737388 ATA ATA ATA GTA ATA ATA ATG ATA ACA CTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
61737436 ATA TTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
61737452 ACTTAAATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61743073 original size:46 final size:47
Alignment explanation
Indices: 61742989--61743355 Score: 372
Period size: 46 Copynumber: 7.6 Consensus size: 47
61742979 TTTGAGTACT
* *
61742989 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCATTCAGCTACACTTA
* * *
61743035 TCTGATCAAGTGAC-AAGTGGA-AAGTGATAAGCAATAGCTTCGGTTATACTTA
1 TCTGATCAAGTGACAAAGT-GATAAGTGAT-AGC---A--TTCAGCTACACTTA
* *
61743087 TCTGATCAAGTGACAAAGTGATAAGTGATAGC-TTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCATTCAGCTACACTTA
*
61743133 TCTGACCAAGTGACAAAGTGATAAGTGATAGC-TTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCATTCAGCTACACTTA
*
61743179 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGC-TTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCATTCAGCTACACTTA
* * *
61743231 TTTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGC-TTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCATTCAGCTACACTTA
* *
61743283 TCTGATCAAGAGACAAAGTGATAAGTGATAGC-TTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCATTCAGCTACACTTA
*
61743329 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
61743356 GCTACACTTA
Statistics
Matches: 286, Mismatches: 19, Indels: 32
0.85 0.06 0.09
Matches are distributed among these distances:
45 10 0.03
46 144 0.50
52 121 0.42
53 11 0.04
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (47 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCATTCAGCTACACTTA
Found at i:61743109 original size:98 final size:97
Alignment explanation
Indices: 61742989--61743355 Score: 474
Period size: 98 Copynumber: 3.7 Consensus size: 97
61742979 TTTGAGTACT
* *
61742989 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
** *
61743054 GAAAGTGATAAGCAATAGCTTCGGTTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
61743087 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGACCAAGTGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
61743147 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
61743179 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
61743244 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
61743283 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
61743348 GATAAGTG
65 GA-AAGTG
61743356 GCTACACTTA
Statistics
Matches: 235, Mismatches: 20, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
92 41 0.17
98 141 0.60
99 10 0.04
104 43 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:61743346 original size:196 final size:196
Alignment explanation
Indices: 61743003--61743355 Score: 580
Period size: 196 Copynumber: 1.8 Consensus size: 196
61742993 ATCAAGTGAC
* * *
61743003 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGCA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGCA
* * * *
61743068 ATAGCTTCGGTTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
61743133 TCTGACCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGACCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
61743198 G
196 G
* * **
61743199 AAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGCA
*
61743264 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
61743329 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGACCAAGAGACAAAGTGATAAGTG
61743356 GCTACACTTA
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
196 143 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGCA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGACCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:61743363 original size:37 final size:37
Alignment explanation
Indices: 61743319--61743447 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
61743309 GATAGCTTTA
*
61743319 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61743356 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
61743393 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
61743430 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
61743448 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:61744717 original size:36 final size:34
Alignment explanation
Indices: 61744671--61744744 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 34
61744661 TATATACGTC
61744671 TATAATTTTATATATATTATA-TATACATA-ATTACA
1 TATAATTTTATAT-T-TTATAGTATACATATA-TACA
61744706 TATAATATTTATATTTTATATGTATACATATATACA
1 TATAAT-TTTATATTTTATA-GTATACATATATACA
61744742 TAT
1 TAT
61744745 CCACTGTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
34 5 0.14
35 7 0.20
36 22 0.63
37 1 0.03
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.50
Consensus pattern (34 bp):
TATAATTTTATATTTTATAGTATACATATATACA
Found at i:61746657 original size:15 final size:15
Alignment explanation
Indices: 61746634--61746663 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61746624 AAAAGGAAGG
*
61746634 AAAATAAAGAAAGAA
1 AAAAGAAAGAAAGAA
61746649 AAAAGAAAGAAAGAA
1 AAAAGAAAGAAAGAA
61746664 GGGAAATAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGAAAGAA
Found at i:61747152 original size:2 final size:2
Alignment explanation
Indices: 61747145--61747187 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
61747135 TTTAATTTTC
*
61747145 AT AT AT AT AT AT AT AT -T AT AT CT -T AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61747184 AT AT
1 AT AT
61747188 CTTTATACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:61747193 original size:23 final size:23
Alignment explanation
Indices: 61747148--61747190 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
61747138 AATTTTCATA
61747148 TATATATATATATTATATCTTAT
1 TATATATATATATTATATCTTAT
61747171 TATATATATATA-TATATCTT
1 TATATATATATATTATATCTT
61747191 TATACACGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATATATATATTATATCTTAT
Found at i:61747257 original size:67 final size:67
Alignment explanation
Indices: 61747133--61747272 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
61747123 TTTATATTCA
* * *
61747133 TTTTTAATTTTCATATATATATATATATTATATCTTATTATATATATATATATATCTTTATACAC
1 TTTTTAATTTTCAGATATATATATATATTATATC-T-TTATATATATACATACATCTTTATACAC
61747198 GTAT
64 GTAT
* *
61747202 TTTTTAATTTTCAGATATATATATATACTTTGTATC-TTAT-TATATACATACATCTTTATATAC
1 TTTTTAATTTTCAGATATATATATATA--TTATATCTTTATATATATACATACATCTTTATACAC
61747265 GTAT
64 GTAT
61747269 TTTT
1 TTTT
61747273 CATTTACTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
67 28 0.44
68 4 0.06
69 26 0.41
71 6 0.09
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.55
Consensus pattern (67 bp):
TTTTTAATTTTCAGATATATATATATATTATATCTTTATATATATACATACATCTTTATACACGT
AT
Found at i:61747264 original size:69 final size:67
Alignment explanation
Indices: 61747133--61747272 Score: 176
Period size: 69 Copynumber: 2.1 Consensus size: 67
61747123 TTTATATTCA
* * * *
61747133 TTTTTAATTTTCATATATATATATATATTATATCTTATTATATATATATATATATCTTTATACAC
1 TTTTTAATTTTCAGATATATATATATATTATATCTTATTATATACATACATATATC--TATATAC
61747198 GTAT
64 GTAT
* *
61747202 TTTTTAATTTTCAGATATATATATATACTTTGTATCTTATTATATACATACATCT-T-TATATAC
1 TTTTTAATTTTCAGATATATATATATA--TTATATCTTATTATATACATACATATATCTATATAC
61747265 GTAT
64 GTAT
61747269 TTTT
1 TTTT
61747273 CATTTACTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
67 14 0.22
69 26 0.41
70 1 0.02
71 22 0.35
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.55
Consensus pattern (67 bp):
TTTTTAATTTTCAGATATATATATATATTATATCTTATTATATACATACATATATCTATATACGT
AT
Found at i:61747366 original size:21 final size:21
Alignment explanation
Indices: 61747340--61747379 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61747330 ACTTGTATGT
* *
61747340 ATTTTTATTTTTATTTTTACA
1 ATTTTTATATATATTTTTACA
61747361 ATTTTTATATATATTTTTA
1 ATTTTTATATATATTTTTA
61747380 TACATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTATATATATTTTTACA
Found at i:61751156 original size:28 final size:28
Alignment explanation
Indices: 61751125--61751193 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
61751115 AATCTCGAAC
** * *
61751125 CTCGAACCTTGAATTATAAATCTTAAAT
1 CTCGAACCTTGAACCATAAACCTCAAAT
* *
61751153 CTCGAATCTTGAACCCTAAACCTCAAAT
1 CTCGAACCTTGAACCATAAACCTCAAAT
61751181 C-CGAACCTTGAAC
1 CTCGAACCTTGAAC
61751194 TCCGAATACT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (28 bp):
CTCGAACCTTGAACCATAAACCTCAAAT
Found at i:61751901 original size:16 final size:16
Alignment explanation
Indices: 61751880--61751971 Score: 62
Period size: 17 Copynumber: 5.4 Consensus size: 16
61751870 TTTTTCTTTT
61751880 TTTTTTAAAACACGAA
1 TTTTTTAAAACACGAA
*
61751896 TTTTTTTAAATACAAGAA
1 -TTTTTTAAA-ACACGAA
61751914 --TTTTAGAAACACGAAA
1 TTTTTTA-AAACACG-AA
61751930 TTTTTTTAAAAAACACGAA
1 -TTTTTT--AAAACACGAA
** *
61751949 AATTTTGAAACACGAGA
1 TTTTTTAAAACACGA-A
61751966 TTTTTT
1 TTTTTT
61751972 TTTGAAAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
15 9 0.15
16 12 0.20
17 14 0.24
18 10 0.17
19 6 0.10
20 7 0.12
21 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (16 bp):
TTTTTTAAAACACGAA
Found at i:61751976 original size:20 final size:20
Alignment explanation
Indices: 61751951--61752005 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
61751941 AACACGAAAA
*
61751951 TTTTGAAACACGAGATTTT-T
1 TTTTGAAACACGA-ATTTTCC
61751971 TTTTGAAAACACGAATTTTCC
1 TTTTG-AAACACGAATTTTCC
*
61751992 TTTTGAAGCACGAA
1 TTTTGAAACACGAA
61752006 AATTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TTTTGAAACACGAATTTTCC
Found at i:61751982 original size:21 final size:21
Alignment explanation
Indices: 61751951--61751998 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
61751941 AACACGAAAA
*
61751951 TTTTG-AAACACGAGATTTT-T
1 TTTTGAAAACACGA-ATTTTCC
61751971 TTTTGAAAACACGAATTTTCC
1 TTTTGAAAACACGAATTTTCC
61751992 TTTTGAA
1 TTTTGAA
61751999 GCACGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (21 bp):
TTTTGAAAACACGAATTTTCC
Found at i:61751985 original size:37 final size:37
Alignment explanation
Indices: 61751882--61751972 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 37
61751872 TTTCTTTTTT
* *
61751882 TTTTA-AAACACG-AATTTTTTT-AAATACA--AGAA
1 TTTTAGAAACACGAAATTTTTTTAAAAAACACGAAAA
61751914 TTTTAGAAACACGAAATTTTTTTAAAAAACACGAAAA
1 TTTTAGAAACACGAAATTTTTTTAAAAAACACGAAAA
*
61751951 TTTT-GAAACACGAGATTTTTTT
1 TTTTAGAAACACGAAATTTTTTT
61751973 TTGAAAACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
32 5 0.10
33 7 0.14
34 9 0.18
35 6 0.12
36 17 0.33
37 7 0.14
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (37 bp):
TTTTAGAAACACGAAATTTTTTTAAAAAACACGAAAA
Found at i:61752048 original size:22 final size:20
Alignment explanation
Indices: 61752008--61752048 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
61751998 AGCACGAAAA
*
61752008 TTTTTAAAACACAAAATTTG
1 TTTTTAAAACAAAAAATTTG
61752028 TTTTTGAAAACATAAAAATTT
1 TTTTT-AAAACA-AAAAATTT
61752049 TGATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTAAAACAAAAAATTTG
Found at i:61752129 original size:18 final size:18
Alignment explanation
Indices: 61752075--61752378 Score: 173
Period size: 18 Copynumber: 16.8 Consensus size: 18
61752065 ATGAGGGTTT
*
61752075 TTTTTG-AAACACAAAAA
1 TTTTTGAAAACACGAAAA
* **
61752092 TTTATG-AAACACGGTCAA
1 TTTTTGAAAACAC-GAAAA
*
61752110 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
* * *
61752128 TTTTTGAAAGAC-GGGAAT
1 TTTTTGAAA-ACACGAAAA
61752146 TTTTTGAAAACACTG-AAA
1 TTTTTGAAAACAC-GAAAA
*
61752164 TTTATG-AAACACGGAAAA
1 TTTTTGAAAACAC-GAAAA
*
61752182 TTTTTTTTGAAAACAAGAAAA
1 ---TTTTTGAAAACACGAAAA
* **
61752203 TTTTTG-AAATACGGGAA
1 TTTTTGAAAACACGAAAA
*
61752220 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
61752238 -TTTTG-AAACACTG-AAA
1 TTTTTGAAAACAC-GAAAA
* *
61752254 -TGTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
61752271 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
**
61752288 TTTTTGAAAACACGAATT
1 TTTTTGAAAACACGAAAA
* * *
61752306 TTTTTTAAAACACGGAAG
1 TTTTTGAAAACACGAAAA
* *
61752324 TTTTTGAAACACAAGAAATTTTT
1 TTTTTGAAA-ACACGAAA----A
*
61752347 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
61752365 TTTTT-AAAACACGA
1 TTTTTGAAAACACGA
61752379 TTTTTTTTAG
Statistics
Matches: 218, Mismatches: 48, Indels: 42
0.71 0.16 0.14
Matches are distributed among these distances:
16 13 0.06
17 70 0.32
18 90 0.41
19 15 0.07
21 10 0.05
22 12 0.06
23 8 0.04
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:61752147 original size:35 final size:35
Alignment explanation
Indices: 61752075--61752346 Score: 223
Period size: 36 Copynumber: 7.7 Consensus size: 35
61752065 ATGAGGGTTT
* *
61752075 TTTTTG-AAACACAAAAATTTATGAAACACGGTCAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACGG-GAA
*
61752110 TTTTTGAAAACACAAAAATTTTTGAAAGACGGGAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACGGGAA
** * *
61752145 TTTTTTGAAAACACTGAAATTTATGAAACACGGAAAA
1 -TTTTTGAAAACACAAAAATTTTTGAAACACGG-GAA
*
61752182 TTTTTTTTGAAAACA-AGAAAATTTTTGAAATACGGGAA
1 ---TTTTTGAAAACACA-AAAATTTTTGAAACACGGGAA
** *
61752220 TTTTTGAAAACATGAAAA-TTTTGAAACAC-TGAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACGGGAA
* * * * * *
61752253 ATGTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTTGAAAACACAAAAATTTTTGAAACACGGGAA
*** *
61752288 TTTTTGAAAACACGAATTTTTTTTAAAACAC-GGAA
1 TTTTTGAAAACAC-AAAAATTTTTGAAACACGGGAA
61752323 GTTTTTG-AAACACAAGAAATTTTT
1 -TTTTTGAAAACACAA-AAATTTTT
61752347 TTTTTAAAAA
Statistics
Matches: 191, Mismatches: 34, Indels: 24
0.77 0.14 0.10
Matches are distributed among these distances:
33 17 0.09
34 22 0.12
35 52 0.27
36 68 0.36
37 2 0.01
38 2 0.01
39 28 0.15
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (35 bp):
TTTTTGAAAACACAAAAATTTTTGAAACACGGGAA
Found at i:61752254 original size:16 final size:17
Alignment explanation
Indices: 61752075--61752346 Score: 133
Period size: 17 Copynumber: 15.3 Consensus size: 17
61752065 ATGAGGGTTT
**
61752075 TTTTTGAAACACAAAAA
1 TTTTTGAAACACTGAAA
* * *
61752092 TTTATGAAACACGGTCAA
1 TTTTTGAAACACTG-AAA
**
61752110 TTTTTGAAAACACAAAAA
1 TTTTTG-AAACACTGAAA
* * *
61752128 TTTTTGAAAGACGGGAAT
1 TTTTTGAAACAC-TGAAA
61752146 TTTTTGAAAACACTGAAA
1 TTTTTG-AAACACTGAAA
* *
61752164 TTTATGAAACACGGAAAA
1 TTTTTGAAACACTG-AAA
*
61752182 TTTTTTTTGAAA-ACAAGAAAA
1 ---TTTTTGAAACAC-TG-AAA
* * *
61752203 TTTTTGAAATACGGGAA
1 TTTTTGAAACACTGAAA
61752220 TTTTTGAAA-ACATGAAA
1 TTTTTGAAACAC-TGAAA
*
61752237 ATTTTGAAACACTGAAA
1 TTTTTGAAACACTGAAA
*
61752254 -TGTTGAAAACAC-GAAGA
1 TTTTTG-AAACACTGAA-A
61752271 TTTTTGAAACA-TGAGAA
1 TTTTTGAAACACTGA-AA
*
61752288 TTTTTGAAAACAC-GAATTT
1 TTTTTG-AAACACTGAA--A
* * *
61752307 TTTTTAAAACACGGAAG
1 TTTTTGAAACACTGAAA
*
61752324 TTTTTGAAACACAAGAAA
1 TTTTTGAAACAC-TGAAA
61752342 TTTTT
1 TTTTT
61752347 TTTTTAAAAA
Statistics
Matches: 200, Mismatches: 32, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
16 9 0.05
17 83 0.41
18 72 0.36
19 21 0.10
20 2 0.01
21 13 0.06
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACTGAAA
Found at i:61752351 original size:23 final size:22
Alignment explanation
Indices: 61752324--61752369 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
61752314 AACACGGAAG
* * *
61752324 TTTTTGAAACACAAGAAATTTT
1 TTTTTTAAAAACAAGAAAATTT
*
61752346 TTTTTTAAAAACACGAAAATTT
1 TTTTTTAAAAACAAGAAAATTT
61752368 TT
1 TT
61752370 AAAACACGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (22 bp):
TTTTTTAAAAACAAGAAAATTT
Found at i:61752373 original size:17 final size:17
Alignment explanation
Indices: 61752075--61752378 Score: 110
Period size: 17 Copynumber: 16.8 Consensus size: 17
61752065 ATGAGGGTTT
* *
61752075 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
* * **
61752092 TTTATGAAACACGGTCAA
1 TTTTTAAAACAC-GAAAA
*
61752110 TTTTTGAAAACACAAAAA
1 TTTTT-AAAACACGAAAA
* * * *
61752128 TTTTTGAAAGACGGGAAT
1 TTTTTAAAACAC-GAAAA
61752146 TTTTTGAAAACACTG-AAA
1 TTTTT-AAAACAC-GAAAA
* *
61752164 TTTATGAAACACGGAAAA
1 TTTTTAAAACAC-GAAAA
*
61752182 TTTTTTTTGAAAACAAGAAAA
1 ---TTTTT-AAAACACGAAAA
* * **
61752203 TTTTTGAAATACGGGAA
1 TTTTTAAAACACGAAAA
*
61752220 TTTTTGAAAACATGAAAA
1 TTTTT-AAAACACGAAAA
*
61752238 -TTTTGAAACACTG-AAA
1 TTTTTAAAACAC-GAAAA
* * *
61752254 TGTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAA
* * *
61752271 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAAAA
**
61752288 TTTTTGAAAACACGAATTT
1 TTTTT-AAAACACGAA-AA
* *
61752307 TTTTTAAAACACGGAAG
1 TTTTTAAAACACGAAAA
* *
61752324 TTTTTGAAACACAAGAAATTTTT
1 TTTTT-AAA-ACACGAAA----A
61752347 TTTTTAAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
61752365 TTTTTAAAACACGA
1 TTTTTAAAACACGA
61752379 TTTTTTTTAG
Statistics
Matches: 206, Mismatches: 60, Indels: 42
0.67 0.19 0.14
Matches are distributed among these distances:
16 9 0.04
17 80 0.39
18 65 0.32
19 23 0.11
21 9 0.04
22 12 0.06
23 8 0.04
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:61753093 original size:14 final size:14
Alignment explanation
Indices: 61753074--61753113 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
61753064 CTGCACTTTA
61753074 TTCTTTTTTTCCCT
1 TTCTTTTTTTCCCT
* *
61753088 TTCTTTCTTCCCCT
1 TTCTTTTTTTCCCT
61753102 TTCTTTTCTTTC
1 TTCTTTT-TTTC
61753114 TTTATTTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCTTTTTTTCCCT
Found at i:61753095 original size:4 final size:4
Alignment explanation
Indices: 61753086--61753142 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
61753076 CTTTTTTTCC
* * *
61753086 CTTT CTTT CTTCCC CTTT CTTTT CTTT CTTT ATTT CTTT -TTT CTTC CTTT
1 CTTT CTTT CTT--T CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
61753136 CTTT CTT
1 CTTT CTT
61753143 CCCCGATCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
3 3 0.07
4 33 0.77
5 4 0.09
6 3 0.07
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:61753127 original size:19 final size:19
Alignment explanation
Indices: 61753105--61753142 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
61753095 TTCCCCTTTC
*
61753105 TTTTCTTTCTTTATTTCTT
1 TTTTCTTCCTTTATTTCTT
*
61753124 TTTTCTTCCTTTCTTTCTT
1 TTTTCTTCCTTTATTTCTT
61753143 CCCCGATCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTTCCTTTATTTCTT
Found at i:61753296 original size:27 final size:28
Alignment explanation
Indices: 61753246--61753306 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
61753236 CCCCCTTTTT
**
61753246 CTTTTTTATTCTTTGCTCTTTTTTCTTC
1 CTTTTTTATTCTTTGCTCGCTTTTCTTC
* * *
61753274 TTTTTTTCTT-TTTGCTCGCTTTTTTTC
1 CTTTTTTATTCTTTGCTCGCTTTTCTTC
61753301 CTTTTT
1 CTTTTT
61753307 CTTGCCTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.74
Consensus pattern (28 bp):
CTTTTTTATTCTTTGCTCGCTTTTCTTC
Found at i:61753422 original size:11 final size:11
Alignment explanation
Indices: 61753389--61753427 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
61753379 ACGGTGGTGG
*
61753389 TGCTCCCTTTT
1 TGCTCTCTTTT
*
61753400 TGCTGCTGTTTT
1 TGCT-CTCTTTT
61753412 TGCTCTCTTTT
1 TGCTCTCTTTT
61753423 TGCTC
1 TGCTC
61753428 AAAATTTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.00, C:0.28, G:0.15, T:0.56
Consensus pattern (11 bp):
TGCTCTCTTTT
Found at i:61753705 original size:29 final size:28
Alignment explanation
Indices: 61753672--61753799 Score: 98
Period size: 29 Copynumber: 4.4 Consensus size: 28
61753662 GCAAAAATGA
61753672 AATTTTAGGAAAATATAGGGCTAAAGTGT
1 AATTTTA-GAAAATATAGGGCTAAAGTGT
* * *
61753701 AATTTATAGAAAGTTTAGGGGCTTAAGTGT
1 AATTT-TAGAAAATATA-GGGCTAAAGTGT
* * *
61753731 AA-TTTACAAAATATTAGGGGTCAAGATGT
1 AATTTTAGAAAATA-TAGGGCTAAAG-TGT
* * *
61753760 AATTTTTGAAAAATTTA-GGCTAAAATGT
1 AATTTTAG-AAAATATAGGGCTAAAGTGT
*
61753788 AATTTTTGAAAA
1 AATTTTAGAAAA
61753800 ATTCTGGAGC
Statistics
Matches: 79, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
27 4 0.05
28 24 0.30
29 26 0.33
30 20 0.25
31 5 0.06
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (28 bp):
AATTTTAGAAAATATAGGGCTAAAGTGT
Found at i:61753791 original size:28 final size:30
Alignment explanation
Indices: 61753756--61753822 Score: 111
Period size: 28 Copynumber: 2.3 Consensus size: 30
61753746 AGGGGTCAAG
61753756 ATGTAATTTTTGAAAAATT-TAG-GCTAAA
1 ATGTAATTTTTGAAAAATTCTAGAGCTAAA
*
61753784 ATGTAATTTTTGAAAAATTCTGGAGCTAAA
1 ATGTAATTTTTGAAAAATTCTAGAGCTAAA
61753814 ATGTAATTT
1 ATGTAATTT
61753823 ATTTTTTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 19 0.53
29 2 0.06
30 15 0.42
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (30 bp):
ATGTAATTTTTGAAAAATTCTAGAGCTAAA
Found at i:61756022 original size:55 final size:56
Alignment explanation
Indices: 61755930--61756041 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
61755920 GTAAGGTTCC
* * * *
61755930 AAATCTATAATTCTAATTATTTTATGAGTTCATAATCCAAATATGTTATGTGAAAA
1 AAATCTATAATTCTAAGTAATTTATGAATTCACAATCCAAATATGTTATGTGAAAA
61755986 AAAT-TATAATTCTAAGTAATTTATGAATTCACAATCCAAATATGTTATGTGAAAA
1 AAATCTATAATTCTAAGTAATTTATGAATTCACAATCCAAATATGTTATGTGAAAA
61756041 A
1 A
61756042 GAAAACAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 48 0.92
56 4 0.08
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (56 bp):
AAATCTATAATTCTAAGTAATTTATGAATTCACAATCCAAATATGTTATGTGAAAA
Found at i:61758144 original size:17 final size:16
Alignment explanation
Indices: 61758124--61758173 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
61758114 GGAAGAGCCA
61758124 TTATTGAGGAACAACTC
1 TTATTGA-GAACAACTC
*
61758141 TTATTTAGAACAACCTC
1 TTATTGAGAACAA-CTC
*
61758158 TACATTGAGAACAACT
1 T-TATTGAGAACAACT
61758174 ATGTTGAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.21
17 12 0.43
18 10 0.36
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (16 bp):
TTATTGAGAACAACTC
Found at i:61758170 original size:18 final size:17
Alignment explanation
Indices: 61758126--61758172 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
61758116 AAGAGCCATT
*
61758126 ATTGAGGAACAA-CTCTT
1 ATTGA-GAACAACCTCTC
*
61758143 ATTTAGAACAACCTCTAC
1 ATTGAGAACAACCTCT-C
61758161 ATTGAGAACAAC
1 ATTGAGAACAAC
61758173 TATGTTGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 11 0.44
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (17 bp):
ATTGAGAACAACCTCTC
Found at i:61759454 original size:3 final size:3
Alignment explanation
Indices: 61759446--61759477 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61759436 ACAAATTTCA
61759446 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61759478 GTTTTATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:61760286 original size:110 final size:112
Alignment explanation
Indices: 61760068--61760286 Score: 354
Period size: 110 Copynumber: 2.0 Consensus size: 112
61760058 GTTATGCATA
* *
61760068 TTAATATCCTTAAAAAATATATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAAC
1 TTAATATCCTTAAAAAATATATTTCAAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAAC
61760133 ATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
66 ATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
* * *
61760180 TTAATATCCTTTTAAAAA-AT-TTT-AAAATAAGACAATGTTTTGTATTTGGAAATTTGAGAAAA
1 TTAATATCC-TTAAAAAATATATTTCAAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAA
*
61760242 CATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAAT
65 CATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
61760287 TGTCAGATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
110 79 0.79
111 3 0.03
112 11 0.11
113 7 0.07
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (112 bp):
TTAATATCCTTAAAAAATATATTTCAAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAAC
ATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
Found at i:61760330 original size:110 final size:108
Alignment explanation
Indices: 61760088--61760311 Score: 290
Period size: 110 Copynumber: 2.1 Consensus size: 108
61760078 TAAAAAATAT
* * * **
61760088 ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAACAAGACAATGTTTTGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* *
61760153 TCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 TCGATTTTTCTCGTTCAACCAAATGGCTCAATATCCTCTT--AAA
* *
61760198 ATTTTAAAATAAGACAATGTTTTGTATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAACAAGACAATGTTTTGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* * * *
61760263 TCGATTTTTCTCGTTTAACCAAATTG-TCAGATATTCTCTT-GA
66 TCGATTTTTCTCGTTCAACCAAATGGCTCA-ATATCCTCTTAAA
61760305 ATTTTAA
1 ATTTTAA
61760312 TCCATGCCAT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
107 8 0.08
109 2 0.02
110 92 0.90
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (108 bp):
ATTTTAAAACAAGACAATGTTTTGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TCGATTTTTCTCGTTCAACCAAATGGCTCAATATCCTCTTAAA
Found at i:61763844 original size:10 final size:9
Alignment explanation
Indices: 61763831--61763865 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
61763821 CAAAAATAGG
61763831 AGAAAAAGAA
1 AGAAAAA-AA
61763841 AGAAGAAAAA
1 AGAA-AAAAA
61763851 AGAAAAAAA
1 AGAAAAAAA
61763860 AGAAAA
1 AGAAAA
61763866 GGAGAGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 11 0.46
10 10 0.42
11 3 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:61765987 original size:43 final size:42
Alignment explanation
Indices: 61765939--61766077 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 42
61765929 AAAATAAAGC
61765939 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT
1 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAA-CAGAT
* *** * * ** * *
61765982 CTTGCCTTC-TTGCGTTAACAGCAAAGCAGATCGAA-AACAAAGC
1 CTTGCCTTCATTG-GTT-GCAGTGGAGCTGGTTAAAGAACAGA-T
*
61766025 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGACAAAAGAT
1 CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG--AACAGAT
61766069 CTTGCCTTC
1 CTTGCCTTC
61766078 CTGCATTGAC
Statistics
Matches: 68, Mismatches: 21, Indels: 13
0.67 0.21 0.13
Matches are distributed among these distances:
42 16 0.24
43 26 0.38
44 22 0.32
45 4 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAACAGAT
Found at i:61766117 original size:44 final size:44
Alignment explanation
Indices: 61766069--61766282 Score: 152
Period size: 44 Copynumber: 4.9 Consensus size: 44
61766059 GACAAAAGAT
* *
61766069 CTTGCCTTCCTGCATTGACGGCGAAGCAGGTCAAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
* ** * * * * *
61766113 CTTGCCTTTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCT-GCAT-TGACAGCGAAGCAGGTCGAAGACACAA-AC
61766157 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
* ** * * * * *
61766201 CTTGCCTCCCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAACAGAT
1 CTTGCCTTCCT-GCAT-TGACAGCGAAGCAGGTCGAAGAC-ACAAAC
* *
61766245 CTTGTCTTCTTGCATTGACAGCGAAGCAGGTCGAAGAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
61766283 GAACCTTACC
Statistics
Matches: 125, Mismatches: 33, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
42 6 0.05
43 32 0.26
44 48 0.38
45 33 0.26
46 6 0.05
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
Found at i:61766149 original size:88 final size:88
Alignment explanation
Indices: 61765959--61766304 Score: 418
Period size: 88 Copynumber: 4.0 Consensus size: 88
61765949 TTGGTTGCAG
** * * * * *
61765959 TGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCTTGCGTTAACAGCAAAGCAGATCGAAA-ACA-
1 TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTC-AAAGACAC
* * *
61766021 AAGCCTTGCCT-TCATTGGTTG-CA
65 AAACCTTGCCTCTC-TCGGTTGTGA
*
61766044 GTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTGACGGCGAAGCAGGTCAAAGACAC
1 -TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACAC
*
61766109 AAACCTTGCCTTTCTCGGTTGTGA
65 AAACCTTGCCTCTCTCGGTTGTGA
* *
61766133 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACA
*
61766198 AACCTTGCCTCCCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * * * *
61766221 TGGAGCTGGTTGAAGACAACAGATCTTGTCTTCTTGCATTGACAGCGAAGCAGGTCGAAG--ACG
1 TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACA
*
61766284 AACCTTACCTCTCTCGGTTGT
66 AACCTTGCCTCTCTCGGTTGT
61766305 AGTGAAGTTG
Statistics
Matches: 233, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
86 40 0.17
87 34 0.15
88 156 0.67
89 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACA
AACCTTGCCTCTCTCGGTTGTGA
Found at i:61766238 original size:43 final size:43
Alignment explanation
Indices: 61766102--61766238 Score: 143
Period size: 43 Copynumber: 3.1 Consensus size: 43
61766092 AAGCAGGTCA
*
61766102 AAGACACAAACCTTGCCTTTCTCGGTTGTGATGGAGCTGGTTG
1 AAGACACAAACCTTGCCTTCCTCGGTTGTGATGGAGCTGGTTG
* * ** * * *
61766145 AAGACAAAAGATCTTGCCTTCCT-GCAT-TGACAGCGAAGCAGGTCG
1 AAGACACAA-ACCTTGCCTTCCTCGGTTGTGA-TG-G-AGCTGGTTG
*
61766190 AAGACACAAACCTTGCCTCCCTCGGTTGTGATGGAGCTGGTTG
1 AAGACACAAACCTTGCCTTCCTCGGTTGTGATGGAGCTGGTTG
61766233 AAGACA
1 AAGACA
61766239 ACAGATCTTG
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
42 3 0.04
43 24 0.33
44 24 0.33
45 18 0.25
46 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (43 bp):
AAGACACAAACCTTGCCTTCCTCGGTTGTGATGGAGCTGGTTG
Found at i:61766534 original size:174 final size:174
Alignment explanation
Indices: 61766318--61767492 Score: 1991
Period size: 174 Copynumber: 6.8 Consensus size: 174
61766308 GAAGTTGGCT
* *
61766318 GAAGAATTTTAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
* * *
61766383 TCTGAAGTTATAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
66 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
*
61766448 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACC
131 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
* *
61766492 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACATCGGAGCAGATTGAAGACATAATCCTATCTC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
* * *
61766557 CTTAAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATTTCTCTGAAGTTACAGTAGAGCAG
66 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
*
61766622 ATCGCACTAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
131 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
* * *
61766666 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGAAGCAGATCGAATACATAATACTATCTC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
61766731 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
66 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
*
61766796 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACC
131 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
*
61766840 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGACATAATCCTATCTC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
61766905 CCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCA
66 CCTGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCA
*
61766969 GATTGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
130 GATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
61767014 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
* *
61767079 CCTGAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACGGTAGAGCAG
66 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
61767144 ATCGCACCAGGTCTTATCTCCCTGA-GTTACAGTAGAGTAGACC
131 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
61767187 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
61767252 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
66 CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
* * ** * * *
61767317 ATCACACCAGGTCTTATCTTCCTGATATTATAGTGGAGCAGA-C
131 ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
* * * *
61767360 GAAGAATTTCAGATCTTATCTCCCTGA-GATATCAGCGGAGCAGATTGAAGATAGTAATCCTATC
1 GAAGACTTTCAGATCTTATCTCCCTGAGGTTA-CAGCGGAGCAGATCGAAGACA-TAATCCTATC
61767424 TCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
64 TCCCTGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
*
61767488 TAGAT
128 CAGAT
61767493 TACATCAGAT
Statistics
Matches: 950, Mismatches: 45, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
172 3 0.00
173 219 0.23
174 726 0.76
175 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (174 bp):
GAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTATCTC
CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAG
ATCGCACCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACC
Found at i:61767638 original size:140 final size:140
Alignment explanation
Indices: 61767384--61767651 Score: 432
Period size: 140 Copynumber: 1.9 Consensus size: 140
61767374 CTTATCTCCC
61767384 TGAGATATCAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAT
1 TGAGATATCAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAT
* * *
61767449 TAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTACATCAGATTGAAGCCAGAG
66 TAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCACATTGAAGCCAGAG
61767514 ATCTTCTCTT
131 ATCTTCTCTT
* * * * *
61767524 TGAGAT-TACAGCGGAGTAGATTTAAGCTAGTAATCCTATCTCTCTGA-AGTTACAGTGGAGTGG
1 TGAGATAT-CAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGG
61767587 ATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCACATTGAAGCCAG
64 ATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCACATTGAAGCCAG
61767652 TAATTCTATC
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
139 2 0.02
140 116 0.98
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (140 bp):
TGAGATATCAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGAT
TAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCACATTGAAGCCAGAG
ATCTTCTCTT
Found at i:61768460 original size:12 final size:12
Alignment explanation
Indices: 61768436--61768468 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
61768426 CAGATTTTCA
61768436 TTTCTTT-TTAT
1 TTTCTTTATTAT
*
61768447 TTTTTTTATTAT
1 TTTCTTTATTAT
61768459 TTTCTTTATT
1 TTTCTTTATT
61768469 TTGTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTATTAT
Found at i:61769093 original size:3 final size:3
Alignment explanation
Indices: 61769085--61769125 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
61769075 ACAAATTTCA
61769085 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61769126 GTTTTATTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:61769930 original size:110 final size:112
Alignment explanation
Indices: 61769712--61769930 Score: 354
Period size: 110 Copynumber: 2.0 Consensus size: 112
61769702 GTTATGCATA
* *
61769712 TTAATATCCTTAAAAAATATATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAAC
1 TTAATATCCTTAAAAAATATATTTCAAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAAC
61769777 ATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
66 ATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
* * *
61769824 TTAATATCCTTTTAAAAA-AT-TTT-AAAATAAGACAATGTTTTGTATTTGGAAATTTGAGAAAA
1 TTAATATCC-TTAAAAAATATATTTCAAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAA
*
61769886 CATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTTAACCAAAT
65 CATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
61769931 TGTCAGATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
110 79 0.79
111 3 0.03
112 11 0.11
113 7 0.07
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (112 bp):
TTAATATCCTTAAAAAATATATTTCAAAATAAGACAATGTTTTGCATTTGGAAATTCGAGAAAAC
ATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATGGC
Found at i:61769974 original size:110 final size:108
Alignment explanation
Indices: 61769732--61769955 Score: 308
Period size: 110 Copynumber: 2.1 Consensus size: 108
61769722 TAAAAAATAT
* * **
61769732 ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAATAAGACAATGTTTTGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* *
61769797 TCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
66 TCGATTTTTCTCGTTCAACCAAATGGCTCAATATCCTCTT--AAA
*
61769842 ATTTTAAAATAAGACAATGTTTTGTATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
1 ATTTTAAAATAAGACAATGTTTTGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* * * *
61769907 TCGATTTTTCTCGTTTAACCAAATTG-TCAGATATTCTCTT-GA
66 TCGATTTTTCTCGTTCAACCAAATGGCTCA-ATATCCTCTTAAA
61769949 ATTTTAA
1 ATTTTAA
61769956 TTCATGCCAT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
107 8 0.08
109 2 0.02
110 92 0.90
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (108 bp):
ATTTTAAAATAAGACAATGTTTTGTATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TCGATTTTTCTCGTTCAACCAAATGGCTCAATATCCTCTTAAA
Found at i:61774955 original size:21 final size:22
Alignment explanation
Indices: 61774926--61774972 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
61774916 CAGAAGGAGT
*
61774926 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61774948 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
61774969 GAGT
1 GAGT
61774973 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:61778230 original size:17 final size:17
Alignment explanation
Indices: 61778204--61778237 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61778194 ACAGAAATGA
* *
61778204 TTTGTTAGATTCTAAAT
1 TTTGTAAGATTCCAAAT
61778221 TTTGTAAGATTCCAAAT
1 TTTGTAAGATTCCAAAT
61778238 CTATGATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTGTAAGATTCCAAAT
Done.