Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 351 of 373
Found at i:116852835 original size:159 final size:157
Alignment explanation
Indices: 116852528--116853017 Score: 569
Period size: 159 Copynumber: 3.0 Consensus size: 157
116852518 AAGTTGATTT
* *
116852528 TTGAAAAGCAGAAATTGAAAATGCCTCAGCGTGTGACCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAAAT-ACTCA--GTGTGTCCGAGGCTCAACTCACCTCTCGCAATATG
*
116852593 AGTTGATTCTTTTGAAAAGCAGAAATTGAAA-ACGCCTCAGCGTGTGACCCGAGGCTCAACTCAC
63 AGTTGATT-TTTTGAAAAACAGAAATTGAAATA--CCTCAG-GTGT---CCGAGGCTCAACTCAC
**
116852657 CTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAA
121 CTCTCGCAATATGAGTTGATT-TTTTGAAAAACAGAAA
*
116852695 TTGAAAAGCAGAAATTGAAAATACTCAGTGTGTCCGAGGCTCAACTCACCTCTCGCAATGTGAGT
1 TTGAAAAGCAGAAATTGAAAATACTCAGTGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
116852760 TGATTTTTTGATAAAATAGAATTTGAAATACCTCAGGTGTCCGAGGCTCAACTCACCTCTCGCAA
66 TGATTTTTTGA-AAAACAGAAATTGAAATACCTCAGGTGTCCGAGGCTCAACTCACCTCTCGCAA
116852825 TATGAGTTGATGTTTTTGAAAAACAGAAA
130 TATGAGTTGAT-TTTTTGAAAAACAGAAA
* * * * * * *
116852854 TTGAAGAA-CAAAAATGGAAAACACCTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AAGCAGAAATTGAAAATA-CTCAGTGTGTCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * *
116852917 GCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTTATCTCT
64 GTTGA-TTTTTTGAAAAACAGAAATTG-AAATACCTC-AGGTGTC-CGAGGCTCAACTCACCTCT
*
116852982 CGCAATATGAGTTGA--TTTTGACAAACA-AAA
125 CGCAATATGAGTTGATTTTTTGAAAAACAGAAA
116853012 TTGAAA
1 TTGAAA
116853018 TTACCTCAGC
Statistics
Matches: 289, Mismatches: 25, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
157 1 0.00
158 8 0.03
159 118 0.41
160 28 0.10
161 6 0.02
162 35 0.12
163 12 0.04
164 54 0.19
165 1 0.00
166 4 0.01
167 22 0.08
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (157 bp):
TTGAAAAGCAGAAATTGAAAATACTCAGTGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACAGAAATTGAAATACCTCAGGTGTCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTGAAAAACAGAAA
Found at i:116853058 original size:69 final size:70
Alignment explanation
Indices: 116852854--116853556 Score: 692
Period size: 69 Copynumber: 10.0 Consensus size: 70
116852844 AAAACAGAAA
* * * * * *
116852854 TTGAAGAACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
116852919 TGATTTTT
66 TGA---TT
* * * *
116852927 TTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTTATCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
116852992 GTTGATT
64 GTTGATT
* * * *
116852999 TTGACAAACA-AAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTTGCAATATGAG-
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
116853062 TGATTTT
66 TGA--TT
* * * *
116853069 TTTAAAAGACAGAAATTGAAAATACCTCAACGTGTGAAACGAGGCTCAACTCACCTCTCGC-ATA
1 TTGAAAA-ACAGAAATTGAAAATACCTCAGCGTCT----TGAGGCTCAACTCACCTCTCGCAATA
116853133 TGAGTTGATT
61 TGAGTTGATT
**** ** * * *
116853143 TTTTTGATGATAAATTG-AAATACCTCAATGTGAC-TGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
116853206 GTTGATT
64 GTTGATT
*** *
116853213 TTGAAAAA-A-AAAAAAAAAATACCTCAG-GTGC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAG
116853274 TTGATT
65 TTGATT
*
116853280 TTGAAAAACAGAAATTAAAAATA-CTCAGC-TGC-TGAGGCTCAACTCA-C-CTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAG
116853340 TTGATTT
65 TTGA-TT
** * *
116853347 TTTTACAACAGAAATTG-AAA-ACCTCAGCGTGGC-CGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGT--CTTGAGGCTCAACTCACCTCTCGCAATATGA
116853409 GTT-ATTT
64 GTTGA-TT
* * *
116853416 TTGACAAACA-AAATTG-AAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTCT-TGAGGCTCAACTCACCTCTCGCAATATGAG
116853479 TTGATT
65 TTGATT
* *
116853485 TTGAAAAACAGAAATT-AAAATACCTCAGCGTGTCTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTCT-TGAGGCTCAACTCACCTCTCGCAATATGAG
116853549 TTGATT
65 TTGATT
116853555 TT
1 TT
116853557 CCTTGAAAAG
Statistics
Matches: 536, Mismatches: 63, Indels: 65
0.81 0.09 0.10
Matches are distributed among these distances:
65 1 0.00
66 27 0.05
67 62 0.12
68 53 0.10
69 136 0.25
70 98 0.18
71 18 0.03
72 39 0.07
73 30 0.06
74 8 0.01
75 42 0.08
76 22 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (70 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATT
Found at i:116853432 original size:272 final size:279
Alignment explanation
Indices: 116852888--116853556 Score: 851
Period size: 272 Copynumber: 2.4 Consensus size: 279
116852878 CTCAGCGTCT
* * * * *
116852888 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAA-A-AAAAAATAAAAATACCT
* * * *
116852953 CAATGTGTCTTGAGGCTCAACTTATCTCTCGCAATATGAGTTGATTTTGACAAACAAAATTGAAA
61 C-AGGTGTC-TGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAA
* *
116853018 TTACCTCAGCGTCTTGAGGTTCAACTCACCTCTTGCAATATGAGTGATTTTTTTAAAAGACAGAA
124 ATACCTCAGCGTCTTGAGGCTCAACTCACCTC-TGCAATATGAGTGATTTTTTTAAAAGACAGAA
116853083 ATTGAAAATACCTCAACGTGTGAAACGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTT
188 ATTGAAAATACCTCAACGTGTG-AACGAGGCTCAACTCACCTCTCGCATATGAGTTGA-TTTTTT
** * *
116853148 GATGATAAATTGAAATACCTCAATGTGAC
251 GAAAAAAAATTGAAATACCTCAACGTGAC
*
116853177 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAAAAAAAAATACCTCAGGT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATAAAAATACCTCAGGT
* *
116853242 G-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAATA-CT
66 GTCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACA-AAATTAAAAATACCT
*
116853305 CAGC-TGC-TGAGGCTCAACTCACCTC-GCAATATGAGTTGATTTTTTT-ACA-ACAGAAATTG-
130 CAGCGT-CTTGAGGCTCAACTCACCTCTGCAATATGAG-TGATTTTTTTAAAAGACAGAAATTGA
* *
116853364 AAA-ACCTCAGCGTG-G-CCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-TTTTTGACAAA
193 AAATACCTCAACGTGTGAACGAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTTGA-AAA
* *
116853424 CAAAATTGAAATACCTCAGCGTGTC
256 -AAAATTGAAATACCTCAACGTGAC
* * *
116853449 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAATACCTCAGC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-AAAAATAAAAATACCTCAG-
116853514 GTGTCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
64 GTGTCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
116853557 CCTTGAAAAG
Statistics
Matches: 342, Mismatches: 29, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
270 7 0.02
271 1 0.00
272 86 0.25
273 25 0.07
274 4 0.01
275 47 0.14
276 3 0.01
277 10 0.03
278 12 0.04
279 10 0.03
280 18 0.05
281 49 0.14
282 11 0.03
283 4 0.01
284 14 0.04
285 1 0.00
286 8 0.02
289 32 0.09
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (279 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATAAAAATACCTCAGGT
GTCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAAATACCTC
AGCGTCTTGAGGCTCAACTCACCTCTGCAATATGAGTGATTTTTTTAAAAGACAGAAATTGAAAA
TACCTCAACGTGTGAACGAGGCTCAACTCACCTCTCGCATATGAGTTGATTTTTTGAAAAAAAAT
TGAAATACCTCAACGTGAC
Found at i:116861837 original size:16 final size:15
Alignment explanation
Indices: 116861816--116861895 Score: 74
Period size: 16 Copynumber: 5.1 Consensus size: 15
116861806 GATGTGAATA
116861816 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
116861832 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
116861847 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
116861863 AATAATTAATATTGAAAA-
1 -ATAA--AATATT-AAAAT
*
116861881 ATAAAA-AATAAAAT
1 ATAAAATATTAAAAT
116861895 A
1 A
116861896 GAAATAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
13 4 0.07
14 3 0.05
15 10 0.18
16 23 0.42
17 6 0.11
18 6 0.11
19 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:116861846 original size:8 final size:8
Alignment explanation
Indices: 116861812--116861863 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
116861802 CAATGATGTG
*
116861812 AATAATAA
1 AATATTAA
116861820 AATATATAA
1 AATAT-TAA
116861829 AATA-TAA
1 AATATTAA
116861836 AATATTAA
1 AATATTAA
*
116861844 AATATCAA
1 AATATTAA
*
116861852 AATATTAG
1 AATATTAA
116861860 AATA
1 AATA
116861864 ATAATTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:116861863 original size:24 final size:24
Alignment explanation
Indices: 116861811--116861867 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
116861801 ACAATGATGT
*
116861811 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
116861835 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
116861859 GAATAATAA
1 GAATAATAA
116861868 TTAATATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:116862038 original size:25 final size:25
Alignment explanation
Indices: 116862010--116862074 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
116862000 CGTGATAATA
*
116862010 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
116862035 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
116862058 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
116862075 GATAACATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:116862118 original size:16 final size:16
Alignment explanation
Indices: 116862089--116862151 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
116862079 ACATGCAGAA
116862089 AAAT-ATATATATATAT
1 AAATAATATA-ATATAT
116862105 AAATAATATAATAT-T
1 AAATAATATAATATAT
*
116862120 AAAGATATATAA-ATA-
1 AAATA-ATATAATATAT
* *
116862135 AAATAGTATAAAATAT
1 AAATAATATAATATAT
116862151 A
1 A
116862152 TATATACGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 15 0.38
17 5 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATAATATAATATAT
Found at i:116862133 original size:25 final size:25
Alignment explanation
Indices: 116862099--116862232 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
116862089 AAATATATAT
116862099 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
116862124 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
116862149 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
116862175 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
116862197 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
116862220 AAATAT-AATAATA
1 ATATATAAATAATA
116862233 ACAAAAAATG
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:116862754 original size:30 final size:30
Alignment explanation
Indices: 116862718--116862891 Score: 278
Period size: 30 Copynumber: 5.8 Consensus size: 30
116862708 TAGGTACAAG
* * *
116862718 TGGTGGTGGAGAAGGTGTGGCTAGTGGATT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
116862748 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
116862778 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
116862808 TGGTGATGGAAAA-GAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
116862837 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
116862867 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
116862892 TGAGAAAAGT
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
29 27 0.20
30 105 0.80
ACGTcount: A:0.22, C:0.03, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:116862847 original size:59 final size:59
Alignment explanation
Indices: 116862718--116862891 Score: 303
Period size: 59 Copynumber: 2.9 Consensus size: 59
116862708 TAGGTACAAG
* *
116862718 TGGTGGTGGAGAAGGTGTGGCTAGTGGATTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGG-AAAAGAGTGGCTAGTGGAGT
*
116862778 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGATGGAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
116862837 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAA-GAGTGGCTAGT
116862892 TGAGAAAAGT
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
59 62 0.57
60 47 0.43
ACGTcount: A:0.22, C:0.03, G:0.48, T:0.26
Consensus pattern (59 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
Found at i:116868837 original size:71 final size:69
Alignment explanation
Indices: 116868735--116868909 Score: 190
Period size: 71 Copynumber: 2.5 Consensus size: 69
116868725 TTTTCAAGGG
* * * *
116868735 AAATCAACTCATATTGCGAG-AGATAATTTGAGCCTCAAGACACGTTGAGGTATTTTAAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTAAATTTAT
116868799 GTTTT
65 GTTTT
*** * * *
116868804 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTAAATTTA
116868869 TGTTTT
64 TGTTTT
** * *
116868875 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
116868910 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 31 0.35
71 56 0.63
72 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTAAATTTATG
TTTT
Found at i:116869030 original size:72 final size:71
Alignment explanation
Indices: 116868909--116869074 Score: 217
Period size: 72 Copynumber: 2.3 Consensus size: 71
116868899 GAGTTAAGCC
** * ** **
116868909 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAACTGAGTTGAGCCTCAAGGCACGC
116868973 TGAGGTA
65 TGAGGTA
*
116868980 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAACTGAGTTGAGCCTCAAGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAACTGAGTTGAGCCTCAAGGCACGC
116869045 TGAGGTA
65 TGAGGTA
* *
116869052 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
116869075 ACGTTGTTCA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 12 0.14
72 67 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAACTGAGTTGAGCCTCAAGGCACGCT
GAGGTA
Found at i:116869172 original size:140 final size:140
Alignment explanation
Indices: 116869007--116870332 Score: 2270
Period size: 140 Copynumber: 9.5 Consensus size: 140
116868997 TTAATTTCAA
** *
116869007 CTCATATTGCGAGAACTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
116869072 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTTTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTCTACTTTT
116869137 TCAAAATCAG
131 TCAAAATCAG
*
116869147 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * *
116869212 TTTACGTTGTTCAAGAATCAACTCATATTGAGAGAGGTGGGTTGAACCTTTTAATTTCTACATTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTCTACTTTT
116869277 TCAAAATCAG
131 TCAAAATCAG
* *
116869287 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTTTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
116869352 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGA-A-GTGGTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATG-GGTTGAACCTTTTAATTTCTACTTT
116869415 TTCAAAATCAG
130 TTCAAAATCAG
*
116869426 CTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
116869491 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGA-AGTGGGTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGA-TGGGTTGAACCTTTTAATTTCTACTTT
*
116869555 TTCAATATCAG
130 TTCAAAATCAG
116869566 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * *
116869631 TTTACGTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTCTACTTTT
*
116869696 TCAAAATTAG
131 TCAAAATCAG
*
116869706 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
116869771 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTCTACTTTT
116869836 TCAAAATCAG
131 TCAAAATCAG
* *
116869846 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTTTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
116869911 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGA-AGTGGGTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGA-TGGGTTGAACCTTTTAATTTCTACTTT
116869975 TTCAAAATCAG
130 TTCAAAATCAG
116869986 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
116870051 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGA-AGTGGGTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGA-TGGGTTGAACCTTTTAATTTCTACTTT
116870115 TTCAAAATCAG
130 TTCAAAATCAG
*
116870126 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * * * *
116870191 TTTATGTTGTTCAAGAATCAACTCATGTTGCGAGAGGTGGGTTGAA-TTTTTAATTTCTATTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTCTACTTTT
116870255 TCAAAATCAG
131 TCAAAATCAG
* *
116870265 TTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGTTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
116870329 TCAA
62 TCAA
116870333 AAAAAAATTC
Statistics
Matches: 1131, Mismatches: 45, Indels: 18
0.95 0.04 0.02
Matches are distributed among these distances:
138 2 0.00
139 191 0.17
140 909 0.80
141 23 0.02
142 6 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:116870189 original size:13 final size:13
Alignment explanation
Indices: 116870171--116870204 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
116870161 CGCTGAGGTA
*
116870171 TTTTCAATTTCTG
1 TTTTCAATTTATG
116870184 TTTTCAATTTATG
1 TTTTCAATTTATG
116870197 TTGTTCAA
1 TT-TTCAA
116870205 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:116870244 original size:559 final size:559
Alignment explanation
Indices: 116869007--116870332 Score: 2413
Period size: 559 Copynumber: 2.4 Consensus size: 559
116868997 TTAATTTCAA
**
116869007 CTCATATTGCGAGAACTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * *
116869072 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGATGGGTTGAACCTTTTAATTTTTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTT
116869137 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTT
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTT
*
116869202 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGAGAGAGGTGGGTTGAACCTTTTAAT
196 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGAGAGAGGTGAGTTGAACCTTTTAAT
116869267 TTCTACATTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTA
261 TTCTACATTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTA
116869332 TTTTCAATTTTTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGTTGAA
326 TTTTCAATTTTTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGTTGAA
*
116869397 CCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCAC
391 CCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
116869462 GCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAA
456 GCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAA
*
116869527 GTGGGTTGAACCTTTTAATTTCTACTTTTTCAATATCAG
521 GTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
*
116869566 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
116869631 TTTACGTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTT
*
116869696 TCAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTT
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTT
*
116869761 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAAT
196 CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGAGAGAGGTGAGTTGAACCTTTTAAT
*
116869826 TTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTA
261 TTCTACATTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTA
116869891 TTTTCAATTTTTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGA
326 TTTTCAATTTTTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGT-GGTTGA
116869956 ACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
390 ACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
116870021 CGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGA
455 CGCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGA
116870086 AGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
520 AGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
116870126 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * * *
116870191 TTTATGTTGTTCAAGAATCAACTCATGTTGCGAGAGGTGGGTTGAA-TTTTTAATTTCTATTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTT
* * *
116870255 TCAAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGTTGAGGTATTTTCAA
131 TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAT
116870319 TTTCTGTCTTTCAA
193 TTTCTGT-TTTCAA
116870333 AAAAAAATTC
Statistics
Matches: 739, Mismatches: 23, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
558 2 0.00
559 429 0.58
560 281 0.38
561 21 0.03
562 6 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (559 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACATTTTAATTTCTACTTTT
TCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCATTTT
CTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGAGAGAGGTGAGTTGAACCTTTTAAT
TTCTACATTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTA
TTTTCAATTTTTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGTTGAA
CCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
GCTGAGGTATTTTCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAA
GTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
Found at i:116870430 original size:72 final size:72
Alignment explanation
Indices: 116870252--116870548 Score: 427
Period size: 72 Copynumber: 4.0 Consensus size: 72
116870242 AATTTCTATT
** ** * * *
116870252 TTTTCAAAA-TCAGTTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGTTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
116870315 TCAATTTCTG
63 TCAATTTCTG
*
116870325 TCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTA
1 T-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
116870390 ATTTCAATTTCTG
60 ATTTCAATTTCTG
116870403 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
116870468 ATTTCTG
66 ATTTCTG
116870475 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
116870540 ATTTCTG
66 ATTTCTG
116870547 TT
1 TT
116870549 CAAAATGAGT
Statistics
Matches: 207, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
72 140 0.68
73 1 0.00
74 4 0.02
77 4 0.02
78 24 0.12
79 4 0.02
80 29 0.14
81 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:116870559 original size:49 final size:49
Alignment explanation
Indices: 116870502--116870597 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
116870492 ATATTGCGAG
*
116870502 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
116870551 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
116870598 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:116870644 original size:121 final size:121
Alignment explanation
Indices: 116870430--116870669 Score: 435
Period size: 121 Copynumber: 2.0 Consensus size: 121
116870420 ATATTGCGAG
*
116870430 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
116870495 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
116870551 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
116870616 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
116870670 TTTCAAAAAA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:116870750 original size:83 final size:83
Alignment explanation
Indices: 116870601--116870836 Score: 303
Period size: 83 Copynumber: 3.0 Consensus size: 83
116870591 TTCTGTTTTC
* *
116870601 AAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
116870666 TGTTTTTCAAAAAAAATA
66 TGTTTTTCAAAAAAAATA
* * *
116870684 AAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTCAAGATATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
116870749 TGTTTTTC---------A
66 TGTTTTTCAAAAAAAATA
** * * *
116870758 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
*
116870823 TG-TTGTCAAAAAAA
66 TGTTTTTCAAAAAAA
116870837 TTAACTCGTA
Statistics
Matches: 132, Mismatches: 14, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
73 4 0.03
74 60 0.45
83 68 0.52
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (83 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAAAAATA
Found at i:116870807 original size:74 final size:74
Alignment explanation
Indices: 116870551--116870908 Score: 382
Period size: 74 Copynumber: 4.7 Consensus size: 74
116870541 TTTCTGTTCA
* *
116870551 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-AAAATTCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
116870614 TATTGCGAG
66 TATTGCGAG
* *
116870623 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATAAAAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---------AAAAA
* *
116870688 ATCAATTCATATTGTGAG
57 ATCAACTCATATTGCGAG
* *
116870706 AAATGAGTTGAGCCTCAAGATATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
116870771 TATTGCGAG
66 TATTGCGAG
** * * * *
116870780 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATTAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTC
* *
116870844 GTATTGTGAG
65 ATATTGCGAG
*** * *
116870854 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT-TCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCT-GTTTTTCAA
116870909 TTTCTGCCTT
Statistics
Matches: 246, Mismatches: 24, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
72 42 0.17
73 9 0.04
74 98 0.40
75 1 0.00
76 24 0.10
77 4 0.02
83 68 0.28
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (74 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
TATTGCGAG
Found at i:116870835 original size:157 final size:155
Alignment explanation
Indices: 116870551--116870836 Score: 448
Period size: 157 Copynumber: 1.8 Consensus size: 155
116870541 TTTCTGTTCA
*
116870551 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
* * * *
116870616 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAAA
116870681 ATAAAAAATCAATTCATATTGTGAG
131 ATAAAAAATCAATTCATATTGTGAG
* * *
116870706 AAATGAGTTGAGCCTCAAGATATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-AAAAATCAACTCA
** *
116870771 TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAA
64 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAA
116870835 AA
129 AA
116870837 TTAACTCGTA
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
155 42 0.36
156 16 0.14
157 60 0.51
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (155 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAAA
ATAAAAAATCAATTCATATTGTGAG
Found at i:116870982 original size:92 final size:90
Alignment explanation
Indices: 116870813--116870989 Score: 223
Period size: 92 Copynumber: 1.9 Consensus size: 90
116870803 GCTGAGGTAA
* * *
116870813 TTTCAATTTCTGTTGTCAAAAAAATTAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
*
116870878 CGCCGAGGTATTTTCAATTTTCGTT
66 CGCCGAGCTATTTTCAATTTTCGTT
* * *
116870903 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-T
* *
116870966 CACGCGCTGAGCTATTTTCAATTT
62 CACACGCCGAGCTATTTTCAATTT
116870990 CTGTCTTTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 12 0.16
91 4 0.05
92 58 0.78
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CGCCGAGCTATTTTCAATTTTCGTT
Found at i:116871031 original size:78 final size:78
Alignment explanation
Indices: 116870902--116871496 Score: 342
Period size: 88 Copynumber: 7.2 Consensus size: 78
116870892 CAATTTTCGT
** *
116870902 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
* *
116870967 ACGCGCTGAGCTA
66 ACACGCTGAGATA
* * *
116870980 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCT
*
116871044 CACACACTGAGATA
65 CACACGCTGAGATA
* * * * * * *
116871058 TTTTTTTAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
* *
116871122 TCACATG-TCGAGGTA
64 TCACACGCT-GAGATA
*** * *
116871137 TTTTCAAAACCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCA-A---------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** *
116871202 GCCTTGGCTCACGTGCTGAGTTA
56 GCCTTGGCTCACACGCTGAGATA
* *
116871225 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTT
1 TTTTCAATTTCTG----TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--CT
*** * * *
116871290 TAATTTCTACGAGAGTTGAGTTGA
60 T-GGCTC-AC-A-CGCTGAGAT-A
* * * * *
116871314 GTCTTTTAATTTCTATTTTTC---AAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTTCAG
1 -T-TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GG
** *
116871376 -TCACA-TATCGAGGTA
63 CTCACACGCT-GAGATA
** * *
116871391 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCTTATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTT----TCAA-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** *
116871456 GCCTTGGCTCACGTGCTGAGCTA
56 GCCTTGGCTCACACGCTGAGATA
116871479 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
116871497 AATGTCTGTT
Statistics
Matches: 400, Mismatches: 71, Indels: 87
0.72 0.13 0.16
Matches are distributed among these distances:
75 8 0.02
76 5 0.01
77 18 0.05
78 72 0.18
79 47 0.12
80 20 0.05
81 2 0.00
82 36 0.09
83 1 0.00
84 34 0.09
85 2 0.00
86 2 0.00
87 11 0.03
88 120 0.30
89 3 0.01
90 1 0.00
91 11 0.03
92 7 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (78 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACACGCTGAGATA
Found at i:116871126 original size:79 final size:78
Alignment explanation
Indices: 116870902--116871126 Score: 263
Period size: 78 Copynumber: 2.9 Consensus size: 78
116870892 CAATTTTCGT
* ** * * *
116870902 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
* * *
116870967 ACGCGCTGAGCTA
66 ACACACTGAGATA
* * * *
116870980 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
116871045 ACACACTGAGATA
66 ACACACTGAGATA
* * * * *
116871058 TTTTTTTAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
116871122 TCACA
64 TCACA
116871127 TGTCGAGGTA
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
78 69 0.54
79 43 0.34
80 15 0.12
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (78 bp):
TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
ACACACTGAGATA
Found at i:116871136 original size:249 final size:242
Alignment explanation
Indices: 116870728--116871496 Score: 869
Period size: 254 Copynumber: 3.1 Consensus size: 242
116870718 CCTCAAGATA
*
116870728 TGCTGAGGTATTTTCAATTTCTGTTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * * * * * *
116870791 GCCTCAG--GACACGCTGAGGTA-ATTTCAATTTCT-GTTGTCAAAAAAATTAACTCGTATTGTG
66 GCTTCAGATCACACACTGAGATATATTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGTG
* * * * *
116870852 AGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC-AATTTTCGTTTTTCAATTTCTGC
131 AGAGGTGAGTTGAGCCTC-GGTCACATGTCGAGGTATTTTCAAAATCT-GTTTTTCAA-TTCTG-
116870916 CTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
192 -TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
116870970 CGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
116871035 GCTTCAGATCACACACTGAGATATTTTTTTAATTTATATTTTTCAAAAAAATCAACTCACATTGC
66 GCTTCAGATCACACACTGAGATA-TATTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGT
* *
116871100 GAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAACCTGTTTTTCAGATTCTGT
130 GAGAGGTGAGTTGAGCCTC-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCA-ATTCTG-
* *
116871165 TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
192 TTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
116871215 TGCTGAGTTATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
1 TGCTGAGCTATTTTCAATTTCTG----TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * * * *
116871280 TTGAGCTTTTTA-ATTTCTACGAGAGTTGAGTTGAGTCTTTTAATTTCTATTTTTC--AAAAATC
62 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGAT-A-TATTTTAATTTCTATTTTTCAAAAAAATC
* * * *
116871342 AACTCATATTGTGAGAGGTGAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTT
118 AACTCATATTGTGAGAGGTGAGTTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTT
**
116871407 TTCAAGTTAAGTTTCAAAAAATCAACTCT-TATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
182 TTCAA-TTCTGTTTCAAAAAATCAACT-TATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
116871469 TGCTGAGCTATTTTCAATTTCTGTTTTT
1 TGCTGAGCTATTTTCAATTTCTGTTTTT
116871497 AATGTCTGTT
Statistics
Matches: 451, Mismatches: 51, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
242 26 0.06
244 40 0.09
245 65 0.14
246 11 0.02
248 13 0.03
249 113 0.25
250 10 0.02
251 3 0.01
252 2 0.00
253 7 0.02
254 135 0.30
255 7 0.02
256 19 0.04
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (242 bp):
TGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCTTCAGATCACACACTGAGATATATTTTAATTTCTATTTTTCAAAAAAATCAACTCATATTGTG
AGAGGTGAGTTGAGCCTCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAATTCTGTTTC
AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
Found at i:116871310 original size:30 final size:30
Alignment explanation
Indices: 116871269--116871328 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
116871259 ACTCATATTG
116871269 CGAGAGGTGAGTTGAG-CTTTTTAATTTCTA
1 CGAGAGGTGAGTTGAGTC-TTTTAATTTCTA
*
116871299 CGAGAGTTGAGTTGAGTCTTTTAATTTCTA
1 CGAGAGGTGAGTTGAGTCTTTTAATTTCTA
116871329 TTTTTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (30 bp):
CGAGAGGTGAGTTGAGTCTTTTAATTTCTA
Found at i:116872761 original size:13 final size:15
Alignment explanation
Indices: 116872729--116872771 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
116872719 TTTCTAATAC
116872729 GTATATATATGTATT
1 GTATATATATGTATT
*
116872744 TTATATATAT-TA-T
1 GTATATATATGTATT
*
116872757 GTATATATATATATT
1 GTATATATATGTATT
116872772 TTTAATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 4 0.17
15 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
GTATATATATGTATT
Found at i:116874455 original size:45 final size:45
Alignment explanation
Indices: 116874404--116874663 Score: 269
Period size: 45 Copynumber: 5.8 Consensus size: 45
116874394 CATACCTGGC
*
116874404 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCG
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * * *
116874449 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * *
116874493 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCCGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * * *
116874538 ATTTGTTCCCCGTCTAATACAGAGATGCCAAATTTGTCATCTT-G
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * * * * *
116874582 CATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCTATATCTTCG
1 -ATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTG-T-TATCTTCG
116874630 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
116874664 ATCTTGGATC
Statistics
Matches: 173, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.03
44 46 0.27
45 89 0.51
46 1 0.01
47 19 0.11
48 6 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
Found at i:116874555 original size:89 final size:89
Alignment explanation
Indices: 116874404--116874570 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
116874394 CATACCTGGC
* * *
116874404 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCTGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTCCGATCTGCTCCCCGTCTAATAC
116874469 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* * * *
116874493 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCCGTTATCTCCGATTTGTTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
116874558 AGAGATGCCAAAT
66 AGAGACGCCAAAT
116874571 TTGTCATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTCCGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:116874732 original size:78 final size:78
Alignment explanation
Indices: 116874603--116875209 Score: 950
Period size: 78 Copynumber: 7.8 Consensus size: 78
116874593 ATGTAAACAC
*
116874603 ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
116874668 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
116874681 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
116874745 CTAGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
116874759 ATGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
116874824 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
116874837 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
116874902 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
116874915 ATGAAGGTCAGATATGCTATGTCTTTGATCTGCTCCCTGTCTAATAAAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
116874980 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
116874993 ATGAAGGTCCA-ATCTG-TCATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGT-CAGATCTGCT-ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
116875056 CTTGGATCTGCTTCA
64 CTTGGATCTGCTTCA
* * *
116875071 ATGAAGGTCAGATTTGCTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
116875136 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * * **
116875149 GTGAAAGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
116875210 TGTTTCTTCG
Statistics
Matches: 491, Mismatches: 32, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
77 5 0.01
78 481 0.98
79 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:116877583 original size:20 final size:20
Alignment explanation
Indices: 116877555--116877598 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
116877545 ACCCTCGTAA
*
116877555 ACTTCTTCCAAGATTAACTT
1 ACTTATTCCAAGATTAACTT
116877575 ACTTATTCCAAGATTAACTT
1 ACTTATTCCAAGATTAACTT
116877595 ACTT
1 ACTT
116877599 CCACGGTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.41
Consensus pattern (20 bp):
ACTTATTCCAAGATTAACTT
Found at i:116883508 original size:17 final size:17
Alignment explanation
Indices: 116883486--116883518 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
116883476 GATATGATAC
116883486 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
116883503 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
116883519 AATTCGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:116883519 original size:18 final size:17
Alignment explanation
Indices: 116883486--116883519 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
116883476 GATATGATAC
*
116883486 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
116883503 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
116883520 ATTCGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:116883819 original size:23 final size:22
Alignment explanation
Indices: 116883776--116883833 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
116883766 AAAAGGTATC
* *
116883776 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
116883797 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
116883820 TGCATATCATATCT
1 TACAAATCATATCT
116883834 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:116883836 original size:19 final size:19
Alignment explanation
Indices: 116883812--116883866 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
116883802 AATCATATCT
116883812 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
116883831 TCTAAGATTGCA-ATAATA
1 TCTAAGATTGCATATCATA
116883849 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
116883867 TGAATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:116884754 original size:18 final size:18
Alignment explanation
Indices: 116884731--116884770 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
116884721 AATAAATAAA
116884731 ATCTTGATTTTTAGTAAC
1 ATCTTGATTTTTAGTAAC
116884749 ATCTTGATTTTTAGTAAC
1 ATCTTGATTTTTAGTAAC
116884767 ATCT
1 ATCT
116884771 GTCAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (18 bp):
ATCTTGATTTTTAGTAAC
Found at i:116890136 original size:44 final size:45
Alignment explanation
Indices: 116890082--116890174 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 45
116890072 TACAATATTT
116890082 ATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATA-AATTACTGATTACAGCTCTATTCC
116890126 ATTCCATTCAACCAAACAATTAAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAA-TAAATTACTGATTACAGCTCTATTCC
116890172 ATT
1 ATT
116890175 ACAGCCCTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
43 1 0.02
44 20 0.44
45 5 0.11
46 19 0.42
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAATAAATTACTGATTACAGCTCTATTCC
Found at i:116890177 original size:16 final size:16
Alignment explanation
Indices: 116890156--116890210 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
116890146 TAAATTACTG
*
116890156 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
*
116890172 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCC
* *
116890188 ATTACAACCCTATTTC
1 ATTACAGCCCTATTCC
116890204 ATTACAG
1 ATTACAG
116890211 TGAACAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:116890853 original size:17 final size:17
Alignment explanation
Indices: 116890831--116890865 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
116890821 ATATAATATG
116890831 TGTATATAA-AATGGTGT
1 TGTATA-AATAATGGTGT
116890848 TGTATAAATAATGGTGT
1 TGTATAAATAATGGTGT
116890865 T
1 T
116890866 AGTGGTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTATAAATAATGGTGT
Found at i:116893570 original size:25 final size:27
Alignment explanation
Indices: 116893518--116893594 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
116893508 TGTATAGTAG
* * *
116893518 TTTAAAATAAATAATATATGGAAAAAGAAC
1 TTTAAAATAAATAACATAT---AAGAGAGC
*
116893548 TTTAAAATAAATAACATATAAGAGAGT
1 TTTAAAATAAATAACATATAAGAGAGC
* *
116893575 TTTAACATAAATAATATATA
1 TTTAAAATAAATAACATATA
116893595 TATAAAGACT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.56
30 18 0.44
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTAAAATAAATAACATATAAGAGAGC
Found at i:116893679 original size:20 final size:20
Alignment explanation
Indices: 116893640--116893679 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
116893630 AATTTTTTAG
*
116893640 AAATAAATAAATGAATAAGT
1 AAATAAATAAATGAACAAGT
* *
116893660 AAATAGATAAATGAGCAAGT
1 AAATAAATAAATGAACAAGT
116893680 TTAGCAAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.23
Consensus pattern (20 bp):
AAATAAATAAATGAACAAGT
Found at i:116897938 original size:23 final size:22
Alignment explanation
Indices: 116897910--116897954 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
116897900 AAACTAAATC
116897910 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
116897933 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
116897955 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:116897989 original size:35 final size:37
Alignment explanation
Indices: 116897926--116898023 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
116897916 ATTACAAAAT
116897926 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
116897962 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
116897997 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
116898024 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:116898031 original size:17 final size:19
Alignment explanation
Indices: 116897933--116898023 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
116897923 AATCATATCT
116897933 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
116897952 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
116897970 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
116897987 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
116898006 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
116898024 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:116898179 original size:21 final size:20
Alignment explanation
Indices: 116898142--116898180 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
116898132 TTGGACGTCG
**
116898142 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
116898162 TTTTATTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
116898181 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:116898442 original size:45 final size:44
Alignment explanation
Indices: 116898386--116898511 Score: 171
Period size: 44 Copynumber: 2.8 Consensus size: 44
116898376 TGCTATCTTT
* * *
116898386 GATCTGTTCCCCGTCTAATACAGAGACGCCAAATCTGTTATATTC
1 GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGCT-TATTC
* *
116898431 GATCTGCTCCCCGTCTAATATAGAGAAGCCAAATCTGCTTCTTC
1 GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGCTTATTC
* * *
116898475 AATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTG
1 GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTG
116898512 GCATCTTGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 37 0.51
45 35 0.49
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (44 bp):
GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGCTTATTC
Found at i:116898500 original size:44 final size:45
Alignment explanation
Indices: 116898373--116898511 Score: 172
Period size: 45 Copynumber: 3.1 Consensus size: 45
116898363 GGAAGGTGAT
* ** * *
116898373 ATCTGCTATCTTTGATCTGTTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
* * *
116898418 ATCTGTTATATTCGATCTGCTCCCCGTCTAATATAGAGAAGCCAA
1 ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
* * *
116898463 ATCTGCT-TCTTCAATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
116898507 ATCTG
1 ATCTG
116898512 GCATCTTGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 37 0.45
45 45 0.55
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
Found at i:116898730 original size:37 final size:37
Alignment explanation
Indices: 116898681--116898808 Score: 107
Period size: 37 Copynumber: 3.4 Consensus size: 37
116898671 TGCCAAATCA
116898681 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
* ** * ** * *
116898718 TCTTCGATCTGCTCTCCGTCTAA--TACAGAGATGCCAAATCA
1 TCTTGGATCTGCT-TCAAT-GAAGGT-CAGATCTG-C-TAT-G
116898759 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
*
116898796 TCTTTGATCTGCT
1 TCTTGGATCTGCT
116898809 CTCTGTAGAA
Statistics
Matches: 66, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
37 25 0.38
38 11 0.17
39 6 0.09
40 11 0.17
41 13 0.20
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (37 bp):
TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
Found at i:116898810 original size:78 final size:78
Alignment explanation
Indices: 116898541--116898835 Score: 459
Period size: 78 Copynumber: 3.8 Consensus size: 78
116898531 ATGTAAACAC
*
116898541 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CATGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTC-CGTCTAATACAGAGATGCCAAATCATC
*
116898605 TTGAATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
116898619 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATC
116898683 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
116898697 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
116898762 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * ** **
116898775 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCTGTAGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATC
116898836 TGTTTCTTCG
Statistics
Matches: 201, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 2 0.01
78 196 0.98
79 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:116899372 original size:21 final size:20
Alignment explanation
Indices: 116899347--116899393 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
116899337 ACGTCACCAG
*
116899347 TCATTCTTTC-GTCGAAGTTTA
1 TCATTCTTTCTCTCGAAG--TA
*
116899368 TCATTATTTCTCTCGAAGTA
1 TCATTCTTTCTCTCGAAGTA
116899388 TCATTC
1 TCATTC
116899394 CTACTCAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (20 bp):
TCATTCTTTCTCTCGAAGTA
Found at i:116909209 original size:20 final size:18
Alignment explanation
Indices: 116909173--116909217 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
116909163 AAACCTTGAA
116909173 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
116909191 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
116909211 -TTTCCCT
1 TTTTCCCT
116909218 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:116909450 original size:20 final size:20
Alignment explanation
Indices: 116909427--116909466 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
116909417 TATAATTATT
*
116909427 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATATTTTA
116909447 TAATTAATAAATATATTTTA
1 TAATTAATAAATATATTTTA
116909467 ATACTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATATTTTA
Found at i:116913232 original size:6 final size:6
Alignment explanation
Indices: 116913232--116913265 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
116913222 TTATTAGTAT
*
116913232 TATTAG TATTAG TATTAC TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
116913266 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:116913394 original size:3 final size:3
Alignment explanation
Indices: 116913381--116913419 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
116913371 TATTCCAATG
* *
116913381 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
116913420 GTTTATGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:116913697 original size:64 final size:64
Alignment explanation
Indices: 116913623--116913754 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
116913613 GTCGTATTAT
*
116913623 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTTATATATATTATCATT
1 TATATTTTAATATTATTAGTTATAT-ATTACACTATTACATATAT-TTTTATA-ATATTAT-ATT
116913684 GTA
62 GTA
* * *
116913687 TATATTTTAATATTATTAGTTATATTTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
116913751 TATA
1 TATA
116913755 CTGTCGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
64 25 0.42
65 13 0.22
66 14 0.23
67 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (64 bp):
TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
Found at i:116913729 original size:19 final size:18
Alignment explanation
Indices: 116913685--116913744 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
116913675 ATTATCATTG
116913685 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
116913703 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
116913725 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
116913745 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:116914189 original size:38 final size:37
Alignment explanation
Indices: 116914105--116914199 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
116914095 TATACGTACT
*
116914105 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
116914143 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
116914179 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
116914200 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:116917766 original size:9 final size:9
Alignment explanation
Indices: 116917752--116917776 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
116917742 GTAAAAATGA
116917752 CATTTTGGT
1 CATTTTGGT
116917761 CATTTTGGT
1 CATTTTGGT
116917770 CATTTTG
1 CATTTTG
116917777 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (9 bp):
CATTTTGGT
Found at i:116918417 original size:38 final size:37
Alignment explanation
Indices: 116918333--116918427 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
116918323 TATACGTACT
*
116918333 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
116918371 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
116918407 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
116918428 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:116920604 original size:62 final size:62
Alignment explanation
Indices: 116920501--116920625 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
116920491 TCTTTTTTTT
* *
116920501 GCATTCATGCATCAACATTACATTTCATCGCATGCAATAAATTTCCTAAAATCCAAAAATAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
* * * *
116920563 GCATTCATGCATCAACACTACGTTTCATTGCATACAGTAAATTTCCTAAAATCCAAAAGTAC
1 GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
116920625 G
1 G
116920626 TCGAGTTTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (62 bp):
GCATTCATGCATCAACACTACATTTCATCGCATACAATAAATTTCCTAAAATCCAAAAATAC
Found at i:116921970 original size:11 final size:11
Alignment explanation
Indices: 116921903--116921983 Score: 58
Period size: 11 Copynumber: 7.0 Consensus size: 11
116921893 TTCAGTGGAG
116921903 GCAAAAAAAAA
1 GCAAAAAAAAA
*
116921914 GGACAAAAAAAA
1 GCA-AAAAAAAA
*
116921926 G-ACAAAAAAAG
1 GCA-AAAAAAAA
*
116921937 GTAAAAAAAACGA
1 GCAAAAAAAA--A
116921950 G-AAAATAAAAA
1 GCAAAA-AAAAA
116921961 GCAAAAAAAAA
1 GCAAAAAAAAA
*
116921972 CCAAATAAAAAA
1 GCAAA-AAAAAA
116921984 AAACCTCTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
11 30 0.51
12 24 0.41
13 5 0.08
ACGTcount: A:0.77, C:0.09, G:0.11, T:0.04
Consensus pattern (11 bp):
GCAAAAAAAAA
Found at i:116921984 original size:25 final size:25
Alignment explanation
Indices: 116921905--116921986 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 25
116921895 CAGTGGAGGC
* *
116921905 AAAAAAAAAGGACAAAAAAA--AG-
1 AAAAAAAAAGCAAAAAAAAACCAGA
* ** *
116921927 ACAAAAAAAGGTAAAAAAAACGAGA
1 AAAAAAAAAGCAAAAAAAAACCAGA
* *
116921952 AAATAAAAAGCAAAAAAAAACCAAA
1 AAAAAAAAAGCAAAAAAAAACCAGA
116921977 TAAAAAAAAA
1 -AAAAAAAAA
116921987 CCTCTACTGG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
22 17 0.37
24 2 0.04
25 19 0.41
26 8 0.17
ACGTcount: A:0.79, C:0.07, G:0.10, T:0.04
Consensus pattern (25 bp):
AAAAAAAAAGCAAAAAAAAACCAGA
Found at i:116922408 original size:12 final size:12
Alignment explanation
Indices: 116922387--116922449 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 12
116922377 TACTTCACTT
116922387 GAAAA-AAAAAA
1 GAAAAGAAAAAA
116922398 CGAAAAGAAAAATGA
1 -GAAAAGAAAAA--A
*
116922413 AAAAATGAAAAAA
1 GAAAA-GAAAAAA
116922426 GAAAAGAAAAAA
1 GAAAAGAAAAAA
116922438 GAAAAAGAAAAA
1 G-AAAAGAAAAA
116922450 GGAGAGGCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 13 0.30
13 20 0.45
14 4 0.09
15 7 0.16
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:116922414 original size:7 final size:6
Alignment explanation
Indices: 116922387--116922450 Score: 53
Period size: 6 Copynumber: 10.2 Consensus size: 6
116922377 TACTTCACTT
116922387 GAAAAA -AAAAA CG-AAAA GAAAAA TGAAAAAA TGAAAAA -AGAAAA GAAAAAA
1 GAAAAA GAAAAA -GAAAAA GAAAAA -G-AAAAA -GAAAAA GA-AAAA G-AAAAA
116922438 GAAAAA GAAAAA G
1 GAAAAA GAAAAA G
116922451 GAGAGGCCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
5 7 0.14
6 24 0.48
7 11 0.22
8 8 0.16
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:116923571 original size:95 final size:95
Alignment explanation
Indices: 116923428--116923908 Score: 818
Period size: 95 Copynumber: 5.0 Consensus size: 95
116923418 GCAGCGAAGC
*
116923428 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTTTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
116923493 CTCCCCGTAATTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* * * *
116923523 AGATCGAAGATGGTAAATTTTACCTCCCTGACTACAGGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
116923588 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
116923618 AGATCAAAGATGACAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
116923683 CTCCCTGCATCTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
116923713 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
116923778 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
116923808 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
116923873 ATCTCCCAGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGA
116923905 AGAT
1 AGAT
116923909 TGCAGATCTT
Statistics
Matches: 363, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 293 0.81
97 70 0.19
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:116923619 original size:45 final size:44
Alignment explanation
Indices: 116923568--116923809 Score: 132
Period size: 45 Copynumber: 5.2 Consensus size: 44
116923558 AGGGGAGTAC
*
116923568 ATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAATAG
1 ATTGAAGCCGATAACTCTATCTCCCTG-ATCTGGCAGTGGAATAG
* * * * * * *
116923613 ATTGAAGATCAAAGATGACAGATTTTACCTCCCTGA-CT-ACAGTGGAGTAC
1 ATTGAAG--C--CGAT---A-ACTCTATCTCCCTGATCTGGCAGTGGAATAG
116923663 ATTGAAGCCGATAACTCTATCTCCCTGCATCTGGCAGTGGAATAG
1 ATTGAAGCCGATAACTCTATCTCCCTG-ATCTGGCAGTGGAATAG
** * * * * * *
116923708 ATTGAAGATCAAATATGGCAGATTTTACCTCCCTGA-CT-ACAGTGGAGTAC
1 ATTGAAG--C--CGAT---A-ACTCTATCTCCCTGATCTGGCAGTGGAATAG
*
116923758 ATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAG
1 ATTGAAGCCGATAACTCTATCTCCCTG-ATCTGGCAGTGGAATAG
116923803 ATTGAAG
1 ATTGAAG
116923810 ATCAAAGATG
Statistics
Matches: 143, Mismatches: 32, Indels: 44
0.65 0.15 0.20
Matches are distributed among these distances:
42 22 0.15
43 4 0.03
44 3 0.02
45 39 0.27
46 5 0.03
47 2 0.01
48 2 0.01
49 5 0.03
50 32 0.22
51 3 0.02
52 4 0.03
53 22 0.15
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
ATTGAAGCCGATAACTCTATCTCCCTGATCTGGCAGTGGAATAG
Found at i:116924070 original size:46 final size:46
Alignment explanation
Indices: 116923881--116924206 Score: 165
Period size: 46 Copynumber: 7.2 Consensus size: 46
116923871 CTATCTCCCA
*
116923881 GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCT
1 GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCT
* * ** * * *
116923927 GTATTTGGCAG-CGAAGCAGATCAAAAGATGGCAGATTTTACCTCCCT
1 GTATTTGGCAGTGGAA-TAGAT-TGAAGATTGCAGATCTTACCTTCCT
*** * * * ** * * *
116923974 G-A--CCACAGTGGAGTACACTGAAG-CCG-ATAAT-TCTATCTCCCT
1 GTATTTGGCAGTGGAATAGATTGAAGATTGCA-GATCT-TACCTTCCT
*
116924016 GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCT
1 GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCT
* * ** * *
116924062 GTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTTCCT
1 GTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTACCTTCCT
*** * * * * * * *
116924108 G-A--CCACAGTGGAGTACATTGAAG-CTG-ATAACTCTATCTCCCT
1 GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TACCTTCCT
* *
116924150 GTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCT
1 GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCT
116924196 GTATTTGGCAG
1 GTATTTGGCAG
116924207 CAAAGCAGGT
Statistics
Matches: 193, Mismatches: 68, Indels: 38
0.65 0.23 0.13
Matches are distributed among these distances:
41 5 0.03
42 21 0.11
43 14 0.07
44 7 0.04
45 40 0.21
46 80 0.41
47 26 0.13
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (46 bp):
GTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTACCTTCCT
Found at i:116924158 original size:134 final size:134
Alignment explanation
Indices: 116923808--116924281 Score: 734
Period size: 134 Copynumber: 3.5 Consensus size: 134
116923798 AATAGATTGA
* *
116923808 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
*
116923873 ATCTCCCAGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
116923938 CGAAGC
129 CGAAGC
* *
116923944 AGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTA
1 AGATC-AAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
116924009 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
65 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
116924074 GAAGC
130 GAAGC
* *
116924079 AGATCAAAGATGGCAGATTTTACCTTCCTGACCACAGTGGAGTACATTGAAGCTGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
116924144 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAGCA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
116924209 AAGC
131 AAGC
* ** * ** * * **
116924213 AGGTTGAAGACGGC-GAATTTTACCTCCCTGATTACAGTGGAGTACATTAAAGCTGATAGTTCTA
1 AGATCAAAGATGGCAG-ATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
116924277 TCTCC
65 TCTCC
116924282 TGGGGCAAGA
Statistics
Matches: 315, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
133 1 0.00
134 180 0.57
135 107 0.34
136 5 0.02
137 22 0.07
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:116924344 original size:44 final size:45
Alignment explanation
Indices: 116924290--116924670 Score: 400
Period size: 44 Copynumber: 8.6 Consensus size: 45
116924280 CCTGGGGCAA
* * *
116924290 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
116924334 GAAATAGATCGAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
116924378 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * *
116924422 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
116924466 GAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
116924510 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
116924554 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
116924598 GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
*
116924642 GAAGTAGATCGAAGAAAGCAGATCTTGTC
1 GAAGTAGATCGAAGATAGCAGATCTTGTC
116924671 CCTGTATTTG
Statistics
Matches: 272, Mismatches: 57, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
43 63 0.23
44 154 0.57
45 55 0.20
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
Found at i:116924527 original size:132 final size:132
Alignment explanation
Indices: 116924290--116924670 Score: 672
Period size: 132 Copynumber: 2.9 Consensus size: 132
116924280 CCTGGGGCAA
* *
116924290 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATAGATCGAAGATACAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
116924355 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
116924420 GT
131 GT
116924422 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
*
116924487 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
116924552 GT
131 GT
* * * * *
116924554 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGACGATGCAGA
1 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
* *
116924619 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC
116924671 CCTGTATTTG
Statistics
Matches: 238, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 238 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:116925761 original size:11 final size:11
Alignment explanation
Indices: 116925745--116925779 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
116925735 CCCTTCCCCC
116925745 CTCCCTTCTCT
1 CTCCCTTCTCT
116925756 CTCCCTTCTCT
1 CTCCCTTCTCT
116925767 CCTCCC-TCTCT
1 -CTCCCTTCTCT
116925778 CT
1 CT
116925780 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 16 0.70
12 5 0.22
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:116925761 original size:23 final size:22
Alignment explanation
Indices: 116925735--116925779 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
116925725 GGCCGGATTC
116925735 CCCTTCCCCCCTCCCTTCTCTCT
1 CCCTTCCCCCCTCCC-TCTCTCT
* *
116925758 CCCTTCTCTCCTCCCTCTCTCT
1 CCCTTCCCCCCTCCCTCTCTCT
116925780 TTTTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (22 bp):
CCCTTCCCCCCTCCCTCTCTCT
Found at i:116926303 original size:23 final size:23
Alignment explanation
Indices: 116926259--116926304 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
116926249 ATATTACCAT
*
116926259 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
116926282 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
116926305 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:116926571 original size:19 final size:19
Alignment explanation
Indices: 116926536--116926572 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
116926526 ATATATTACC
**
116926536 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
116926555 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
116926573 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:116928772 original size:19 final size:20
Alignment explanation
Indices: 116928732--116928775 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
116928722 GTTTCTTTTG
* *
116928732 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
116928751 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
116928770 GCATTA
1 GCATTA
116928776 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:116933262 original size:132 final size:132
Alignment explanation
Indices: 116933102--116933794 Score: 1154
Period size: 132 Copynumber: 5.3 Consensus size: 132
116933092 TGAAGATTGT
* * *
116933102 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
* * *
116933167 ATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
66 ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
116933232 GC
131 GC
116933234 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
* **
116933299 ATTGGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAA
66 ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
116933364 GC
131 GC
116933366 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
116933431 ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
66 ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
116933496 GC
131 GC
116933498 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
* * *
116933563 ATTGGAAGTGGATTGACGACGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAA
66 ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
116933628 GC
131 GC
* * *
116933630 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
* * * * * ** *
116933695 ATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGGTAAAGTAGATCGAAGAAA
66 ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
*
116933760 GT
131 GC
*
116933762 AGATCTTGTC-TCATGTATTGGCATGAAGTAGAT
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
116933795 TGAAGATTAC
Statistics
Matches: 532, Mismatches: 29, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 22 0.04
132 510 0.96
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATG
ATTGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
GC
Found at i:116934583 original size:16 final size:17
Alignment explanation
Indices: 116934554--116934591 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
116934544 TCTATTTAAC
* *
116934554 ATAAAAATATACAACAA
1 ATAAAAATAAACAAAAA
116934571 ATAAAAA-AAACAAAAA
1 ATAAAAATAAACAAAAA
116934587 ATAAA
1 ATAAA
116934592 TTTTTTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAATAAACAAAAA
Found at i:116935195 original size:6 final size:6
Alignment explanation
Indices: 116935195--116935228 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
116935185 TTATTAGTAT
*
116935195 TATTAG TATTAG TATTAC TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
116935229 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:116935357 original size:3 final size:3
Alignment explanation
Indices: 116935344--116935385 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
116935334 TATTCCAATG
* *
116935344 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
116935386 GTTTATGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:116935663 original size:64 final size:64
Alignment explanation
Indices: 116935589--116935720 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
116935579 GTCGTATTAT
*
116935589 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTTATATATATTATCATT
1 TATATTTTAATATTATTAGTTATAT-ATTACACTATTACATATAT-TTTTATA-ATATTAT-ATT
116935650 GTA
62 GTA
* * *
116935653 TATATTTTAATATTATTAGTTATATTTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
116935717 TATA
1 TATA
116935721 CTGTCGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
64 25 0.42
65 13 0.22
66 14 0.23
67 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (64 bp):
TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
Found at i:116935695 original size:19 final size:18
Alignment explanation
Indices: 116935651--116935710 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
116935641 ATTATCATTG
116935651 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
116935669 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
116935691 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
116935711 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:116936156 original size:38 final size:37
Alignment explanation
Indices: 116936072--116936166 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
116936062 TATACGTACT
*
116936072 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
116936110 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
116936146 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
116936167 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:116939734 original size:9 final size:9
Alignment explanation
Indices: 116939720--116939744 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
116939710 GTAAAAATGA
116939720 CATTTTGGT
1 CATTTTGGT
116939729 CATTTTGGT
1 CATTTTGGT
116939738 CATTTTG
1 CATTTTG
116939745 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (9 bp):
CATTTTGGT
Found at i:116940754 original size:45 final size:45
Alignment explanation
Indices: 116940702--116940789 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
116940692 TATGTAATTT
* *
116940702 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACACCC
1 GAACTCATTAAGTTGTGGTCTGAGTTCATGATATATATGACACCC
116940747 GAACTCATTAAGTTGTGGTCTGAGTTCATGATATATATGACAC
1 GAACTCATTAAGTTGTGGTCTGAGTTCATGATATATATGACAC
116940790 ATGTTTTGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
GAACTCATTAAGTTGTGGTCTGAGTTCATGATATATATGACACCC
Found at i:116941651 original size:31 final size:31
Alignment explanation
Indices: 116941616--116941679 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
116941606 AGTAAAAGAA
116941616 TAGTGGCTAATAATTATGACCAAAACTATGG
1 TAGTGGCTAATAATTATGACCAAAACTATGG
116941647 TAGTGGCTAATAATTATGACCAAAACTATGG
1 TAGTGGCTAATAATTATGACCAAAACTATGG
116941678 TA
1 TA
116941680 TAATTGAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (31 bp):
TAGTGGCTAATAATTATGACCAAAACTATGG
Found at i:116942107 original size:40 final size:40
Alignment explanation
Indices: 116942063--116942144 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
116942053 GGCGTTTTTT
* *
116942063 TATAGGTACATCTTTAGTGGCATTTTTTAAAAAGCGCCGC
1 TATAGGTACACCTTTAGTGACATTTTTTAAAAAGCGCCGC
116942103 TATAGGTACACCTTTAGTGACATTTTTTAAAAAGCGCCGC
1 TATAGGTACACCTTTAGTGACATTTTTTAAAAAGCGCCGC
116942143 TA
1 TA
116942145 ATGCTCGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (40 bp):
TATAGGTACACCTTTAGTGACATTTTTTAAAAAGCGCCGC
Found at i:116942169 original size:40 final size:40
Alignment explanation
Indices: 116942063--116942178 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 40
116942053 GGCGTTTTTT
*
116942063 TATAGGTACATCTTTAGTGGCATTTTTTAAAAAGCGCCGC
1 TATAGCTACATCTTTAGTGGCATTTTTTAAAAAGCGCCGC
* * *
116942103 TATAGGTACACCTTTAGTGACATTTTTTAAAAAGCGCCGC
1 TATAGCTACATCTTTAGTGGCATTTTTTAAAAAGCGCCGC
* * *
116942143 TA-ATGCT-CGATCTTTAGCGGC-GTTTTTCAAAAGCGC
1 TATA-GCTAC-ATCTTTAGTGGCATTTTTTAAAAAGCGC
116942179 TGCAAAAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.23
40 51 0.77
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (40 bp):
TATAGCTACATCTTTAGTGGCATTTTTTAAAAAGCGCCGC
Found at i:116942342 original size:40 final size:40
Alignment explanation
Indices: 116942202--116942349 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
116942192 TGGAAAACGG
*
116942202 CTTTAGCGGCGCCTTTT-AAAAACGCCGCTATATGTACAC
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTACAC
* *
116942241 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTATAGGTACAC
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTACAC
* * **
116942281 CTTTAGCGGCGCTTTTTAAAAAACGCTGCTA-ATGTTCGTT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTAC-AC
* *
116942321 CTTTAGCGGCGCTTTTAAAAAAACACCGC
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGC
116942350 AAAAGAATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 20 0.21
40 76 0.79
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGCTATATGTACAC
Found at i:116943187 original size:21 final size:22
Alignment explanation
Indices: 116943143--116943192 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
116943133 GAGTTACTAT
*
116943143 TTTAAGGATTGTGGATTATGGG
1 TTTAAGGATTATGGATTATGGG
116943165 TTTAAGGATTAT-GATTTAT-GG
1 TTTAAGGATTATGGA-TTATGGG
116943186 TTTAAGG
1 TTTAAGG
116943193 GGTGAGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTATGGG
Found at i:116943465 original size:22 final size:22
Alignment explanation
Indices: 116943440--116943482 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
116943430 ATTTATGATA
* *
116943440 TAGGGTTTTGGGTTTAAGGGTT
1 TAGGGGTTAGGGTTTAAGGGTT
116943462 TAGGGGTTAGGGTTTAAGGGT
1 TAGGGGTTAGGGTTTAAGGGT
116943483 AAATAAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (22 bp):
TAGGGGTTAGGGTTTAAGGGTT
Found at i:116943466 original size:7 final size:7
Alignment explanation
Indices: 116943440--116943482 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
116943430 ATTTATGATA
116943440 TAGGGTT
1 TAGGGTT
*
116943447 TTGGGTT
1 TAGGGTT
116943454 TAAGGGTT
1 T-AGGGTT
*
116943462 TAGGGGT
1 TAGGGTT
116943469 TAGGGTT
1 TAGGGTT
116943476 TAAGGGT
1 T-AGGGT
116943483 AAATAAAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 19 0.63
8 11 0.37
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:116949382 original size:18 final size:18
Alignment explanation
Indices: 116949355--116949389 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
116949345 CTAAATTGAA
* *
116949355 AAAACTCAAACATAAAAT
1 AAAACCCAAAAATAAAAT
116949373 AAAACCCAAAAATAAAA
1 AAAACCCAAAAATAAAA
116949390 AATGTGGCCC
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:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAACCCAAAAATAAAAT
Found at i:116951391 original size:23 final size:23
Alignment explanation
Indices: 116951365--116951432 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 23
116951355 GGAATAAGAC
116951365 TCGAGGCTGAGTTTGCAAGATGG
1 TCGAGGCTGAGTTTGCAAGATGG
** ** *
116951388 TCGA--CACA-TTTATAAGA--C
1 TCGAGGCTGAGTTTGCAAGATGG
116951406 TCGAGGCTGAGTTTGCAAGATGG
1 TCGAGGCTGAGTTTGCAAGATGG
116951429 TCGA
1 TCGA
116951433 CACATTTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 10
0.60 0.20 0.20
Matches are distributed among these distances:
18 4 0.13
20 9 0.30
21 9 0.30
23 8 0.27
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (23 bp):
TCGAGGCTGAGTTTGCAAGATGG
Found at i:116951415 original size:41 final size:41
Alignment explanation
Indices: 116951358--116951441 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
116951348 TACACGAGGA
116951358 ATAAGACTCGAGGCTGAGTTTGCAAGATGGTCGACACATTT
1 ATAAGACTCGAGGCTGAGTTTGCAAGATGGTCGACACATTT
116951399 ATAAGACTCGAGGCTGAGTTTGCAAGATGGTCGACACATTT
1 ATAAGACTCGAGGCTGAGTTTGCAAGATGGTCGACACATTT
116951440 AT
1 AT
116951442 TTCCTTCTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (41 bp):
ATAAGACTCGAGGCTGAGTTTGCAAGATGGTCGACACATTT
Found at i:116953833 original size:24 final size:24
Alignment explanation
Indices: 116953788--116953834 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
116953778 CCCCCATTAG
* *
116953788 CAAATATCGTATGACCCCTACCAA
1 CAAAAATCGTATAACCCCTACCAA
* *
116953812 CAAAAATCGTATAATCCTTACCA
1 CAAAAATCGTATAACCCCTACCA
116953835 GTAGGTGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.40, C:0.30, G:0.06, T:0.23
Consensus pattern (24 bp):
CAAAAATCGTATAACCCCTACCAA
Found at i:116956793 original size:22 final size:23
Alignment explanation
Indices: 116956755--116956814 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
116956745 AATAAAGACA
116956755 TAAAATAAATAATATAAAACAATT-
1 TAAAATAAAT-A-ATAAAACAATTC
*
116956779 TAAAATAAATAATAAGACAATTC
1 TAAAATAAATAATAAAACAATTC
*
116956802 T-AAACAAATAATA
1 TAAAATAAATAATA
116956815 CATAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 21 0.64
23 2 0.06
24 10 0.30
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAAATAAATAATAAAACAATTC
Found at i:116956920 original size:27 final size:28
Alignment explanation
Indices: 116956877--116956931 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
116956867 AATAATTTAA
* *
116956877 AAAATTAATATACAAAACAGTTTAAAAT
1 AAAATTAATATACAAAACAATCTAAAAT
*
116956905 AAAA-TAATATATAAAACAATCTAAAAT
1 AAAATTAATATACAAAACAATCTAAAAT
116956932 GACTAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAATTAATATACAAAACAATCTAAAAT
Found at i:116957089 original size:26 final size:26
Alignment explanation
Indices: 116957015--116957227 Score: 127
Period size: 26 Copynumber: 8.2 Consensus size: 26
116957005 TACATAATAT
* * *
116957015 ATAAA-AA-ATATAAAACAGTTTTAA
1 ATAAATAATATATAAAATAATTTAAA
* *
116957039 A-AAATAATAATGTAAAAGAATTTTAAA
1 ATAAATAAT-ATATAAAATAA-TTTAAA
* *
116957066 GTAAATAACATATAAAATAATTTAAA
1 ATAAATAATATATAAAATAATTTAAA
** * * *
116957092 CCAAGTAATACATATAAA-ACTTTAAA
1 ATAAATAATATATA-AAATAATTTAAA
** * *
116957118 ATTGATAATATACACAAA-GATTTAAA
1 ATAAATAATATATA-AAATAATTTAAA
*
116957144 ATAAATTATATATGGAAAATAA-TTAAA
1 ATAAATAATATAT--AAAATAATTTAAA
*
116957171 ATAAATAATATGTAAAAATAATTTAAA
1 ATAAATAATATAT-AAAATAATTTAAA
*
116957198 ATAAATAATACATAAAAT--TTTAAA
1 ATAAATAATATATAAAATAATTTAAA
*
116957222 GTAAAT
1 ATAAAT
116957228 GACGTACAAA
Statistics
Matches: 144, Mismatches: 35, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
23 3 0.02
24 14 0.10
26 67 0.47
27 52 0.36
28 8 0.06
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (26 bp):
ATAAATAATATATAAAATAATTTAAA
Found at i:116957171 original size:27 final size:28
Alignment explanation
Indices: 116957137--116957207 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
116957127 ATACACAAAG
*
116957137 ATTTAAAATAAATTATATATG-GAAAATA
1 ATTTAAAATAAATTA-ATATGTAAAAATA
116957165 A-TTAAAATAAA-TAATATGTAAAAATA
1 ATTTAAAATAAATTAATATGTAAAAATA
116957191 ATTTAAAATAAA-TAATA
1 ATTTAAAATAAATTAATA
116957208 CATAAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 5 0.12
26 9 0.22
27 25 0.62
28 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
ATTTAAAATAAATTAATATGTAAAAATA
Found at i:116957178 original size:13 final size:13
Alignment explanation
Indices: 116957160--116957206 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
116957150 TATATATGGA
116957160 AAATAATTAAAAT
1 AAATAATTAAAAT
**
116957173 AAATAATATGTAA-
1 AAATAAT-TAAAAT
116957186 AAATAATTTAAAAT
1 AAATAA-TTAAAAT
116957200 AAATAAT
1 AAATAAT
116957207 ACATAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
AAATAATTAAAAT
Found at i:116957617 original size:26 final size:24
Alignment explanation
Indices: 116957564--116957617 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
116957554 TAAAAGTAGA
* *
116957564 AAATAATAATAAAACAAACAATTT
1 AAATAATAATAAAACAAACAACTG
*
116957588 AAATAATTAAATAAAACAAAGAACTG
1 AAATAA-T-AATAAAACAAACAACTG
116957614 AAAT
1 AAAT
116957618 TAAATGCGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.24
25 1 0.04
26 18 0.72
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATAATAATAAAACAAACAACTG
Found at i:116958333 original size:19 final size:18
Alignment explanation
Indices: 116958305--116958340 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
116958295 ATCGAAGGTG
116958305 CGTTTTTTATTACTATTT
1 CGTTTTTTATTACTATTT
*
116958323 CGTTCTTTTATTATTATT
1 CGTT-TTTTATTACTATT
116958341 ACTTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.67
Consensus pattern (18 bp):
CGTTTTTTATTACTATTT
Found at i:116959586 original size:17 final size:18
Alignment explanation
Indices: 116959564--116959604 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
116959554 ACCCAAATTG
*
116959564 ATAAAACCC-AACATAAA
1 ATAAAACCCAAAAATAAA
116959581 ATAAAACCCAAAAATAAA
1 ATAAAACCCAAAAATAAA
116959599 ATAAAA
1 ATAAAA
116959605 ATACCCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.12
Consensus pattern (18 bp):
ATAAAACCCAAAAATAAA
Found at i:116962156 original size:32 final size:34
Alignment explanation
Indices: 116962120--116962184 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
116962110 TAACAGTGGT
*
116962120 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
116962152 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
116962185 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:116962522 original size:26 final size:26
Alignment explanation
Indices: 116962493--116962545 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
116962483 TCAAACATGC
116962493 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
116962519 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
116962545 A
1 A
116962546 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:116964062 original size:26 final size:26
Alignment explanation
Indices: 116964026--116964135 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
116964016 CATGAAATTC
116964026 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
116964052 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
116964078 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
116964104 TTATCATTG-AACATTTTCCTAAACTA
1 TTATCA-TGAAACATTTACCTAACCCA
116964130 TTATCA
1 TTATCA
116964136 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:116965148 original size:26 final size:26
Alignment explanation
Indices: 116965100--116965205 Score: 144
Period size: 26 Copynumber: 4.1 Consensus size: 26
116965090 GTACAAATTA
116965100 ATAATTGG-TTAGGTAAATGTTCCATG
1 ATAA-TGGATTAGGTAAATGTTCCATG
* *
116965126 ACAATGGATTAGGTAAATATTCCATG
1 ATAATGGATTAGGTAAATGTTCCATG
*
116965152 ATAAT-GAGTTAGATAAATGTTCCATG
1 ATAATGGA-TTAGGTAAATGTTCCATG
*
116965178 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGATTAGGTAAATGTTCCATG
116965204 AT
1 AT
116965206 GGGAATTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
25 5 0.07
26 64 0.91
27 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (26 bp):
ATAATGGATTAGGTAAATGTTCCATG
Found at i:116965178 original size:52 final size:52
Alignment explanation
Indices: 116965107--116965205 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
116965097 TTAATAATTG
*
116965107 GTTAGGTAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATAATGA
1 GTTAGATAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATAATGA
* * *
116965159 GTTAGATAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGAT
1 GTTAGATAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGAT
116965206 GGGAATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (52 bp):
GTTAGATAAATGTTCCATGACAATGGATTAGGTAAATATTCCATGATAATGA
Found at i:116969418 original size:21 final size:23
Alignment explanation
Indices: 116969377--116969436 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 23
116969367 TTTTTACATA
116969377 TTATTAATATTATTACTATTATTT
1 TTATTAATATTATTAC-ATTATTT
116969401 TTATTAATA-TATTA-ATTATTT
1 TTATTAATATTATTACATTATTT
116969422 TTA--AAGTATTATTAC
1 TTATTAA-TATTATTAC
116969437 TACTAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 15 0.45
23 5 0.15
24 9 0.27
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTAATATTATTACATTATTT
Found at i:116969820 original size:21 final size:21
Alignment explanation
Indices: 116969706--116969821 Score: 67
Period size: 21 Copynumber: 5.3 Consensus size: 21
116969696 GTTTTTAATA
116969706 TTATATTT-TATATA-TATTAT
1 TTATATTTCTA-ATACTATTAT
* *
116969726 TATATATATTTTAATATTATTAGT
1 T-TATAT-TTCTAATACTATTA-T
* *
116969750 TATATTTTTCTTTTATACTATTAT
1 T-TATATTTC--TAATACTATTAT
* * *
116969774 ATATATATCTAATATTA-TAT
1 TTATATTTCTAATACTATTAT
*
116969794 GGTATATTTCTAATACTATTAT
1 -TTATATTTCTAATACTATTAT
116969816 TTATAT
1 TTATAT
116969822 ATATTTATAT
Statistics
Matches: 74, Mismatches: 13, Indels: 17
0.71 0.12 0.16
Matches are distributed among these distances:
20 4 0.05
21 30 0.41
22 8 0.11
23 15 0.20
24 8 0.11
25 9 0.12
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (21 bp):
TTATATTTCTAATACTATTAT
Found at i:116970141 original size:27 final size:26
Alignment explanation
Indices: 116970103--116970153 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
116970093 TTTGATACTA
116970103 TGTTTTTTTAATACCATAT-ATGTCG
1 TGTTTTTTTAATACCATATGATGTCG
*
116970128 TGTTTATTCTTAATACTATATGATGT
1 TGTTT-TT-TTAATACCATATGATGT
116970154 ATGTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 2 0.09
27 11 0.50
28 4 0.18
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (26 bp):
TGTTTTTTTAATACCATATGATGTCG
Found at i:116985813 original size:14 final size:15
Alignment explanation
Indices: 116985796--116985828 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
116985786 AATATGACCT
116985796 TAAAAATAAATA-AA
1 TAAAAATAAATACAA
116985810 TAAAAATAAATACAA
1 TAAAAATAAATACAA
116985825 TAAA
1 TAAA
116985829 CTTAGACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAATAAATACAA
Found at i:116986685 original size:14 final size:15
Alignment explanation
Indices: 116986663--116986691 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
116986653 GAGGGAAAGG
116986663 AGAAGAAAGAAAGAA
1 AGAAGAAAGAAAGAA
116986678 AGAA-AAAGAAAGAA
1 AGAAGAAAGAAAGAA
116986692 GAGAGTGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAGAA
Found at i:116991418 original size:21 final size:21
Alignment explanation
Indices: 116991376--116991432 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
116991366 GAGAGGAAAG
* *
116991376 AAAGAAA-AAGAAGGAAAGAA
1 AAAGAAAGAAGAAGAAAAAAA
* *
116991396 AAGGAAAGGAGAAGAAAAAAA
1 AAAGAAAGAAGAAGAAAAAAA
116991417 AAAGAAAGAAGAAGAA
1 AAAGAAAGAAGAAGAA
116991433 GAAGTGGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAGAAGAAAAAAA
Found at i:116992030 original size:142 final size:142
Alignment explanation
Indices: 116991857--116992377 Score: 425
Period size: 138 Copynumber: 3.6 Consensus size: 142
116991847 TTATACAAAT
* *
116991857 ATTTCAAACA-AATGTACTGAAATAATATAAAATAATAAAATCGAAAATAATATATGTTATTGAA
1 ATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATCGAAAATAATATATTTTATT-AA
116991921 AGTAAAAAATTCGGGAAAATATACGACAAAGGCAAGAATAAGGTTTTTAAAATTTATTTAAAAAA
65 AGTAAAAAATTCGGGAAAATATACGACAAAGGCAAGAATAAGGTTTTTAAAATTTATTTAAAAAA
116991986 CACTAAATTAATA
130 CACTAAATTAATA
* **
116991999 ATTTC-AACATAATGTACTAAAATAATGTAAAATAATAAAATTATAAAAT-ATGATATTTTA--A
1 ATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAA-TCGAAAATAAT-ATATTTTATTA
* * * * *
116992060 AA-TAATAAATGC-GGAAAAAATACGA-ACAAGGCCAAG--TCAGAGTGTTTTACAAAATTTTTT
64 AAGTAAAAAATTCGGGAAAATATACGACA-AAGG-CAAGAAT-A-AG-GTTTT-TAAAATTTATT
** *
116992120 TAAAAAATTC-AGA--AATA
123 TAAAAAACACTAAATTAATA
* * * *
116992137 A-TT-AATACAAAATGTACTGAAATAATATAAAAT-A-AATA-CAAAAATAATATATTTTTATTA
1 ATTTCAA-ACATAATGTACTAAAATAATATAAAATAATAAAATCGAAAATAATATA-TTTTATTA
* * * *
116992197 AAGTAATAAATTCGGG-AAATAATACGAGCAAAGGGTAGGAATAAGGTTTTTTTTTAAAAAATTA
64 AAGTAAAAAATTCGGGAAAAT-ATACGA-CAAA-GGCAAGAATAAGG----TTTTT-AAAATTTA
116992261 -TTAAAAAACACATAAATTAATA
121 TTTAAAAAACAC-TAAATTAATA
* * * * * *
116992283 CACTTCAAACATAATGTAATAAAATAATGTAAAATAATAAAAAACGAAAGTAATTTATTTTATTG
1 -ATTTCAAACATAATGTACTAAAATAATATAAAATAAT-AAAATCGAAAATAATATATTTTATT-
*
116992348 AAAGTAATAAAATTCGAGAAAATAGTACGA
63 AAAGTAA-AAAATTCGGGAAAATA-TACGA
116992378 ATAAATGGCC
Statistics
Matches: 297, Mismatches: 39, Indels: 74
0.72 0.10 0.18
Matches are distributed among these distances:
134 8 0.03
135 7 0.02
136 3 0.01
137 9 0.03
138 58 0.20
139 23 0.08
140 16 0.05
141 25 0.08
142 45 0.15
143 23 0.08
144 2 0.01
146 4 0.01
147 1 0.00
148 25 0.08
149 3 0.01
151 10 0.03
152 17 0.06
153 9 0.03
154 9 0.03
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (142 bp):
ATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATCGAAAATAATATATTTTATTAAA
GTAAAAAATTCGGGAAAATATACGACAAAGGCAAGAATAAGGTTTTTAAAATTTATTTAAAAAAC
ACTAAATTAATA
Found at i:116992210 original size:277 final size:292
Alignment explanation
Indices: 116991686--116992324 Score: 756
Period size: 286 Copynumber: 2.2 Consensus size: 292
116991676 AAAAATGGTA
116991686 TATTAAAAAACACAGTAAATTAATAAATTT-AACAT-ATGTAC-AAAATAA-GTAAAATAATAAA
1 TATTAAAAAACACA-TAAATTAAT-AATTTCAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
116991747 ATTAGAAAAATAAATTTTTTTAAAGTAATAAATGCGGAGAAATAAATACGAACAAAGGCCGAAGT
64 ATTAGAAAAATAAATTATTTTAAAATAATAAATGCGGAGAAATAAATACGAACAAAGGCCGAAGT
* * * *
116991812 AAGATTTTTACTAAATTTTTTAAAATTTAGAATAATTATACAAATATTTCAAACAAATGTACTGA
129 AAGATTTTTACTAAATATTTT---ATTTAGAAAAATTACACAAATAATTCAAACAAATGTACTGA
*
116991877 AATAATATAAAATAATAAAATCGAAAATAATATATGTTATTGAAAGTAAAAAATTCGGGAAA-AT
191 AATAATATAAAATAATAAAATCAAAAATAATATATGTTATTGAAAGTAAAAAATTCGGGAAATA-
*
116991941 ATACGA-CAAA-GGCAAGAATAAGG-TTTTT-AAAATT
255 ATACGAGCAAAGGGCAAGAATAAGGTTTTTTAAAAAAT
116991975 TATTTAAAAAACAC-TAAATTAATAATTTCAACATAATGTACTAAAATAATGTAAAATAATAAAA
1 TA-TTAAAAAACACATAAATTAATAATTTCAACATAATGTACTAAAATAATGTAAAATAATAAAA
* *
116992039 TTA-TAAAATATGA-TATTTTAAAATAATAAATGC-G-GAAA-AAATACGAAC-AAGGCC-AAGT
65 TTAGAAAAATA-AATTATTTTAAAATAATAAATGCGGAGAAATAAATACGAACAAAGGCCGAAGT
* *
116992097 CAGAGTGTTTTAC-AAA-ATTTT-TTTA-AAAAATT-CAGAAATAATT-AATACAAAATGTACTG
129 AAGA-T-TTTTACTAAATATTTTATTTAGAAAAATTACACAAATAATTCAA-AC-AAATGTACTG
* * *
116992156 AAATAATATAAAAT-A-AATA-CAAAAATAATATATTTTTATT-AAAGTAATAAATTCGGGAAAT
190 AAATAATATAAAATAATAAAATCAAAAATAATATA-TGTTATTGAAAGTAAAAAATTCGGGAAAT
* *
116992217 AATACGAGCAAAGGGTAGGAATAAGGTTTTTTTTTAAAAAAT
254 AATACGAGCAAAGGGCAAGAATAAGG---TTTTTTAAAAAAT
* *
116992259 TATTAAAAAACACATAAATTAATACACTTCAAACATAATGTAATAAAATAATGTAAAATAATAAA
1 TATTAAAAAACACATAAATTAATA-ATTTC-AACATAATGTACTAAAATAATGTAAAATAATAAA
116992324 A
64 A
116992325 AACGAAAGTA
Statistics
Matches: 309, Mismatches: 19, Indels: 47
0.82 0.05 0.13
Matches are distributed among these distances:
277 37 0.12
278 16 0.05
279 22 0.07
280 30 0.10
281 4 0.01
283 16 0.05
284 17 0.06
285 15 0.05
286 44 0.14
287 21 0.07
288 18 0.06
289 9 0.03
290 42 0.14
291 18 0.06
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (292 bp):
TATTAAAAAACACATAAATTAATAATTTCAACATAATGTACTAAAATAATGTAAAATAATAAAAT
TAGAAAAATAAATTATTTTAAAATAATAAATGCGGAGAAATAAATACGAACAAAGGCCGAAGTAA
GATTTTTACTAAATATTTTATTTAGAAAAATTACACAAATAATTCAAACAAATGTACTGAAATAA
TATAAAATAATAAAATCAAAAATAATATATGTTATTGAAAGTAAAAAATTCGGGAAATAATACGA
GCAAAGGGCAAGAATAAGGTTTTTTAAAAAAT
Found at i:116994119 original size:10 final size:9
Alignment explanation
Indices: 116994106--116994211 Score: 56
Period size: 10 Copynumber: 11.3 Consensus size: 9
116994096 AAAGGAGAGG
116994106 GAAAGGAGAA
1 GAAA-GAGAA
116994116 GAAAGA-AA
1 GAAAGAGAA
* *
116994124 GAAATAAAAA
1 GAAA-GAGAA
*
116994134 GAAAGAAAA
1 GAAAGAGAA
*
116994143 GGAAATGAGAG
1 -GAAA-GAGAA
116994154 GAAAGA-AA
1 GAAAGAGAA
*
116994162 GAAAAAGAA
1 GAAAGAGAA
*
116994171 TGAAAGAAAA
1 -GAAAGAGAA
116994181 GGAAAGGAGAA
1 -GAAA-GAGAA
* *
116994192 GAAAAAAAA
1 GAAAGAGAA
116994201 GAAAGA-AA
1 GAAAGAGAA
116994209 GAA
1 GAA
116994212 GAAGAAGAGG
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
8 17 0.22
9 19 0.25
10 33 0.43
11 7 0.09
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (9 bp):
GAAAGAGAA
Found at i:116994123 original size:4 final size:4
Alignment explanation
Indices: 116994114--116994211 Score: 51
Period size: 4 Copynumber: 23.2 Consensus size: 4
116994104 GGGAAAGGAG
* *
116994114 AAGA AAGA AAGA AA-T AA-A AAGA AAGAA AAGGA AATGA GAGGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA
* *
116994160 AAG- AA-A AAGA ATGA AAGAA AAGGA AAGGA GAAGAA AAAA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAG-A AAGA AAGA AAGA
116994207 AAGA A
1 AAGA A
116994212 GAAGAAGAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
3 8 0.11
4 39 0.52
5 22 0.29
6 6 0.08
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:116994158 original size:38 final size:37
Alignment explanation
Indices: 116994105--116994249 Score: 132
Period size: 38 Copynumber: 3.8 Consensus size: 37
116994095 AAAAGGAGAG
*
116994105 GGAAAGGAGAAGAAAGAAAGAAATAAAAAGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAA-AAAAAGAAAGAAAA
* *
116994143 GGAAATGAGAGGAAAGAAAGAAAAAGAATGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAAA-AAAGAAAGAAAA
* * *
116994181 GGAAAGGAGAAGAAAAAAAAGAAAGAAAGAAG-AAGAAGA
1 GGAAAGGAG-AGGAAAGAAAGAAA-AAA-AAGAAAGAAAA
* * *
116994220 GGGAAGCA-AGGAAAAAAAAAGAAAAAAAAG
1 GGAAAGGAGAGG--AAAGAAAGAAAAAAAAG
116994250 GTAATTTTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
37 7 0.08
38 43 0.48
39 36 0.40
40 4 0.04
ACGTcount: A:0.69, C:0.01, G:0.28, T:0.02
Consensus pattern (37 bp):
GGAAAGGAGAGGAAAGAAAGAAAAAAAAGAAAGAAAA
Done.