Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 10 of 144
Found at i:2453304 original size:6 final size:6
Alignment explanation
Indices: 2453268--2453353 Score: 54
Period size: 6 Copynumber: 14.7 Consensus size: 6
2453258 AATGGGATAT
* * * * * *
2453268 AATTTA ATTTTA AAATTA GATTT- ATTTTA AATTTA AATTTA CA-TAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
2453314 AATTTA AGTTT- -ATTATA AATTTA AATTTA TAAATTA AATT
1 AATTTA AATTTA AATT-TA AATTTA AATTTA -AATTTA AATT
2453354 AAAAAAGGTC
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
4 2 0.03
5 7 0.12
6 41 0.71
7 8 0.14
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:2453998 original size:15 final size:16
Alignment explanation
Indices: 2453978--2454013 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2453968 ATTCTGCCAT
*
2453978 TAATAGCATTAAT-AA
1 TAATAGCAGTAATAAA
2453993 TAATAGCAGTAATAAA
1 TAATAGCAGTAATAAA
2454009 TAATA
1 TAATA
2454014 TTGATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (16 bp):
TAATAGCAGTAATAAA
Found at i:2455272 original size:29 final size:29
Alignment explanation
Indices: 2455224--2455323 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 29
2455214 CATTCCTTTT
* *
2455224 AAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATACCA-TTTTAACCCCAATTTCATCA
*
2455254 AAAATAACCATTTTACCCCCAAACTTTC--C-
1 AAAAT-ACCATTTTAACCCC-AA-TTTCATCA
* *
2455283 AAAATTCCATTTTAACCCCTATTTCATCA
1 AAAATACCATTTTAACCCCAATTTCATCA
2455312 AAAATTACCATT
1 AAAA-TACCATT
2455324 CCATTTTACC
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
26 4 0.07
27 1 0.02
28 13 0.23
29 9 0.16
30 21 0.38
31 4 0.07
32 4 0.07
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATACCATTTTAACCCCAATTTCATCA
Found at i:2455341 original size:63 final size:61
Alignment explanation
Indices: 2455224--2455383 Score: 211
Period size: 63 Copynumber: 2.6 Consensus size: 61
2455214 CATTCCTTTT
*
2455224 AAAATTCCATTTTTAACCCCGATTTCATCAAAAA-TA-ACCATTTTACCCCCAAACTTTCC
1 AAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACACCATTTTACCCCCAAACTTTAC
* * *
2455283 AAAATTCCA-TTTTAACCCCTATTTCATCAAAAATTACCATTCCATTTTACCCCTAAACTTTAT
1 AAAATTCCATTTTTAACCCCGATTTCATCAAAAATTA-CA--CCATTTTACCCCCAAACTTTAC
* *
2455346 AGAATTCCATTTTTAACCCCGATTTCA-CCAAAATTACA
1 AAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACA
2455384 ATTTTGCCCC
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
58 23 0.26
59 11 0.12
61 1 0.01
62 2 0.02
63 35 0.40
64 16 0.18
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (61 bp):
AAAATTCCATTTTTAACCCCGATTTCATCAAAAATTACACCATTTTACCCCCAAACTTTAC
Found at i:2467600 original size:38 final size:36
Alignment explanation
Indices: 2467497--2468241 Score: 231
Period size: 38 Copynumber: 20.0 Consensus size: 36
2467487 ATCAGACCGC
2467497 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGT-AG
1 AGCAAGATCATTTCCTAT-CTC-TGAAATTGAAGTAAG
*** ** *
2467534 AGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
1 AGCAAGAT--CATTTC-CTATCTCTGAAATTGAAGTAAG
*
2467573 ACCAAGATCATTTCCTATCCTCTTGAAATTGAAGT-AG
1 AGCAAGATCATTTCCTAT-CTC-TGAAATTGAAGTAAG
** ** *
2467610 AG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG
1 AGCAAGAT--CATTTC-CTATCTCTGAAATTGAAGTAAG
2467648 AGCAAGATC--TT--TATCTCTGAAATTGAAGTAAG
1 AGCAAGATCATTTCCTATCTCTGAAATTGAAGTAAG
* *
2467680 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT-AG
1 AGCAAGATCATTTCCTAT-CTC-TGAAATTGAAGTAAG
*** ** *
2467717 AGTTGGATAACA-CGCCTTTATCTCTGAAGTTGAAGTAAG
1 AGCAAGAT--CATTTCC--TATCTCTGAAATTGAAGTAAG
*
2467756 AGCAACG-TCA--TCC--GCT-TGAAATTGAAGT-AG
1 AGCAA-GATCATTTCCTATCTCTGAAATTGAAGTAAG
** * ** * *
2467786 AGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTCAG
1 AG--CAAGATCATTTC-CTATCTCTGAAATTGAAGTAAG
* *
2467825 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT-AG
1 AGCAAGATCATTTCCTAT-CTC-TGAAATTGAAGTAAG
*** ** * *
2467862 AGTTGGATAACACGTCTTTACCTCTGAAATTGAAGTAAG
1 AGCAAGAT--CATTTC-CTATCTCTGAAATTGAAGTAAG
* *
2467901 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT-AG
1 AGCAAGATCATTTCCTAT-CTC-TGAAATTGAAGTAAG
*** ** * *
2467938 AGTTGGATAACACGTCTTTATTTCTGAAATTGAAGTAAG
1 AGCAAGAT--CATTTC-CTATCTCTGAAATTGAAGTAAG
* *
2467977 AGCAAGAT-ATTTTCCTATCCGCTTGAAAGTGAAGT-AG
1 AGCAAGATCA-TTTCCTAT-CTC-TGAAATTGAAGTAAG
** ** *
2468014 AG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAG
1 AGCAAGAT--CATTTC-CTATCTCTGAAATTGAAGTAAG
* * * * *
2468052 AGCAATATCTTTTCCTATCCGCTCGAAATCGAAGCAA-
1 AGCAAGATCATTTCCTAT-CTCT-GAAATTGAAGTAAG
*** ** *
2468089 AGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAG
1 AGCAAGAT--CATTTC-CTATCTCTGAAATTGAAGTAAG
*
2468128 AGCAAGATCGTTTCCTATCCTCTTGAAATTGAAGTAGAG
1 AGCAAGATCATTTCCTAT-CTC-TGAAATTGAAGTA-AG
* * ** *
2468167 ATGGATA-AACAAGTCTTTATCTCTGAAATTGAAGTAAG
1 A-GCA-AGATCATTTC-CTATCTCTGAAATTGAAGTAAG
* * *
2468205 AGCAAGATCGTTTCCTACCCTTTTGAAATTGAAGTAA
1 AGCAAGATCATTTCCTA-TC-TCTGAAATTGAAGTAA
2468242 AGTTAGATAG
Statistics
Matches: 504, Mismatches: 135, Indels: 137
0.65 0.17 0.18
Matches are distributed among these distances:
30 4 0.01
31 11 0.02
32 36 0.07
34 4 0.01
35 1 0.00
36 32 0.06
37 109 0.22
38 192 0.38
39 87 0.17
40 24 0.05
41 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (36 bp):
AGCAAGATCATTTCCTATCTCTGAAATTGAAGTAAG
Found at i:2467654 original size:75 final size:76
Alignment explanation
Indices: 2467497--2467677 Score: 304
Period size: 75 Copynumber: 2.5 Consensus size: 76
2467487 ATCAGACCGC
2467497 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
2467562 ATTGAAGTAAG
66 ATTGAAGTAAG
*
2467573 ACCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
2467637 ATTGAAGTAAG
66 ATTGAAGTAAG
2467648 AGCAAGATC--TT--TAT-CTC-TGAAATTGAAGTA
1 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTA
2467678 AGAGCAAGAT
Statistics
Matches: 103, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
69 13 0.13
70 3 0.03
71 3 0.03
73 2 0.02
75 44 0.43
76 38 0.37
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:2467664 original size:32 final size:32
Alignment explanation
Indices: 2467548--2467691 Score: 153
Period size: 32 Copynumber: 4.2 Consensus size: 32
2467538 GGATAACACG
*
2467548 TCTTTATCTCTGAAATTGAAGTAAGACCAAGA
1 TCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
* * *
2467580 TCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACA
1 TC--TT--TAT-CTC-TGAAATTGAAGTA-AG-AG-CAAGA
2467621 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
1 --TCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
2467655 TCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
1 TCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
2467687 TCTTT
1 TCTTT
2467692 TCCTATCCGC
Statistics
Matches: 94, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
32 39 0.41
34 5 0.05
35 1 0.01
36 5 0.05
37 16 0.17
38 16 0.17
39 5 0.05
41 5 0.05
43 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (32 bp):
TCTTTATCTCTGAAATTGAAGTAAGAGCAAGA
Found at i:2467744 original size:76 final size:76
Alignment explanation
Indices: 2467650--2468266 Score: 917
Period size: 76 Copynumber: 8.2 Consensus size: 76
2467640 GAAGTAAGAG
2467650 CAAGATCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT
1 CAAG-TCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT
2467715 AGAGTTGGATAA
65 AGAGTTGGATAA
* * * *
2467727 CACGCCTTTATCTCTGAAGTTGAAGTAAGAGC-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
*
2467785 GAGTTGGATAT
66 GAGTTGGATAA
*
2467796 CAAGTCTTTATCTCTGAAATTGAAGTCAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
2467861 GAGTTGGATAA
66 GAGTTGGATAA
* *
2467872 CACGTCTTTACCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
2467937 GAGTTGGATAA
66 GAGTTGGATAA
* * * *
2467948 CACGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGATATTTTCCTATCCGCTTGAAAGTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
2468013 GAG-TGGATAA
66 GAGTTGGATAA
* * * *
2468023 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATATCTTTTCCTATCCGCTCGAAATCGAAGCA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
*
2468088 AAGTTGGATAA
66 GAGTTGGATAA
* *
2468099 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCTATCCTCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
*
2468164 GAGATGGATAAA
66 GAGTTGGAT-AA
* * **
2468176 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCTACCCTTTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
* * *
2468241 AAGTTAGATAG
66 GAGTTGGATAA
2468252 CAAGTCTTTATCTCT
1 CAAGTCTTTATCTCT
2468267 CTGAAGAGCA
Statistics
Matches: 490, Mismatches: 41, Indels: 19
0.89 0.07 0.03
Matches are distributed among these distances:
69 58 0.12
70 2 0.00
71 2 0.00
72 1 0.00
73 1 0.00
74 2 0.00
75 68 0.14
76 282 0.58
77 74 0.15
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (76 bp):
CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
GAGTTGGATAA
Found at i:2467854 original size:183 final size:182
Alignment explanation
Indices: 2467497--2468213 Score: 524
Period size: 183 Copynumber: 3.9 Consensus size: 182
2467487 ATCAGACCGC
* *
2467497 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAA
* * *
2467562 ATTGAAGTAAGACCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTT
66 ATTGAAGTAAGACCAAGATCA-GTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTT
*
2467627 TATCTCTGAAATTGAAGTAAGAGCAAGATCTTTATCTCTGAAATTGAAGTAAG
130 TATCTCTGAAATTGAAGTAAGAGCAAGATCTTTATCGCTGAAATTGAAGTAAG
*
2467680 AGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAA
* * *
2467745 GTTGAAGTAAGAGC-A-A-C-GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTT
66 ATTGAAGTAAGACCAAGATCAGTCCTATCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTT
*
2467804 TATCTCTGAAATTGAAGTCAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT-AG
130 TATCTCTGAAATTGAAGTAAGAGCAAGATC--TT--TAT-CGC-TGAAATTGAAGTAAG
*** ** * * *** ***
2467862 AGTTGGATAACACGT-CTTTAC-CTCTGAAATTGAAGTAAGAGCAAGAT--CTTTTCC--TATCC
1 AGCAAGAT--CATTTCCTATCCGCT-TGAAATTGAAGT-AGAGTTGGATAAC-ACGCCTTTAT-C
* **** * ** * *
2467921 GCTTGAAATTGAAGT-AGAGTTGGATAACACGTCTTTAT-TTC-TGAAATTGAAGTA-AGAGCA-
60 TC-TGAAATTGAAGTAAGACCAAGAT--CA-GTC-CTATCCGCTTGAAATTGAAGTAGAGTGGAT
* * * * * *
2467981 AGA-TA-TTTTCCTATCCGCTTGAAAGTGAAGTAGAGTGGATAACAAG-TCTTTATCTCTGAAAT
120 A-ACAAGTCTT--TAT-CTC-TGAAATTGAAGTA-A---G--AGCAAGATCTTTATCGCTGAAAT
2468043 TGAAGTAAG
174 TGAAGTAAG
* * * * * * * *
2468052 AGCAATATCTTTTCCTATCCGCTCGAAATCGAAGCAAAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAA
* *
2468117 ATTGAAGTAAGAGCAAGATC-GTTTCCTATCCTCTTGAAATTGAAGTAGAGATGGATAAACAAGT
66 ATTGAAGTAAGACCAAGATCAG--TCCTATCCGCTTGAAATTGAAGTAGAG-TGGAT-AACAAGT
2468181 CTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
127 CTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
2468214 GTTTCCTACC
Statistics
Matches: 405, Mismatches: 75, Indels: 106
0.69 0.13 0.18
Matches are distributed among these distances:
176 22 0.05
177 43 0.11
178 1 0.00
179 2 0.00
180 1 0.00
181 7 0.02
182 19 0.05
183 115 0.28
184 15 0.04
185 2 0.00
186 5 0.01
187 6 0.01
188 18 0.04
189 58 0.14
190 58 0.14
191 12 0.03
192 6 0.01
193 4 0.01
194 4 0.01
195 2 0.00
196 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (182 bp):
AGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAA
ATTGAAGTAAGACCAAGATCAGTCCTATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTT
ATCTCTGAAATTGAAGTAAGAGCAAGATCTTTATCGCTGAAATTGAAGTAAG
Found at i:2468098 original size:151 final size:152
Alignment explanation
Indices: 2467650--2468266 Score: 917
Period size: 151 Copynumber: 4.1 Consensus size: 152
2467640 GAAGTAAGAG
2467650 CAAGATCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT
1 CAAG-TCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT
* * * *
2467715 AGAGTTGGATAACACGCCTTTATCTCTGAAGTTGAAGTAAGAGC-A-A-C--GT-C-ATCCGCTT
65 AGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTT
* *
2467773 GAAATTGAAGTAGAGTTGGATAT
130 GAAATTGAAGTAAAGTTGGATAA
*
2467796 CAAGTCTTTATCTCTGAAATTGAAGTCAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
* *
2467861 GAGTTGGATAACACGTCTTTACCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTG
66 GAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTG
*
2467926 AAATTGAAGTAGAGTTGGATAA
131 AAATTGAAGTAAAGTTGGATAA
* * * *
2467948 CACGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGATATTTTCCTATCCGCTTGAAAGTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
* *
2468013 GAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATATCTTTTCCTATCCGCTCG
66 GAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTG
* *
2468077 AAATCGAAGCAAAGTTGGATAA
131 AAATTGAAGTAAAGTTGGATAA
* *
2468099 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCTATCCTCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
* * * **
2468164 GAGATGGATAAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCTACCCTTTT
66 GAGTTGGAT-AACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTT
* *
2468229 GAAATTGAAGTAAAGTTAGATAG
130 GAAATTGAAGTAAAGTTGGATAA
2468252 CAAGTCTTTATCTCT
1 CAAGTCTTTATCTCT
2468267 CTGAAGAGCA
Statistics
Matches: 428, Mismatches: 34, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
145 100 0.23
146 5 0.01
147 1 0.00
148 1 0.00
150 1 0.00
151 139 0.32
152 98 0.23
153 83 0.19
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (152 bp):
CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
GAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTG
AAATTGAAGTAAAGTTGGATAA
Found at i:2468124 original size:227 final size:226
Alignment explanation
Indices: 2467650--2468266 Score: 915
Period size: 227 Copynumber: 2.7 Consensus size: 226
2467640 GAAGTAAGAG
2467650 CAAGATCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT
1 CAAG-TCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGT
* *
2467715 AGAGTTGGATAACACGCCTTTATCTCTGAAGTTGAAGTAAGAGCAACG----T-C-ATCCGCTTG
65 AGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA-GATTTTCCTATCCGCTTG
* *
2467774 AAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTCAGAGCAAGATCTTTTC
129 AAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTC
* * * *
2467839 CTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
194 CTATCCGCTCGAAATCGAAGCAAAGTTGGATAA
* *
2467872 CACGTCTTTACCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
*
2467937 GAGTTGGATAACACGTCTTTATTTCTGAAATTGAAGTAAGAGCAAGATATTTTCCTATCCGCTTG
66 GAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG--ATTTTCCTATCCGCTTG
* *
2468002 AAAGTGAAGTAGAG-TGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAATATCTTTTC
129 AAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTC
2468066 CTATCCGCTCGAAATCGAAGCAAAGTTGGATAA
194 CTATCCGCTCGAAATCGAAGCAAAGTTGGATAA
* *
2468099 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCTATCCTCTTGAAATTGAAGTA
1 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
* * * **
2468164 GAGATGGATAAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCTACCCTTTT
66 GAGTTGGAT-AACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGAT--TTTCCTATCCGCTT
* * *
2468229 GAAATTGAAGTAAAGTTAGATAGCAAGTCTTTATCTCT
128 GAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT
2468267 CTGAAGAGCA
Statistics
Matches: 356, Mismatches: 27, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
220 1 0.00
221 102 0.29
222 3 0.01
226 3 0.01
227 146 0.41
228 81 0.23
229 20 0.06
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (226 bp):
CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTA
GAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATTTTCCTATCCGCTTGAA
ATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCT
ATCCGCTCGAAATCGAAGCAAAGTTGGATAA
Found at i:2468599 original size:17 final size:17
Alignment explanation
Indices: 2468551--2468599 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
2468541 ATTTAATTTT
2468551 TAAATTTAAATTTA-CA
1 TAAATTTAAATTTATCA
* *
2468567 TAAAATTTAAGTTTATTA
1 T-AAATTTAAATTTATCA
2468585 TAAATTTAAATTTAT
1 TAAATTTAAATTTAT
2468600 AAATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 25 0.89
18 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TAAATTTAAATTTATCA
Found at i:2468608 original size:13 final size:14
Alignment explanation
Indices: 2468540--2468609 Score: 54
Period size: 17 Copynumber: 4.7 Consensus size: 14
2468530 AATAGGATAT
*
2468540 AATTT-AATTTTTA
1 AATTTAAATTTATA
2468553 AATTTAAATTTACATAA
1 AATTTAAATTT--AT-A
*
2468570 AATTTAAGTTTATTATA
1 AATTTAA--AT-TTATA
2468587 AATTTAAATTTATA
1 AATTTAAATTTATA
2468601 AA-TTAAATT
1 AATTTAAATT
2468610 AAAAAAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.26
14 12 0.26
15 1 0.02
16 1 0.02
17 16 0.34
18 2 0.04
19 1 0.02
20 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (14 bp):
AATTTAAATTTATA
Found at i:2469267 original size:15 final size:16
Alignment explanation
Indices: 2469247--2469282 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2469237 ATTCTGCCAT
*
2469247 TAATAGCATTAAT-AA
1 TAATAGCAGTAATAAA
2469262 TAATAGCAGTAATAAA
1 TAATAGCAGTAATAAA
2469278 TAATA
1 TAATA
2469283 TTGATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (16 bp):
TAATAGCAGTAATAAA
Found at i:2470478 original size:29 final size:29
Alignment explanation
Indices: 2470446--2470665 Score: 131
Period size: 29 Copynumber: 7.5 Consensus size: 29
2470436 AAAAACTTTC
*
2470446 CAAAATTCCATTTTTAACCCCGGTTTCAT
1 CAAAATTCCATTTTTAACCCCGATTTCAT
*
2470475 CAAAAATTACCA-TTTT-ACCCCTAAACTTTC--
1 C-AAAATT-CCATTTTTAACCCC--GA-TTTCAT
2470505 CAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAATTCCATTTTTAACCCCGATTTCAT
*
2470534 CAAAATTACCA-TTTT-ACCCCTAAACTTTC-T
1 CAAAATT-CCATTTTTAACCCC--GA-TTTCAT
*
2470564 -AAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAATTCCATTTTTAACCCCGATTTCAT
** **
2470592 CAAAAATTAGGA-TTTT-ACTCCCGAACTC-T
1 C-AAAATT-CCATTTTTAAC-CCCGATTTCAT
**
2470621 CAAAAATTCCATTTTTAACCTTGATTTCA-
1 C-AAAATTCCATTTTTAACCCCGATTTCAT
2470650 CAAAAATTACCATTTT
1 C-AAAATT-CCATTTT
2470666 GCCCCCGGGT
Statistics
Matches: 150, Mismatches: 17, Indels: 47
0.70 0.08 0.22
Matches are distributed among these distances:
27 8 0.05
28 14 0.09
29 64 0.43
30 52 0.35
31 8 0.05
32 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
CAAAATTCCATTTTTAACCCCGATTTCAT
Found at i:2470568 original size:58 final size:59
Alignment explanation
Indices: 2470418--2470670 Score: 350
Period size: 59 Copynumber: 4.3 Consensus size: 59
2470408 GGACGATCCG
* ** *
2470418 AAAATTACCATTTTGCCCAAAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
2470477 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC-
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* *
2470535 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
** * * * **
2470594 AAAATTAGGATTTTACTCCC-GAACTCTCAAAAATTCCATTTTTAACCTTGATTTCA-CA
1 AAAATTACCATTTTAC-CCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
*
2470652 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
2470671 CGGGTATCCA
Statistics
Matches: 176, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
57 3 0.02
58 71 0.40
59 99 0.56
60 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
Found at i:2470627 original size:117 final size:117
Alignment explanation
Indices: 2470418--2470670 Score: 357
Period size: 117 Copynumber: 2.2 Consensus size: 117
2470408 GGACGATCCG
* * *
2470418 AAAATTACCATTTTGCCCAAAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCAAAAATT
1 AAAATTACCATTTTGCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
* *
2470483 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC-
66 ACCATTTTACCCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCA-CA
* * *
2470535 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTGCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
** * **
2470600 AGGATTTTACTCCC-GAACTCTCAAAAATTCCATTTTTAACCTTGATTTCACA
66 ACCATTTTAC-CCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACA
2470652 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTGCCCC
2470671 CGGGTATCCA
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
116 1 0.01
117 116 0.97
118 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (117 bp):
AAAATTACCATTTTGCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCACA
Found at i:2470699 original size:117 final size:117
Alignment explanation
Indices: 2470418--2470707 Score: 316
Period size: 117 Copynumber: 2.5 Consensus size: 117
2470408 GGACGATCCG
* ** * * * *
2470418 AAAATTACCATTTTGCCCAAAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCAAAAATT
1 AAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
* *
2470483 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
66 ACCATTTTACCCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATC
* * *
2470535 AAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATT
1 AAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
** * **
2470600 AGGATTTTACTCCC-GAACTCTCAAAAATTCCATTTTTAACCTTGATTTCA-C
66 ACCATTTTAC-CCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATC
* **** * *
2470651 AAAAATTACCATTTTGCCCC-CGGGTATCCAAAAGTCCCGTTTTCAACCCCGATTTCA
1 -AAAATTACCATTTTACCCCTAAACTATCCAAAA-TCCCATTTTTAACCCCGATTTCA
2470708 TCGTTTCTTC
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
116 8 0.05
117 136 0.93
118 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCTAAACTATCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATT
ACCATTTTACCCCTAAACTCTCAAAAATTCCATTTTTAACCCCGATTTCATC
Found at i:2499604 original size:6 final size:6
Alignment explanation
Indices: 2499593--2499619 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2499583 GCTGCCTTTG
2499593 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
2499620 GGCGCTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:2499964 original size:18 final size:18
Alignment explanation
Indices: 2499938--2499988 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
2499928 GGTTCCTTCA
*
2499938 TTTCATTCTCTTCTTTTT
1 TTTCATTCTCTTCTTCTT
*
2499956 TTTCTTTCT-TCTCTTCTT
1 TTTCATTCTCT-TCTTCTT
*
2499974 TTTCCTTCTTCTTCT
1 TTTCATTC-TCTTCT
2499989 GCTGGTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.04
18 21 0.78
19 4 0.15
20 1 0.04
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCATTCTCTTCTTCTT
Found at i:2499985 original size:21 final size:21
Alignment explanation
Indices: 2499933--2499988 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
2499923 CGATAGGTTC
2499933 CTTCATTTCATTCTCTTCTTTTT
1 CTTC-TTTC-TTCTCTTCTTTTT
*
2499956 TTTCTTTCTTCTCTTCTTTTT
1 CTTCTTTCTTCTCTTCTTTTT
2499977 CCTTC-TTCTTCT
1 -CTTCTTTCTTCT
2499989 GCTGGTTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 20 0.67
22 7 0.23
23 3 0.10
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.68
Consensus pattern (21 bp):
CTTCTTTCTTCTCTTCTTTTT
Found at i:2502994 original size:14 final size:14
Alignment explanation
Indices: 2502975--2503009 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2502965 CTTTAACCAG
2502975 CAACAATCTACAAA
1 CAACAATCTACAAA
2502989 CAACAATCTACAAA
1 CAACAATCTACAAA
2503003 CAACAAT
1 CAACAAT
2503010 AACATCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (14 bp):
CAACAATCTACAAA
Found at i:2507003 original size:4 final size:4
Alignment explanation
Indices: 2506996--2507032 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
2506986 TTATAACCTT
* *
2506996 TCAA TCAA TCAA TCAA TCCA TCAA TCAA TCAG TCAA T
1 TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA T
2507033 AATTAAATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (4 bp):
TCAA
Found at i:2510393 original size:20 final size:20
Alignment explanation
Indices: 2510357--2510394 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2510347 AAAGAATGTA
*
2510357 AAACAAAACAAGTAAAATTG
1 AAACAAAACAAGGAAAATTG
2510377 AAACAAATA-AAGGAAAAT
1 AAACAAA-ACAAGGAAAAT
2510395 GTAAAAGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.13
Consensus pattern (20 bp):
AAACAAAACAAGGAAAATTG
Found at i:2527494 original size:13 final size:13
Alignment explanation
Indices: 2527476--2527541 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
2527466 CTTAAACCAA
2527476 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
*
2527489 ACTTTTCAAAATT
1 ACTTTTCAAAAGT
*
2527502 CCTTTTCCAAAA-T
1 ACTTTT-CAAAAGT
* *
2527515 ACTTTTTAAAAGC
1 ACTTTTCAAAAGT
*
2527528 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
2527541 A
1 A
2527542 ATGTTAAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 4 0.09
13 34 0.79
14 5 0.12
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:2528649 original size:6 final size:6
Alignment explanation
Indices: 2528638--2528668 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2528628 TATTGGGCAT
*
2528638 AACAGG AACAGG AACAGG AACAGG AAGAGG A
1 AACAGG AACAGG AACAGG AACAGG AACAGG A
2528669 GTAGGACGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.52, C:0.13, G:0.35, T:0.00
Consensus pattern (6 bp):
AACAGG
Found at i:2530393 original size:24 final size:24
Alignment explanation
Indices: 2530366--2530412 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
2530356 ATCAAGGGAG
*
2530366 GTTAAGGAAGATGGAAGGTTAAAA
1 GTTAAGGAAAATGGAAGGTTAAAA
2530390 GTTAAGGAAAATGGAAGGTTAAA
1 GTTAAGGAAAATGGAAGGTTAAA
2530413 GATGAAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (24 bp):
GTTAAGGAAAATGGAAGGTTAAAA
Found at i:2541766 original size:6 final size:6
Alignment explanation
Indices: 2541755--2541786 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
2541745 ATTGTAAAGC
2541755 ATAATT ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT AT
2541787 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:2541883 original size:6 final size:6
Alignment explanation
Indices: 2541872--2541915 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
2541862 TTTTTAACTA
**
2541872 ATAATT ATAATT ATAATT ATAATT ATTTTT A-AATAT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT-T ATAATT AT
2541916 CACAACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 1 0.03
6 28 0.88
7 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATAATT
Found at i:2542253 original size:43 final size:43
Alignment explanation
Indices: 2542191--2542290 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
2542181 ACAAACCCCG
* **
2542191 CAAACGTCGCTGAAGAACATGGTCTTTAGCGGTGCTT-TCTCCA
1 CAAACGTCGCTAAAGAACATGGTCTTTAGCGACGCTTCTC-CCA
* *
2542234 TAAACGCCGCTAAAGAACATGGTCTTTAGCGACGCTTCTCCCA
1 CAAACGTCGCTAAAGAACATGGTCTTTAGCGACGCTTCTCCCA
2542277 CAAACGTCGCTAAA
1 CAAACGTCGCTAAA
2542291 ATTAACAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
CAAACGTCGCTAAAGAACATGGTCTTTAGCGACGCTTCTCCCA
Found at i:2542572 original size:21 final size:21
Alignment explanation
Indices: 2542543--2542596 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
2542533 GCCTCTGCTT
*
2542543 CCCTCGCTGCTAACTTTACTA
1 CCCTCGCTGCTAACTTCACTA
* **
2542564 CCCTTGCTGCTGCCTTCACTA
1 CCCTCGCTGCTAACTTCACTA
*
2542585 CCCTCGTTGCTA
1 CCCTCGCTGCTA
2542597 CCTCCGCTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.13, T:0.33
Consensus pattern (21 bp):
CCCTCGCTGCTAACTTCACTA
Found at i:2544105 original size:25 final size:23
Alignment explanation
Indices: 2544077--2544122 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
2544067 GTTGGATCCA
2544077 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
2544102 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
2544123 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:2545170 original size:14 final size:15
Alignment explanation
Indices: 2545145--2545175 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2545135 GTCAAACACA
2545145 CTTTTGTCTTTTTTT
1 CTTTTGTCTTTTTTT
2545160 CTTTT-TCTTTTTTT
1 CTTTTGTCTTTTTTT
2545174 CT
1 CT
2545176 CATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (15 bp):
CTTTTGTCTTTTTTT
Found at i:2546127 original size:5 final size:5
Alignment explanation
Indices: 2546117--2546164 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
2546107 ATTGCATAAT
*
2546117 TAAAA TAAAA TTAAAAA TAAAA TAAAA TAAAA CTAAAA -AAAA GAAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA -TAAAA TAAAA TAAAA
2546164 T
1 T
2546165 GAATATGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
4 4 0.11
5 23 0.61
6 7 0.18
7 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:2546137 original size:17 final size:16
Alignment explanation
Indices: 2546117--2546163 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2546107 ATTGCATAAT
2546117 TAAAATAAAATTAAAAA
1 TAAAATAAAA-TAAAAA
*
2546134 TAAAATAAAATAAAAC
1 TAAAATAAAATAAAAA
*
2546150 TAAAA-AAAAGAAAA
1 TAAAATAAAATAAAA
2546164 TGAATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.29
16 10 0.36
17 10 0.36
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:2550927 original size:13 final size:13
Alignment explanation
Indices: 2550906--2550940 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2550896 TAAATAATAT
2550906 AATAATAATCCTA
1 AATAATAATCCTA
*
2550919 AATATTAATCCTA
1 AATAATAATCCTA
*
2550932 AAAAATAAT
1 AATAATAAT
2550941 GTTTAAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:2552683 original size:41 final size:41
Alignment explanation
Indices: 2552625--2552751 Score: 166
Period size: 41 Copynumber: 3.1 Consensus size: 41
2552615 GATTTACGTA
* *
2552625 CGCCGTTAATGCGCTAACCTTTAGCGGCGCTTTCTCATAAG
1 CGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTCTCATAAG
* * * * *
2552666 CGCCGCTAATTCTCTAACCTTTAGCAGTGTTTTCCCATAAG
1 CGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTCTCATAAG
*
2552707 CGCCGCTAATGCTCTGACCTTTAGCGGCGCTTT-TCCATAAG
1 CGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTCT-CATAAG
2552748 CGCC
1 CGCC
2552752 ACTATTGTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (41 bp):
CGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTCTCATAAG
Found at i:2563684 original size:25 final size:23
Alignment explanation
Indices: 2563656--2563702 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
2563646 AGTTGGATCC
2563656 AAATTAAATTCTAAAAAGATAATTA
1 AAATTAAA-TCTAAAAA-ATAATTA
*
2563681 AAATTAAATCTAAATAATAATT
1 AAATTAAATCTAAAAAATAATT
2563703 CCCTAATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATTAAATCTAAAAAATAATTA
Found at i:2563793 original size:13 final size:13
Alignment explanation
Indices: 2563772--2563805 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2563762 ATAATATAAC
2563772 AATAATAATCCTA
1 AATAATAATCCTA
*
2563785 AATATTAATCCTA
1 AATAATAATCCTA
*
2563798 AAAAATAA
1 AATAATAA
2563806 AATTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:2568236 original size:9 final size:8
Alignment explanation
Indices: 2568221--2568263 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
2568211 AAAATTTTTT
2568221 TATAAAAA
1 TATAAAAA
2568229 TCATAAAAA
1 T-ATAAAAA
2568238 TTATAAAATA
1 -TATAAAA-A
*
2568248 TATAGAAA
1 TATAAAAA
2568256 TATAAAAA
1 TATAAAAA
2568264 AAATTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 9 0.30
9 19 0.63
10 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (8 bp):
TATAAAAA
Found at i:2568259 original size:17 final size:18
Alignment explanation
Indices: 2568220--2568263 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2568210 AAAAATTTTT
2568220 TTATAAAAATCATAAAAA
1 TTATAAAAATCATAAAAA
*
2568238 TTATAAAATAT-ATAGAAA
1 TTATAAAA-ATCATAAAAA
2568256 -TATAAAAA
1 TTATAAAAA
2568264 AAATTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.04
17 7 0.29
18 14 0.58
19 2 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TTATAAAAATCATAAAAA
Found at i:2568924 original size:31 final size:30
Alignment explanation
Indices: 2568868--2568928 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
2568858 TTTTGTGCCT
* *
2568868 CTCTAAAAAAATAATAATTTAACATAAACA
1 CTCTAAAAAAATAAAAAATTAACATAAACA
2568898 CTCTAAAAAATATATAAAAATT-ACATAAACA
1 CTCTAAAAAA-ATA-AAAAATTAACATAAACA
2568929 ATTGCTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 10 0.37
31 12 0.44
32 5 0.19
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (30 bp):
CTCTAAAAAAATAAAAAATTAACATAAACA
Found at i:2571176 original size:39 final size:40
Alignment explanation
Indices: 2571122--2571201 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
2571112 TATGCACTCA
*
2571122 ATGGACACCTTTTGAAGAGTCACAAC-CCTTTCAAATTGG
1 ATGGACACCTATTGAAGAGTCACAACTCCTTTCAAATTGG
* *
2571161 ATGGACACCTATTGAAGAGTCACAACTCTTTTCATATTGG
1 ATGGACACCTATTGAAGAGTCACAACTCCTTTCAAATTGG
2571201 A
1 A
2571202 CATACCTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 25 0.68
40 12 0.32
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (40 bp):
ATGGACACCTATTGAAGAGTCACAACTCCTTTCAAATTGG
Found at i:2571217 original size:39 final size:38
Alignment explanation
Indices: 2571126--2571218 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
2571116 CACTCAATGG
* *
2571126 ACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGATGG
1 ACACCTATTGAAGAGTCACAACCCTTTCAAATTGGA-GC
* *
2571165 ACACCTATTGAAGAGTCACAACTCTTTTCATATTGGA-C
1 ACACCTATTGAAGAGTCACAAC-CCTTTCAAATTGGAGC
* *
2571203 ATACCTCTTGGAAGAG
1 ACACCTATT-GAAGAG
2571219 ATTTGTCCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 7 0.15
39 27 0.59
40 12 0.26
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (38 bp):
ACACCTATTGAAGAGTCACAACCCTTTCAAATTGGAGC
Found at i:2572551 original size:18 final size:17
Alignment explanation
Indices: 2572515--2572559 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2572505 ACATTTAGTC
2572515 TTATATTTTATTTATAT
1 TTATATTTTATTTATAT
2572532 TTATATTTTCATTT-TCAT
1 TTATATTTT-ATTTAT-AT
*
2572550 TTTTATTTTA
1 TTATATTTTA
2572560 CTATGCACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTTATTTATAT
Found at i:2573671 original size:25 final size:25
Alignment explanation
Indices: 2573618--2573664 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
2573608 GTTGGATCCA
2573618 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
2573643 AATTAAA-TCTAAACA-ATAATTT
1 AATTAAATTCTAAAAAGATAATTT
2573665 CCTAATTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:2574380 original size:34 final size:34
Alignment explanation
Indices: 2574325--2574392 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
2574315 CATACCCAAA
2574325 ATTGAAGTCTTTTTTTTTTAATTT-GGAATTTTT
1 ATTGAAGTCTTTTTTTTTTAATTTGGGAATTTTT
*
2574358 ATTGATGT-TTTTTTTTGATTAATTTGGGAATTTTT
1 ATTGAAGTCTTTTTTTT--TTAATTTGGGAATTTTT
2574393 GTGTATTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 8 0.26
33 7 0.23
34 7 0.23
35 9 0.29
ACGTcount: A:0.21, C:0.01, G:0.15, T:0.63
Consensus pattern (34 bp):
ATTGAAGTCTTTTTTTTTTAATTTGGGAATTTTT
Found at i:2576490 original size:86 final size:85
Alignment explanation
Indices: 2576384--2576567 Score: 244
Period size: 86 Copynumber: 2.2 Consensus size: 85
2576374 GCTTATCTAT
* * * *
2576384 AAACACTGCTAAAGAACATGGTCTTTAGCGGTATTTTTCC-CACAAACGCCACTAAAGTACGTAG
1 AAACACCGCTAAAGAACATGGTCTTTAGCGG-AGTTTTCCACACAAACGCCACTAAAGAACATAG
*
2576448 TCTTTAGCGACGCTTTCCCCAC
65 T-TTTAGCGACGCTTTCCACAC
* * * *
2576470 AAACACCGCTAAAGAACATGGTTTTTAGCGGCGTTTTCCACACAAACGTCACTAAAGAACATGGT
1 AAACACCGCTAAAGAACATGGTCTTTAGCGGAGTTTTCCACACAAACGCCACTAAAGAACATAGT
*
2576535 TTTAGCGGCGCTTTCCACAC
66 TTTAGCGACGCTTTCCACAC
*
2576555 AAACGCCGCTAAA
1 AAACACCGCTAAA
2576568 ATTAACATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
85 36 0.42
86 50 0.58
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
AAACACCGCTAAAGAACATGGTCTTTAGCGGAGTTTTCCACACAAACGCCACTAAAGAACATAGT
TTTAGCGACGCTTTCCACAC
Found at i:2576551 original size:42 final size:43
Alignment explanation
Indices: 2576392--2576567 Score: 203
Period size: 43 Copynumber: 4.1 Consensus size: 43
2576382 ATAAACACTG
***
2576392 CTAAAGAACATGGTCTTTAGCGGTATTTTTCC-CACAAACGCCA
1 CTAAAGAACATGGTCTTTAGCGG-CGCTTTCCACACAAACGCCA
* * * * * * *
2576435 CTAAAGTACGTAGTCTTTAGCGACGCTTTCCCCACAAACACCG
1 CTAAAGAACATGGTCTTTAGCGGCGCTTTCCACACAAACGCCA
* * *
2576478 CTAAAGAACATGGTTTTTAGCGGCGTTTTCCACACAAACGTCA
1 CTAAAGAACATGGTCTTTAGCGGCGCTTTCCACACAAACGCCA
*
2576521 CTAAAGAACATGGT-TTTAGCGGCGCTTTCCACACAAACGCCG
1 CTAAAGAACATGGTCTTTAGCGGCGCTTTCCACACAAACGCCA
2576563 CTAAA
1 CTAAA
2576568 ATTAACATAT
Statistics
Matches: 110, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
42 35 0.32
43 75 0.68
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CTAAAGAACATGGTCTTTAGCGGCGCTTTCCACACAAACGCCA
Found at i:2582522 original size:22 final size:22
Alignment explanation
Indices: 2582494--2582585 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 22
2582484 GGTTGTTTTT
2582494 TATAATTAAATATTTAATTAAA
1 TATAATTAAATATTTAATTAAA
2582516 TATAATT-AA-A--TAATTAAA
1 TATAATTAAATATTTAATTAAA
* * *
2582534 TATAATTAAATAATTAAAT-AT
1 TATAATTAAATATTTAATTAAA
*
2582555 TTTAAATTAAATATTTAATTAAA
1 TAT-AATTAAATATTTAATTAAA
2582578 TATAATTA
1 TATAATTA
2582586 TTTAATTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
18 15 0.26
19 2 0.04
20 2 0.04
21 5 0.09
22 30 0.53
23 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAATTAAATATTTAATTAAA
Found at i:2582528 original size:8 final size:8
Alignment explanation
Indices: 2582495--2582553 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
2582485 GTTGTTTTTT
2582495 ATAATTAA
1 ATAATTAA
*
2582503 ATATTTAA
1 ATAATTAA
* *
2582511 TTAA--AT
1 ATAATTAA
2582517 ATAATTAA
1 ATAATTAA
2582525 ATAATTAAA
1 ATAATT-AA
2582534 TATAATTAA
1 -ATAATTAA
2582543 ATAATTAA
1 ATAATTAA
2582551 ATA
1 ATA
2582554 TTTTAAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
6 4 0.10
8 27 0.66
9 4 0.10
10 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATTAA
Found at i:2582531 original size:18 final size:18
Alignment explanation
Indices: 2582508--2582554 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
2582498 ATTAAATATT
2582508 TAATTAAATATAATTAAA
1 TAATTAAATATAATTAAA
2582526 TAATTAAATATAATTAAA
1 TAATTAAATATAATTAAA
2582544 TAATTAAATAT
1 TAATTAAATAT
2582555 TTTAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAATATAATTAAA
Found at i:2582552 original size:26 final size:26
Alignment explanation
Indices: 2582495--2582579 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 26
2582485 GTTGTTTTTT
2582495 ATAATTAAATATTTAATTAAATATAATTAA
1 ATAATTAAATA--TAATT-AA-ATAATTAA
2582525 ATAATTAAATATAATTAAATAATTAA
1 ATAATTAAATATAATTAAATAATTAA
* * **
2582551 ATATTTTAAAT-TAAATATTTAATTAA
1 ATA-ATTAAATATAATTAAATAATTAA
2582577 ATA
1 ATA
2582580 TAATTATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 26 0.52
27 8 0.16
28 5 0.10
30 11 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATTAAATATAATTAAATAATTAA
Found at i:2582580 original size:26 final size:23
Alignment explanation
Indices: 2582492--2582580 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 23
2582482 TGGGTTGTTT
2582492 TTTATAATTAAATATTTAATTAAATA
1 TTTA-AATTAAATA--TAATTAAATA
2582518 --T-AATT-AA-ATAATTAAATA
1 TTTAAATTAAATATAATTAAATA
2582536 T---AATT-AA-ATAATTAAATA
1 TTTAAATTAAATATAATTAAATA
2582554 TTTTAAATTAAATATTTAATTAAATA
1 -TTTAAATTAAATA--TAATTAAATA
2582580 T
1 T
2582581 AATTATTTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
18 27 0.50
19 1 0.02
20 1 0.02
21 2 0.04
22 8 0.15
23 2 0.04
24 2 0.04
25 1 0.02
26 10 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAATTAAATATAATTAAATA
Found at i:2582589 original size:18 final size:18
Alignment explanation
Indices: 2582504--2582598 Score: 84
Period size: 18 Copynumber: 5.8 Consensus size: 18
2582494 TATAATTAAA
2582504 TATTTAATTAAATATAAT
1 TATTTAATTAAATATAAT
**
2582522 TAAATAATTAAATATAAT
1 TATTTAATTAAATATAAT
*
2582540 TA---AA-T-AAT-TAAA
1 TATTTAATTAAATATAAT
*
2582552 TA-TT--TTAAAT-TAAA
1 TATTTAATTAAATATAAT
2582566 TATTTAATTAAATATAAT
1 TATTTAATTAAATATAAT
2582584 TATTTAATTAAATAT
1 TATTTAATTAAATAT
2582599 TTATTCATCA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
12 5 0.08
13 4 0.06
14 10 0.15
15 4 0.06
17 6 0.09
18 36 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTTAATTAAATATAAT
Found at i:2587131 original size:17 final size:16
Alignment explanation
Indices: 2587100--2587133 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2587090 AATCAAGTCT
*
2587100 TATTTTTTAATATAAA
1 TATTTTTTAAAATAAA
2587116 TATTTTTTATAAATAAA
1 TATTTTTTA-AAATAAA
2587133 T
1 T
2587134 TTATACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTTTAAAATAAA
Found at i:2588231 original size:33 final size:33
Alignment explanation
Indices: 2588194--2588263 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
2588184 TTGGTTGCTG
*
2588194 TTTT-TTACTATTTTTGTGTTGTTTTTGTTGTTAT
1 TTTTATTACTA-TTTT-TATTGTTTTTGTTGTTAT
*
2588228 TTTTATTACTATTTTTATTGTTTTTGTTGTTGT
1 TTTTATTACTATTTTTATTGTTTTTGTTGTTAT
2588261 TTT
1 TTT
2588264 GCTGTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 19 0.58
34 8 0.24
35 6 0.18
ACGTcount: A:0.10, C:0.03, G:0.13, T:0.74
Consensus pattern (33 bp):
TTTTATTACTATTTTTATTGTTTTTGTTGTTAT
Found at i:2588293 original size:44 final size:44
Alignment explanation
Indices: 2588204--2588306 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 44
2588194 TTTTTTACTA
* * *
2588204 TTTTTG-TGTTGTTTTTGTTGTTATTTTTATTACTATTTTTATTG
1 TTTTTGTTGTTG-TTTTGCTGTTATTTTTATTACTACTTTGATTG
* *
2588248 TTTTTGTTGTTGTTTTGCTGTTATTTTTTATT-CTGCTTTGGTTG
1 TTTTTGTTGTTGTTTTGCTGTTA-TTTTTATTACTACTTTGATTG
2588292 TTATTT-TTGTTGTTT
1 TT-TTTGTTGTTGTTT
2588307 GGATATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 35 0.69
45 16 0.31
ACGTcount: A:0.08, C:0.04, G:0.17, T:0.72
Consensus pattern (44 bp):
TTTTTGTTGTTGTTTTGCTGTTATTTTTATTACTACTTTGATTG
Found at i:2588305 original size:12 final size:12
Alignment explanation
Indices: 2588202--2588261 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
2588192 TGTTTTTTAC
2588202 TATTTTTG-TGT
1 TATTTTTGTTGT
*
2588213 TGTTTTTGTTGT
1 TATTTTTGTTGT
* **
2588225 TATTTTTATTAC
1 TATTTTTGTTGT
*
2588237 TATTTTTATTGT
1 TATTTTTGTTGT
2588249 T-TTTGTTGTTGT
1 TATTT-TTGTTGT
2588261 T
1 T
2588262 TTGCTGTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
11 10 0.26
12 29 0.74
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (12 bp):
TATTTTTGTTGT
Found at i:2591379 original size:3 final size:3
Alignment explanation
Indices: 2591368--2591400 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
2591358 CTCCTCCTCC
2591368 TCT TCCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TC
2591401 AACAACTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:2604295 original size:25 final size:24
Alignment explanation
Indices: 2604267--2604326 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
2604257 CTTGAAGTTA
*
2604267 ATATTTTTTTTAT-ATATTTTATTAT
1 ATATTTTTTTTATAAT-TTTTA-AAT
2604292 ATATTTATTTTTATAATTTTTAAAT
1 ATATTT-TTTTTATAATTTTTAAAT
2604317 ATATTTTTTT
1 ATATTTTTTT
2604327 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 14 0.44
26 12 0.38
27 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
ATATTTTTTTTATAATTTTTAAAT
Found at i:2604306 original size:12 final size:11
Alignment explanation
Indices: 2604267--2604331 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
2604257 CTTGAAGTTA
2604267 ATATTTTTTTT
1 ATATTTTTTTT
2604278 ATATATTTTATTAT
1 ATAT-TTTT-TT-T
2604292 ATATTTATTTTT
1 ATATTT-TTTTT
* **
2604304 ATAATTTTTAA
1 ATATTTTTTTT
2604315 ATATATTTTTTT
1 ATAT-TTTTTTT
2604327 A-ATTT
1 ATATTT
2604332 AAAAATGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
10 2 0.05
11 12 0.28
12 16 0.37
13 6 0.14
14 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTTTTTTT
Found at i:2604337 original size:21 final size:21
Alignment explanation
Indices: 2604297--2604337 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2604287 ATTATATATT
**
2604297 TATTTTTATAATTTTTAAATA
1 TATTTTTATAATTTAAAAATA
*
2604318 TATTTTTTTAATTTAAAAAT
1 TATTTTTATAATTTAAAAAT
2604338 GCCACATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTTATAATTTAAAAATA
Found at i:2605621 original size:55 final size:54
Alignment explanation
Indices: 2605518--2605700 Score: 215
Period size: 55 Copynumber: 3.3 Consensus size: 54
2605508 ATCATGAATT
* *
2605518 GATTGTTATGTTGAAATATTGCTTTTTTTGAATCGATTGTTTT-TATGTTTAAATC
1 GATTGTCATGTTGAAATATTGCTTCTTTTGAATCG-TT-TTTTATATGTTTAAATC
* * * *
2605573 GACTGTCATGTTGAAATATTGATTCTTTTGAATCGTTTATTTAAATGTTTATATC
1 GATTGTCATGTTGAAATATTGCTTCTTTTGAATCGTTT-TTTATATGTTTAAATC
* * * *
2605628 GATTGTCATGTTAAAACACTGCTTCTTTTGAATTGGTTTTTTATATGTTTAAATC
1 GATTGTCATGTTGAAATATTGCTTCTTTTGAA-TCGTTTTTTATATGTTTAAATC
* *
2605683 GATTTTTATGTTGAAATA
1 GATTGTCATGTTGAAATA
2605701 CTATTTACTT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 5 0.05
55 96 0.90
56 5 0.05
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (54 bp):
GATTGTCATGTTGAAATATTGCTTCTTTTGAATCGTTTTTTATATGTTTAAATC
Found at i:2606561 original size:14 final size:15
Alignment explanation
Indices: 2606536--2606564 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2606526 TCTGTAAAAG
2606536 TTATATTTTTAATTT
1 TTATATTTTTAATTT
2606551 TTATA-TTTTAATTT
1 TTATATTTTTAATTT
2606565 GATCAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATATTTTTAATTT
Found at i:2616584 original size:42 final size:41
Alignment explanation
Indices: 2616502--2617028 Score: 427
Period size: 41 Copynumber: 12.8 Consensus size: 41
2616492 AAAGGTAAAG
** * * *
2616502 CATTAGCGGCGC-TTAACAAAAACGCCGCTAAAGGTAGGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
*
2616542 CATTAGCGGCGCTTTACCCACAAGCGCCGCTAAAGGTGGGGT
1 CATTAGCGGCGCTTT-CCCACAAGCGCCGCTAAAGGTCGGGT
** * **
2616584 CATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGTTCAAGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
* * *
2616625 CATTAGCGGCGCTTTCTCTA-ATGCGCCGCTAAAGGTAGGGT
1 CATTAGCGGCGCTTTC-CCACAAGCGCCGCTAAAGGTCGGGT
* **** * *
2616666 AATTAGCGGCGCTTGAGGGA-AAGCGCCGCTAAAGGCCAGGT
1 CATTAGCGGCGCTT-TCCCACAAGCGCCGCTAAAGGTCGGGT
* * * ** * ** *
2616707 AATTACCGACGCTTTAACTCAAGCGCCGCTAAAGGTATGAT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
** * *
2616748 CATTAGCGGCGCTTTCCCTGAAGCGCCACGAAAAGGTCGGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGC-TAAAGGTCGGGT
* * * * *
2616790 CATTAGTGGCGCTTTCCCTCAAGCACCGCTAAAGGTAGGAT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
* *
2616831 CATTTAGCGGCGCTTTCACTCAAGCGCCGCTAAAAGGTCGGGT
1 CA-TTAGCGGCGCTTTCCCACAAGCGCCGCT-AAAGGTCGGGT
* * * *
2616874 CATTAGCGGCGCTTTTCCTCAAGTGCCGCTAAAGTTCGGGT
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
** * *
2616915 CATTAGCGGCGCTTAT-ATATAAAGCGCCGCTAAAGGTCAGGT
1 CATTAGCGGCGCTT-TCCCA-CAAGCGCCGCTAAAGGTCGGGT
** * * *
2616957 CATTAGCGGCGCTTTTCTAATAAGCGTCGCTAAAGGT-GTG-
1 CATTAGCGGCGC-TTTCCCACAAGCGCCGCTAAAGGTCGGGT
* *
2616997 AATTAGCGGCGCTTTCCCATAAGCGCCGCTAA
1 CATTAGCGGCGCTTTCCCACAAGCGCCGCTAA
2617029 TTTATTTAAA
Statistics
Matches: 392, Mismatches: 83, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
39 17 0.04
40 23 0.06
41 171 0.44
42 167 0.43
43 14 0.04
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (41 bp):
CATTAGCGGCGCTTTCCCACAAGCGCCGCTAAAGGTCGGGT
Found at i:2616660 original size:82 final size:81
Alignment explanation
Indices: 2616462--2617028 Score: 481
Period size: 82 Copynumber: 6.9 Consensus size: 81
2616452 AAAGGTAAAA
* ** * *
2616462 CATTAGCGGCGCTTT-TCTTAATGCGCCGCAAAAGGTAAAG-CATTAGCGGCGC-TTAACAAAAA
1 CATTAGCGGCGCTTTCTC-TAA-GCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTACCAAAAG
2616524 CGCCGCTAAAGGT-AGGGT
64 CGCCGCTAAAGGTCA-GGT
* * * * *
2616542 CATTAGCGGCGCTTTACCCACAAGCGCCGCTAAAGGTGGGGTCATTAGCGGCGCTTTATCACAAG
1 CATTAGCGGCGCTTT-CTC-TAAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTACCAAAAG
* *
2616607 CGCCGCTAAAGTTCAAGT
64 CGCCGCTAAAGGTCAGGT
* * ***
2616625 CATTAGCGGCGCTTTCTCTAATGCGCCGCTAAAGGTAGGGTAATTAGCGGCGCTTGAGGGAAAGC
1 CATTAGCGGCGCTTTCTCTAA-GCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTACCAAAAGC
*
2616690 GCCGCTAAAGGCCAGGT
65 GCCGCTAAAGGTCAGGT
* * * * * * **
2616707 AATTACCGACGCTTTAACTC-AAGCGCCGCTAAAGGTATGATCATTAGCGGCGCTTTCCCTGAAG
1 CATTAGCGGCGCTTT--CTCTAAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTACCAAAAG
* * *
2616771 CGCCACGAAAAGGTCGGGT
64 CGCCGC-TAAAGGTCAGGT
* * * *
2616790 CATTAGTGGCGCTTTCCCTCAAGCACCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCACTC--A
1 CATTAGCGGCGCTTTCTCT-AAGCGCCGCTAAAGGTAGGGTCA-TTAGCGGCGCTTT-AC-CAAA
*
2616853 AGCGCCGCTAAAAGGTCGGGT
62 AGCGCCGCT-AAAGGTCAGGT
* * * *
2616874 CATTAGCGGCGCTTT-TCCTCAAGTGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTATA-TATAA
1 CATTAGCGGCGCTTTCT-CT-AAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTT-TACCA-AA
2616937 AGCGCCGCTAAAGGTCAGGT
62 AGCGCCGCTAAAGGTCAGGT
* * * * * *
2616957 CATTAGCGGCGCTTTTCTAATAAGCGTCGCTAAAGGT-GTG-AATTAGCGGCGCTTTCCCATAAG
1 CATTAGCGGCGC-TTTCT-CTAAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTACCAAAAG
2617020 CGCCGCTAA
64 CGCCGCTAA
2617029 TTTATTTAAA
Statistics
Matches: 395, Mismatches: 69, Indels: 45
0.78 0.14 0.09
Matches are distributed among these distances:
80 15 0.04
81 31 0.08
82 131 0.33
83 116 0.29
84 98 0.25
85 3 0.01
86 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (81 bp):
CATTAGCGGCGCTTTCTCTAAGCGCCGCTAAAGGTAGGGTCATTAGCGGCGCTTTACCAAAAGCG
CCGCTAAAGGTCAGGT
Found at i:2619126 original size:23 final size:23
Alignment explanation
Indices: 2619099--2619175 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 23
2619089 AGTGAGAAGG
2619099 TTATTTTATATCTATTAAATTTA
1 TTATTTTATATCTATTAAATTTA
* * *
2619122 TTATTTT-TCAT-TGTTTAATTGA
1 TTATTTTAT-ATCTATTAAATTTA
2619144 GTTTATTTTATATCTATTAAATTTA
1 --TTATTTTATATCTATTAAATTTA
2619169 -TATTTTA
1 TTATTTTA
2619176 CATTTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 16 0.37
23 9 0.21
24 9 0.21
25 9 0.21
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
TTATTTTATATCTATTAAATTTA
Found at i:2622397 original size:22 final size:22
Alignment explanation
Indices: 2622354--2622409 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
2622344 TGCATAATTG
**
2622354 AATAGAGAGCACTGAGGTGCTA
1 AATAGAGAGCACAAAGGTGCTA
2622376 AATAGAGAGCACAAATGG-GCTA
1 AATAGAGAGCACAAA-GGTGCTA
* *
2622398 AACATAGAGCAC
1 AATAGAGAGCAC
2622410 TTTATGTGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (22 bp):
AATAGAGAGCACAAAGGTGCTA
Found at i:2623885 original size:33 final size:35
Alignment explanation
Indices: 2623843--2623909 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
2623833 TTTATGTTTA
* *
2623843 AATTGATTGTCAT-GTTGAATATTGGTTC-TTTTG
1 AATTGATTGTCATGGTGGAATATTGCTTCATTTTG
*
2623876 AATTGATTGTTATGGTGGAATATTGCTTCATTTT
1 AATTGATTGTCATGGTGGAATATTGCTTCATTTT
2623910 CTTTTGAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 12 0.41
34 13 0.45
35 4 0.14
ACGTcount: A:0.22, C:0.06, G:0.21, T:0.51
Consensus pattern (35 bp):
AATTGATTGTCATGGTGGAATATTGCTTCATTTTG
Found at i:2627008 original size:21 final size:21
Alignment explanation
Indices: 2626968--2627008 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2626958 CTTATTTATA
**
2626968 TTTTAATTAATCATGTTTTAG
1 TTTTAATTAATCATAATTTAG
*
2626989 TTTTAATTAATCTTAATTTA
1 TTTTAATTAATCATAATTTA
2627009 CTTAATGAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:2628313 original size:13 final size:13
Alignment explanation
Indices: 2628295--2628319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2628285 ATACAAAATG
2628295 TTTCTATATCATT
1 TTTCTATATCATT
2628308 TTTCTATATCAT
1 TTTCTATATCAT
2628320 GTACATAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCTATATCATT
Found at i:2628579 original size:31 final size:29
Alignment explanation
Indices: 2628524--2628594 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
2628514 AATGTTTGAA
*
2628524 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
2628553 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
2628584 TTAAATTTAAA
1 TTAAATTTAAA
2628595 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:2628591 original size:11 final size:11
Alignment explanation
Indices: 2628522--2628592 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
2628512 TTAATGTTTG
*
2628522 AATTAATTTTA
1 AATTTATTTTA
*
2628533 AATTCATTTTTA
1 AATTTA-TTTTA
*
2628545 AATTTATCTTA
1 AATTTATTTTA
*
2628556 AATTTAAATTT-
1 AATTT-ATTTTA
*
2628567 -ACTTA-TTTA
1 AATTTATTTTA
2628576 AATTTATTTTA
1 AATTTATTTTA
2628587 AATTTA
1 AATTTA
2628593 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:2628603 original size:17 final size:17
Alignment explanation
Indices: 2628571--2628605 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2628561 AAATTTACTT
* *
2628571 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
2628588 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
2628605 A
1 A
2628606 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:2628698 original size:16 final size:17
Alignment explanation
Indices: 2628644--2628700 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
2628634 CAATGTCCAT
2628644 TTACAAAAAGGGCCCAAA
1 TTACAAAAAGGGCCC-AA
2628662 TT----AAA-GGCCCAA
1 TTACAAAAAGGGCCCAA
*
2628674 TTACAAAAAGGGCCCGA
1 TTACAAAAAGGGCCCAA
2628691 TTACAAAAAG
1 TTACAAAAAG
2628701 CCCAATTGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
12 4 0.12
13 5 0.15
14 3 0.09
16 3 0.09
17 16 0.48
18 2 0.06
ACGTcount: A:0.47, C:0.21, G:0.18, T:0.14
Consensus pattern (17 bp):
TTACAAAAAGGGCCCAA
Found at i:2630433 original size:162 final size:162
Alignment explanation
Indices: 2630262--2630574 Score: 572
Period size: 162 Copynumber: 1.9 Consensus size: 162
2630252 TCTTTTCAAT
2630262 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
* *
2630327 TTTAGTCCTTTTTATTTTTAATATGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
66 TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
2630392 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
*
2630424 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
* * *
2630489 TTTAGTCCTTTTTATTTTTAATTTATTTTAATTTGATCCCCAAATCAACTTTTATTAAATTATGA
66 TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
2630554 AATTGGCCCAAGAATTTTTCA
131 AATTGGCCCAAGAATTTTTCA
2630575 AGATTTACAA
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 145 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
AATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:2630765 original size:59 final size:59
Alignment explanation
Indices: 2630673--2631029 Score: 549
Period size: 59 Copynumber: 6.1 Consensus size: 59
2630663 AAACAGTCCA
* * *
2630673 AAAATTATCATTTTATCCCCGAATCTTTTAAAATTCCATTTTTAACCACGATTTCACCG
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
2630732 AAAATTACCATTTTACTCCCGAATCTTTTAAAATTCCA-TTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
2630790 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
*
2630849 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
2630908 AAAATTACCATTTTACCCCTGAA-CTTTCCAAAATTCTATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCCGATTTCACCG
* *
2630967 AAAATTACCATTTTACCCCCGTATCCTTTAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
2631025 AAAAT
1 AAAAT
2631030 CATCTTTTTG
Statistics
Matches: 273, Mismatches: 22, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
58 62 0.23
59 208 0.76
60 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:2636120 original size:144 final size:144
Alignment explanation
Indices: 2635903--2636189 Score: 432
Period size: 144 Copynumber: 2.0 Consensus size: 144
2635893 TCTTGTATTC
* *
2635903 GTAATTTAGCAAATTTAACTTCATTGTACCTCTCCCAAAACAAATTGAGTGGTACAATCCCTTCT
1 GTAATCTAGCAAATTTAACTTCATTGGACCTCTCCCAAAACAAATTGAGTGGTACAATCCCTTCT
* * * *
2635968 TGTGTTGGTAGTTTATCAAAGATGTGGTACTTATACCTTGGTTCTAATCTATTAAATGGTCCTAT
66 TGTATTGGTAGTTTATCAAAGATGCGGTACTTATACCTTGGTTCAAATCTATTAAAAGGTCCTA-
*
2636033 TCCC-CAAGAAATTT
130 TCCCAAAAGAAATTT
* * * * *
2636047 GTAATCTAGCAAATTTATCTTCATTGGAGCTCTCCCAAAACAAATTTAGTGGTTCAATCCTTTCT
1 GTAATCTAGCAAATTTAACTTCATTGGACCTCTCCCAAAACAAATTGAGTGGTACAATCCCTTCT
* *
2636112 TGTATTGGTTGTTTGTCAAAGATGCGGTACTTATACCTTGGTTCAAATCTATTAAAAGGTCCTAT
66 TGTATTGGTAGTTTATCAAAGATGCGGTACTTATACCTTGGTTCAAATCTATTAAAAGGTCCTAT
2636177 CCCAAAAGAAATT
131 CCCAAAAGAAATT
2636190 GGCAAGCTTT
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
143 4 0.03
144 124 0.97
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (144 bp):
GTAATCTAGCAAATTTAACTTCATTGGACCTCTCCCAAAACAAATTGAGTGGTACAATCCCTTCT
TGTATTGGTAGTTTATCAAAGATGCGGTACTTATACCTTGGTTCAAATCTATTAAAAGGTCCTAT
CCCAAAAGAAATTT
Found at i:2651976 original size:17 final size:17
Alignment explanation
Indices: 2651951--2652005 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
2651941 CCAATTTTGG
*
2651951 ATTTTAATTTATTTTAA
1 ATTTAAATTTATTTTAA
*
2651968 GTTTAAATTTATTTTAAA
1 ATTTAAATTTATTTT-AA
*
2651986 ATTTAAATTTACTTTAA
1 ATTTAAATTTATTTTAA
2652003 ATT
1 ATT
2652006 AAAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 18 0.55
18 15 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:2651992 original size:18 final size:18
Alignment explanation
Indices: 2651951--2652003 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
2651941 CCAATTTTGG
*
2651951 ATTTTAATTTATTTT-AA
1 ATTTAAATTTATTTTAAA
*
2651968 GTTTAAATTTATTTTAAA
1 ATTTAAATTTATTTTAAA
*
2651986 ATTTAAATTTACTTTAAA
1 ATTTAAATTTATTTTAAA
2652004 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTAAATTTATTTTAAA
Found at i:2652011 original size:18 final size:18
Alignment explanation
Indices: 2651972--2652014 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2651962 TTTTAAGTTT
* *
2651972 AAATTTATTTTAAAATTT
1 AAATTTACTTTAAAATTA
2651990 AAATTTACTTT-AAATTAA
1 AAATTTACTTTAAAATT-A
2652008 AAATTTA
1 AAATTTA
2652015 AAGGTTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTTACTTTAAAATTA
Found at i:2653590 original size:28 final size:28
Alignment explanation
Indices: 2653550--2653626 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
2653540 TCAAATTTCA
* *
2653550 TAAAAATTACATTTTGCCCTCGAACCTTC
1 TAAAAATTCCATTTTGACCTCGAA-CTTC
2653579 -AAAAATTCCATTTTTGACCTCGAACTTC
1 TAAAAATTCCA-TTTTGACCTCGAACTTC
*
2653607 TGAAAATTCCATTTTTGACC
1 TAAAAATTCCA-TTTTGACC
2653627 CCAAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 13 0.30
29 30 0.70
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (28 bp):
TAAAAATTCCATTTTGACCTCGAACTTC
Found at i:2653696 original size:29 final size:30
Alignment explanation
Indices: 2653653--2654101 Score: 304
Period size: 29 Copynumber: 15.3 Consensus size: 30
2653643 TTACAATATG
* *
2653653 TCCAAAAATT-TCATTTTTGA-CTCGAACTT
1 TCCAAAAATTACCA-TTTTGACCCCGAACTT
*
2653682 TCCAAAAATTA-CATTTTCACCCTCGAACTT
1 TCCAAAAATTACCATTTTGACCC-CGAACTT
** *
2653712 T-TTAAAATT-CCATTTTTGACCCC-AAATT
1 TCCAAAAATTACCA-TTTTGACCCCGAACTT
* * *
2653740 TCTAAAAATTACCATTTT-ACCCCGGA-TG
1 TCCAAAAATTACCATTTTGACCCCGAACTT
*
2653768 TCCAAACATT-CCATTTTTGA-CCCGAAACTT
1 TCCAAAAATTACCA-TTTTGACCCCG-AACTT
*
2653798 TCCAAAAATTACCATTTT-ACCCCTAA-TT
1 TCCAAAAATTACCATTTTGACCCCGAACTT
*
2653826 ATCC-AAAATTACCATTTTTGACCCCAAACTT
1 -TCCAAAAATTACCA-TTTTGACCCCGAACTT
*
2653857 TCCAAAAATTACCATTTT-ACCCCTAAAC-T
1 TCCAAAAATTACCATTTTGACCCC-GAACTT
* *
2653886 TCCAAAAA-AATCCATTTTTGACCTCGAACTT
1 TCCAAAAATTA-CCA-TTTTGACCCCGAACTT
* **
2653917 TCCAGAAATTACCATTTT-ACTCCTAAAC-T
1 TCCAAAAATTACCATTTTGAC-CCCGAACTT
* **
2653946 TCCAAAAATT-CCACTTTGACTACGAA-TT
1 TCCAAAAATTACCATTTTGACCCCGAACTT
* *
2653974 ATCCAAAAGTTACCATTTT-ACCCCAAAACTT
1 -TCCAAAAATTACCATTTTGACCCC-GAACTT
*
2654005 T-CAAAAATT-CCATTTTTGACCCCAAACTT
1 TCCAAAAATTACCA-TTTTGACCCCGAACTT
*
2654034 TCCAAAAATTACCATTTT-ACTCCCGCAC-T
1 TCCAAAAATTACCATTTTGAC-CCCGAACTT
* * **
2654063 TCCCAAAATT-CCATTTTTAACCCTAAAC-T
1 TCCAAAAATTACCA-TTTTGACCCCGAACTT
2654092 TCCAAAAATT
1 TCCAAAAATT
2654102 TTTATTTTAC
Statistics
Matches: 338, Mismatches: 43, Indels: 78
0.74 0.09 0.17
Matches are distributed among these distances:
27 3 0.01
28 60 0.18
29 137 0.41
30 102 0.30
31 35 0.10
32 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (30 bp):
TCCAAAAATTACCATTTTGACCCCGAACTT
Found at i:2653714 original size:77 final size:76
Alignment explanation
Indices: 2653578--2653720 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 76
2653568 CTCGAACCTT
** * *
2653578 CAAAAATTCCATTTTTGACCTCGAACTTCTGAAAATTCCATTTTTGACCCCAAAATTTTTGAAAA
1 CAAAAATTCCATTTTTGACCTCGAACTTCCAAAAATTACATTTTTCACCCCAAAATTTTT-AAAA
2653643 TTACAATATGTC
65 TTACAATATGTC
* * *
2653655 CAAAAATTTCATTTTTGA-CTCGAACTTTCCAAAAATTACA-TTTTCACCCTCGAACTTTTTAAA
1 CAAAAATTCCATTTTTGACCTCGAAC-TTCCAAAAATTACATTTTTCACCC-CAAAATTTTTAAA
2653718 ATT
64 ATT
2653721 CCATTTTTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
76 21 0.37
77 36 0.63
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (76 bp):
CAAAAATTCCATTTTTGACCTCGAACTTCCAAAAATTACATTTTTCACCCCAAAATTTTTAAAAT
TACAATATGTC
Found at i:2653720 original size:58 final size:57
Alignment explanation
Indices: 2653655--2654101 Score: 429
Period size: 58 Copynumber: 7.6 Consensus size: 57
2653645 ACAATATGTC
* * *
2653655 CAAAAATTTCATTTTTGACTCGAACTTTCCAAAAATTA-CATTTTCACCCTCGAACTTT
1 CAAAAATTCCATTTTTGACCCGAACTTTCCAAAAATTACCATTTT-ACCC-CAAACTTT
** * * * ** *
2653713 TTAAAATTCCATTTTTGACCCCAAATTTCTAAAAATTACCATTTTACCCCGGA-TGTC
1 CAAAAATTCCATTTTTGACCCGAACTTTCCAAAAATTACCATTTTACCCCAAACT-TT
* *
2653770 CAAACATTCCATTTTTGACCCGAAACTTTCCAAAAATTACCATTTTACCCCTAA-TTAT
1 CAAAAATTCCATTTTTGACCCG-AACTTTCCAAAAATTACCATTTTACCCCAAACTT-T
* * *
2653828 CCAAAATTACCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTAAACTTC
1 CAAAAATT-CCATTTTTGA-CCCGAACTTTCCAAAAATTACCATTTTACCCC-AAACTTT
* * * *
2653888 CAAAAAAATCCATTTTTGACCTCGAACTTTCCAGAAATTACCATTTTACTCCTAAACTTC
1 C-AAAAATTCCATTTTTGACC-CGAACTTTCCAAAAATTACCATTTTAC-CCCAAACTTT
* * *
2653948 CAAAAATTCCA-CTTTGACTACGAA-TTATCCAAAAGTTACCATTTTACCCCAAAACTTT
1 CAAAAATTCCATTTTTGAC-CCGAACTT-TCCAAAAATTACCATTTTACCCC-AAACTTT
* ** *
2654006 CAAAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACTCCCGCACTTC
1 CAAAAATTCCATTTTTGA-CCCGAACTTTCCAAAAATTACCATTTTAC-CCCAAACTTT
* * *
2654065 CCAAAATTCCATTTTTAACCCTAAAC-TTCCAAAAATT
1 CAAAAATTCCATTTTTGACCC-GAACTTTCCAAAAATT
2654102 TTTATTTTAC
Statistics
Matches: 326, Mismatches: 44, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
56 1 0.00
57 27 0.08
58 128 0.39
59 106 0.33
60 55 0.17
61 9 0.03
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (57 bp):
CAAAAATTCCATTTTTGACCCGAACTTTCCAAAAATTACCATTTTACCCCAAACTTT
Found at i:2653735 original size:106 final size:104
Alignment explanation
Indices: 2653551--2653751 Score: 271
Period size: 106 Copynumber: 1.9 Consensus size: 104
2653541 CAAATTTCAT
* * *
2653551 AAAAATTACATTTTGCCCTCGAACCTTCAAAAATTCCATTTTTGACCTCGAACTTCTGAAAATTC
1 AAAAATTACATTTTGCACTCGAACCTTCAAAAATTACATTTTTCACCTCGAACTTCTGAAAATTC
* *
2653616 CATTTTTGACCCCAAAATTTTTGAAAATTACAATATGTCC
66 CATTTTTGACCCC-AAATTTCTAAAAATTACAATATGTCC
* * * *
2653656 AAAAATTTCATTTTTG-ACTCGAACTTTCCAAAAATTACA-TTTTCACCCTCGAACTTTTTAAAA
1 AAAAATTACA-TTTTGCACTCGAACCTT-CAAAAATTACATTTTTCA-CCTCGAACTTCTGAAAA
2653719 TTCCATTTTTGACCCCAAATTTCTAAAAATTAC
63 TTCCATTTTTGACCCCAAATTTCTAAAAATTAC
2653752 CATTTTACCC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
105 38 0.45
106 46 0.55
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (104 bp):
AAAAATTACATTTTGCACTCGAACCTTCAAAAATTACATTTTTCACCTCGAACTTCTGAAAATTC
CATTTTTGACCCCAAATTTCTAAAAATTACAATATGTCC
Found at i:2653855 original size:59 final size:57
Alignment explanation
Indices: 2653657--2654101 Score: 434
Period size: 59 Copynumber: 7.6 Consensus size: 57
2653647 AATATGTCCA
* * * * **
2653657 AAAATTTCATTTTTGA-CTCGAACTTTCCAAAAATTA-CATTTTCACCCTCGAACTTTTT
1 AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTT-ACCC-CTAA-TTTCC
* ** *
2653715 AAAATTCCATTTTTGACCCCAAA-TTTCTAAAAATTACCATTTTACCCCGGATGTCC
1 AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTAATTTCC
*
2653771 AAACATTCCATTTTTGACCCGAAACTTTCCAAAAATTACCATTTTACCCCTAATTATCC
1 AAA-ATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTAATT-TCC
*
2653830 AAAATTACCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTAAACTTCC
1 AAAATT-CCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCT-AATTTCC
* * * * * *
2653889 AAAAAAATCCATTTTTGACCTCGAACTTTCCAGAAATTACCATTTTACTCCTAAACTTCC
1 --AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCT-AATTTCC
* ** * * * *
2653949 AAAAATTCCA-CTTTGACTACGAA-TTATCCAAAAGTTACCATTTTACCCCAAAACTTTCA
1 -AAAATTCCATTTTTGACCCCAAACTT-TCCAAAAATTACCATTTTACCCC-TAA-TTTCC
* * *
2654008 AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACTCCCGCACTTCCC
1 AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTAC-CCC-TAATTTCC
* *
2654067 AAAATTCCATTTTTAACCCTAAAC-TTCCAAAAATT
1 AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATT
2654102 TTTATTTTAC
Statistics
Matches: 330, Mismatches: 42, Indels: 30
0.82 0.10 0.07
Matches are distributed among these distances:
56 5 0.02
57 24 0.07
58 112 0.34
59 127 0.38
60 57 0.17
61 5 0.02
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (57 bp):
AAAATTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCTAATTTCC
Found at i:2654283 original size:14 final size:15
Alignment explanation
Indices: 2654252--2654284 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2654242 TAGAATTTTA
*
2654252 TTATTCTCTCATATT
1 TTATTCTATCATATT
2654267 TTATTCTATCA-ATT
1 TTATTCTATCATATT
2654281 TTAT
1 TTAT
2654285 GTACTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTCTATCATATT
Found at i:2666487 original size:124 final size:124
Alignment explanation
Indices: 2666262--2666487 Score: 380
Period size: 124 Copynumber: 1.8 Consensus size: 124
2666252 CCAGATCCGT
* ** * *
2666262 CTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCAGTCATCTTCCTGATGAGATAT
1 CTTCCTGATGAGACACAGAGAAGTAGATCAAAACAAGCAATGCAGTCATCTTCCTGATGAGACAC
2666327 TGAGAAGTAGACCAAATCAATGAAACCAGACTCAAAGTGAGCAAATCTTCAAACCCCAG
66 TGAGAAGTAGACCAAATCAATGAAACCAGACTCAAAGTGAGCAAATCTTCAAACCCCAG
* * *
2666386 CTTCTTGATGAGACACTGAGAAGTAGATCAAAACAAGCAATGCAGTCATCTTCTTGATGAGACAC
1 CTTCCTGATGAGACACAGAGAAGTAGATCAAAACAAGCAATGCAGTCATCTTCCTGATGAGACAC
2666451 TGAGAAGTAGACCAAATCAATGAAACCAGACTCAAAG
66 TGAGAAGTAGACCAAATCAATGAAACCAGACTCAAAG
2666488 ACTATAGTGA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 94 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (124 bp):
CTTCCTGATGAGACACAGAGAAGTAGATCAAAACAAGCAATGCAGTCATCTTCCTGATGAGACAC
TGAGAAGTAGACCAAATCAATGAAACCAGACTCAAAGTGAGCAAATCTTCAAACCCCAG
Found at i:2666841 original size:17 final size:17
Alignment explanation
Indices: 2666816--2666903 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
2666806 CCAATTTTGG
*
2666816 ATTTTAATTTATTTTAA
1 ATTTAAATTTATTTTAA
*
2666833 GTTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* *
2666850 ATTTAAACTTA-TTTGA
1 ATTTAAATTTATTTTAA
*
2666866 GTTTAAATTTATTTTAAA
1 ATTTAAATTTATTTT-AA
*
2666884 ATTTAAATTTACTTTAA
1 ATTTAAATTTATTTTAA
2666901 ATT
1 ATT
2666904 AAAAATTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.22
17 32 0.54
18 14 0.24
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:2666906 original size:34 final size:32
Alignment explanation
Indices: 2666828--2666912 Score: 55
Period size: 33 Copynumber: 2.5 Consensus size: 32
2666818 TTTAATTTAT
* *
2666828 TTTAAGTTTAAATTTATTTTAAATTTAAACTTA-
1 TTTAAATTTAAATTTA-TTT-AATTTAAATTTAT
* * *
2666861 TTTGAGTTTAAATTTATTTTAAAATTTAAATTTAC
1 TTTAAATTTAAATTTA-TTT--AATTTAAATTTAT
*
2666896 TTTAAATTAAAAATTTA
1 TTTAAATT-TAAATTTA
2666913 AAGGTTGTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
33 19 0.43
34 12 0.27
35 6 0.14
36 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (32 bp):
TTTAAATTTAAATTTATTTAATTTAAATTTAT
Found at i:2666909 original size:18 final size:18
Alignment explanation
Indices: 2666870--2666912 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2666860 ATTTGAGTTT
* *
2666870 AAATTTATTTTAAAATTT
1 AAATTTACTTTAAAATTA
2666888 AAATTTACTTT-AAATTAA
1 AAATTTACTTTAAAATT-A
2666906 AAATTTA
1 AAATTTA
2666913 AAGGTTGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTTACTTTAAAATTA
Found at i:2667592 original size:13 final size:11
Alignment explanation
Indices: 2667570--2667641 Score: 51
Period size: 12 Copynumber: 6.3 Consensus size: 11
2667560 GTTTCAAAAC
2667570 ATAT-TTAATAA
1 ATATATTAAT-A
2667581 ATAGTATTAATA
1 ATA-TATTAATA
2667593 ATA-ATTAATA
1 ATATATTAATA
*
2667603 ATAATAATAATA
1 AT-ATATTAATA
*
2667615 A-ATATAACATTA
1 ATATATTA-A-TA
2667627 ATAATATTAATA
1 AT-ATATTAATA
2667639 ATA
1 ATA
2667642 ATAAAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
10 13 0.27
11 6 0.12
12 19 0.39
13 6 0.12
14 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
ATATATTAATA
Found at i:2667596 original size:3 final size:3
Alignment explanation
Indices: 2667588--2667645 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
2667578 TAAATAGTAT
* * *
2667588 TAA TAA TAA TTAA TAA TAA TAA TAA TAA -ATA TAA CAT TAA TAA TAT
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
2667634 TAA TAA TAA TAA
1 TAA TAA TAA TAA
2667646 AAAAAGGGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2668833 original size:29 final size:29
Alignment explanation
Indices: 2668771--2668902 Score: 83
Period size: 30 Copynumber: 4.5 Consensus size: 29
2668761 AAGGTCACTG
* * *
2668771 AACTATCCAAAAATTATATTTTTGACCCCA
1 AACTTTCCAAAAATCATA-TTTTAACCCCA
2668801 AACTTTCCAAAAATCATA-TTTAACCCCTA
1 AACTTTCCAAAAATCATATTTTAACCCC-A
* * **
2668830 AAC-TTCACAAAAATTACATTTTTGCCCTCA
1 AACTTTC-CAAAAATCATATTTTAACCC-CA
* ** *
2668860 AACCTT-CAAAAATTCCAT-TTTTGGCCCTA
1 AACTTTCCAAAAA-T-CATATTTTAACCCCA
2668889 AACTTTCCAAAAAT
1 AACTTTCCAAAAAT
2668903 TACATTTTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
28 11 0.13
29 26 0.32
30 41 0.50
31 4 0.05
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.33
Consensus pattern (29 bp):
AACTTTCCAAAAATCATATTTTAACCCCA
Found at i:2668888 original size:59 final size:58
Alignment explanation
Indices: 2668825--2669370 Score: 469
Period size: 59 Copynumber: 9.3 Consensus size: 58
2668815 CATATTTAAC
* *
2668825 CCCTAAAC-TTCACAAAAATTA-CATTTTTGCCCTCAAACCTTCAAAAATTCCATTTTTGG
1 CCCTAAACTTTC-CAAAAATTACCA-TTTTACCCTCAAA-CTTCAAAAATTCCATTTTTGA
*
2668884 CCCTAAACTTTCCAAAAATTA-CATTTTCACCCTCGAACTTCAAAAAATTCCATTTTTGA
1 CCCTAAACTTTCCAAAAATTACCATTTT-ACCCTCAAACTTC-AAAAATTCCATTTTTGA
* * * * * * *
2668943 CCGTGAAA-TTTCTATAAATTACCATTTTACCCTCAGA-TGTCCAAAACTTTCAATTTTGA
1 CCCT-AAACTTTCCAAAAATTACCATTTTACCCTCAAACT-T-CAAAAATTCCATTTTTGA
* * *
2669002 CCC-GAAC-TTCCAAAAATTA-CATTTTCACCCTCGAACTTCTGAAAATTCCATTTTTGA
1 CCCTAAACTTTCCAAAAATTACCATTTT-ACCCTCAAACTTC-AAAAATTCCATTTTTGA
* * * ** *
2669059 CCTTGAAA-TTTTCGAAAATTACCATTTTACCCTCGGA-TGTCCAAAAATTTCATTTTTGA
1 CCCT-AAACTTTCCAAAAATTACCATTTTACCCTCAAACT-T-CAAAAATTCCATTTTTGA
* * *
2669118 CCCGAAACTTTCCAAAAATTTCCATTTTACCCTCGAATGAC--CAAAAATACCATTTTTGA
1 CCCTAAACTTTCCAAAAATTACCATTTTACCCTC-AA--ACTTCAAAAATTCCATTTTTGA
* * *
2669177 CCCTGAACTTTCC-AAAATTACCATTTTACCC-CTAAACTTCCAAAAAAATCCTTTTTTGA
1 CCCTAAACTTTCCAAAAATTACCATTTTACCCTC-AAACTT-C-AAAAATTCCATTTTTGA
* * *
2669236 CCTTGAACTTTCCAAAAATTACCATTTTACCCTAAAACTTCCAAAAATTCCA-TTTTGA
1 CCCTAAACTTTCCAAAAATTACCATTTTACCCTCAAACTT-CAAAAATTCCATTTTTGA
* * * * * *
2669294 CCCCAAACTTTCCAAAAATTAGCATTTTACTCTCGAACTTCCAAAAATTCAATTTTAG-
1 CCCTAAACTTTCCAAAAATTACCATTTTACCCTCAAACTT-CAAAAATTCCATTTTTGA
*
2669352 CCCTGAAC-TTCCAAAAATT
1 CCCTAAACTTTCCAAAAATT
2669371 TCTAGTTTAC
Statistics
Matches: 399, Mismatches: 59, Indels: 60
0.77 0.11 0.12
Matches are distributed among these distances:
55 2 0.01
56 7 0.02
57 49 0.12
58 88 0.22
59 206 0.52
60 46 0.12
62 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAAATTACCATTTTACCCTCAAACTTCAAAAATTCCATTTTTGA
Found at i:2668910 original size:29 final size:30
Alignment explanation
Indices: 2668771--2669370 Score: 295
Period size: 29 Copynumber: 20.5 Consensus size: 30
2668761 AAGGTCACTG
* *
2668771 AACTATCCAAAAATTATATTTTTGACCC-CA
1 AACTTTCCAAAAATTACA-TTTTGACCCTCA
*
2668801 AACTTTCCAAAAA-T-CATATTTAACCC-CTA
1 AACTTTCCAAAAATTACAT-TTTGACCCTC-A
2668830 AAC-TTCACAAAAATTACATTTTTG-CCCTCA
1 AACTTTC-CAAAAATTACA-TTTTGACCCTCA
* * *
2668860 AACCTT-CAAAAATTCCATTTTTGGCCCT-A
1 AACTTTCCAAAAATTACA-TTTTGACCCTCA
* *
2668889 AACTTTCCAAAAATTACATTTTCACCCTCG
1 AACTTTCCAAAAATTACATTTTGACCCTCA
* * * *
2668919 AAC-TTCAAAAAATTCCATTTTTGACCGTGA
1 AACTTTCCAAAAATTACA-TTTTGACCCTCA
* *
2668949 AA-TTTCTATAAATTACCATTTT-ACCCTCA
1 AACTTTCCAAAAATTA-CATTTTGACCCTCA
* * * * *
2668978 GA-TGTCCAAAACTTTCAATTTTGA-CC-CG
1 AACTTTCCAAAAATTAC-ATTTTGACCCTCA
* *
2669006 AAC-TTCCAAAAATTACATTTTCACCCTCG
1 AACTTTCCAAAAATTACATTTTGACCCTCA
** * * *
2669035 AAC-TTCTGAAAATTCCATTTTTGACCTTGA
1 AACTTTCCAAAAATTACA-TTTTGACCCTCA
* * *
2669065 AA-TTTTCGAAAATTACCATTTT-ACCCTCG
1 AACTTTCCAAAAATTA-CATTTTGACCCTCA
* * * *
2669094 GA-TGTCCAAAAATTTCATTTTTGACCC-GA
1 AACTTTCCAAAAATTACA-TTTTGACCCTCA
* *
2669123 AACTTTCCAAAAATTTCCATTTT-ACCCTCG
1 AACTTTCCAAAAA-TTACATTTTGACCCTCA
** *
2669153 AA-TGACCAAAAA-TACCATTTTTGACCCT-G
1 AACTTTCCAAAAATTA-CA-TTTTGACCCTCA
2669182 AACTTTCC-AAAATTACCATTTT-ACCC-CTA
1 AACTTTCCAAAAATTA-CATTTTGACCCTC-A
* * * **
2669211 AAC-TTCCAAAAAAATCCTTTTTTGA-CCTTG
1 AACTTTCC-AAAAATTAC-ATTTTGACCCTCA
*
2669241 AACTTTCCAAAAATTACCATTTT-ACCCTAA
1 AACTTTCCAAAAATTA-CATTTTGACCCTCA
*
2669271 AAC-TTCCAAAAATTCCATTTTGACCC-CA
1 AACTTTCCAAAAATTACATTTTGACCCTCA
* *
2669299 AACTTTCCAAAAATTAGCATTTT-ACTCTCG
1 AACTTTCCAAAAATTA-CATTTTGACCCTCA
*
2669329 AAC-TTCCAAAAATT-CAATTTT-AGCCCT-G
1 AACTTTCCAAAAATTAC-ATTTTGA-CCCTCA
2669357 AAC-TTCCAAAAATT
1 AACTTTCCAAAAATT
2669371 TCTAGTTTAC
Statistics
Matches: 442, Mismatches: 80, Indels: 98
0.71 0.13 0.16
Matches are distributed among these distances:
27 9 0.02
28 70 0.16
29 184 0.42
30 156 0.35
31 22 0.05
32 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTGACCCTCA
Found at i:2668930 original size:88 final size:89
Alignment explanation
Indices: 2668771--2669370 Score: 401
Period size: 88 Copynumber: 6.8 Consensus size: 89
2668761 AAGGTCACTG
** * * * *
2668771 AACTATCCAAAAATTATATTTTTGACCC-CAAACTTTCCAAAAATCA-TATTTAACCC-CTAAAC
1 AACT-TCCAAAAATTCCATTTTTGACCCTCAAA-TTTCCAAAAATTACCATTTTACCCTC-GAAC
2668833 TTCACAAAAATTACATTTTTG-CCCTCA
63 TTC-CAAAAATTACATTTTTGACCCTCA
*
2668860 AACCTT-CAAAAATTCCATTTTTGGCCCT-AAACTTTCCAAAAATTA-CATTTTCACCCTCGAAC
1 AA-CTTCCAAAAATTCCATTTTTGACCCTCAAA-TTTCCAAAAATTACCATTTT-ACCCTCGAAC
* * * *
2668922 TTCAAAAAATTCCATTTTTGACCGTGA
63 TTCCAAAAATTACATTTTTGACCCTCA
* * * * * * * *
2668949 AATTTCTATAAATTACCA-TTTT-ACCCTCAGATGTCCAAAACTTTCAATTTTGA-CC-CGAACT
1 AACTTCCAAAAATT-CCATTTTTGACCCTCAAATTTCCAAAAATTACCATTTT-ACCCTCGAACT
* *
2669010 TCCAAAAATTACA-TTTTCACCCTCG
64 TCCAAAAATTACATTTTTGACCCTCA
** * * * * *
2669035 AACTTCTGAAAATTCCATTTTTGACCTTGAAATTTTCGAAAATTACCATTTTACCCTCGGA-TGT
1 AACTTCCAAAAATTCCATTTTTGACCCTCAAATTTCCAAAAATTACCATTTTACCCTCGAACT-T
* *
2669099 CCAAAAATTTCATTTTTGACCC-GA
65 CCAAAAATTACATTTTTGACCCTCA
* **
2669123 AACTTTCCAAAAATTTCCA-TTTT-ACCCTCGAATGACCAAAAA-TACCATTTTTGACCCT-GAA
1 AAC-TTCCAAAAA-TTCCATTTTTGACCCTCAAATTTCCAAAAATTACCA-TTTT-ACCCTCGAA
2669184 CTTTCC-AAAATTACCA-TTTT-ACCC-CTA
62 C-TTCCAAAAATTA-CATTTTTGACCCTC-A
* * * * * **
2669211 AACTTCCAAAAAAATCCTTTTTTGACCTTGAACTTTCCAAAAATTACCATTTTACCCTAAAACTT
1 AACTTCC-AAAAATTCCATTTTTGACCCTCAAATTTCCAAAAATTACCATTTTACCCTCGAACTT
*
2669276 CCAAAAATTCCA-TTTTGACCC-CA
65 CCAAAAATTACATTTTTGACCCTCA
* * * * *
2669299 AACTTTCCAAAAATTAGCA-TTTT-ACTCTCGAACTTCCAAAAATT-CAATTTTAGCCCT-GAAC
1 AAC-TTCCAAAAATT-CCATTTTTGACCCTCAAATTTCCAAAAATTACCATTTTA-CCCTCGAAC
2669360 TTCCAAAAATT
63 TTCCAAAAATT
2669371 TCTAGTTTAC
Statistics
Matches: 401, Mismatches: 77, Indels: 69
0.73 0.14 0.13
Matches are distributed among these distances:
85 3 0.01
86 45 0.11
87 75 0.19
88 159 0.40
89 102 0.25
90 17 0.04
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.34
Consensus pattern (89 bp):
AACTTCCAAAAATTCCATTTTTGACCCTCAAATTTCCAAAAATTACCATTTTACCCTCGAACTTC
CAAAAATTACATTTTTGACCCTCA
Found at i:2668988 original size:118 final size:116
Alignment explanation
Indices: 2668839--2669408 Score: 540
Period size: 118 Copynumber: 4.9 Consensus size: 116
2668829 AAACTTCACA
* * * *
2668839 AAAATTA-CATTTTTGCCCTCAAACCTT-CAAAAATTCCATTTTTGGCCCTAAACTTTCCAAAAA
1 AAAATTACCA-TTTTACCCTCAGA-CTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCAAAAA
* *
2668902 TTACATTTTCACCCTCGAACTTCAAAAAATTCCATTTTTGACCGTGAAA-TTTCT
64 TTACATTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGACC-TGAAACTTTCC
* * *
2668956 ATAAATTACCATTTTACCCTCAGA-TGTCCAAAACTTTCAATTTTGACCC-GAAC-TTCCAAAAA
1 A-AAATTACCATTTTACCCTCAGACT-TCCAAAAATTCCATTTTTGACCCTGAACTTTCCAAAAA
** * *
2669018 TTACATTTTCACCCTCGAACTTCTGAAAATTCCATTTTTGACCTTGAAATTTTCG
64 TTACATTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGACC-TGAAACTTTCC
* *
2669073 AAAATTACCATTTTACCCTCGGA-TGTCCAAAAATTTCATTTTTGACCC-GAAACTTTCCAAAAA
1 AAAATTACCATTTTACCCTCAGACT-TCCAAAAATTCCATTTTTGACCCTG-AACTTTCCAAAAA
* * *
2669136 TTTCCATTTTACCCTCGAA-TGACCAAAAATACCATTTTTGACCCTG-AACTTTCC
64 -TTACATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGA-CCTGAAACTTTCC
* * * *
2669190 AAAATTACCATTTTACCC-CTAAACTTCCAAAAAAATCCTTTTTTGACCTTGAACTTTCCAAAAA
1 AAAATTACCATTTTACCCTC-AGACTTCC-AAAAATTCCATTTTTGACCCTGAACTTTCCAAAAA
** **
2669254 TTACCATTTTACCCTAAAACTTCCAAAAATTCCA-TTTTGACCCCAAACTTTCC
64 TTA-CATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTGAAACTTTCC
* * * *
2669307 AAAAATTAGCATTTTACTCTC-GAACTTCCAAAAATTCAATTTTAG-CCCTGAAC-TTCCAAAAA
1 -AAAATTACCATTTTACCCTCAG-ACTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCAAAAA
* * * * *
2669369 TTTCTAGTTTACCCCCGAACATCCCAAAATTACCATTTTT
64 TTAC-ATTTTACCCTCGAACTTCCAAAAATT-CCATTTTT
2669409 TCCCTTAAAG
Statistics
Matches: 381, Mismatches: 49, Indels: 46
0.80 0.10 0.10
Matches are distributed among these distances:
114 1 0.00
115 31 0.08
116 114 0.30
117 74 0.19
118 146 0.38
119 15 0.04
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (116 bp):
AAAATTACCATTTTACCCTCAGACTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCAAAAATT
ACATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTGAAACTTTCC
Found at i:2669030 original size:116 final size:115
Alignment explanation
Indices: 2668889--2669408 Score: 497
Period size: 116 Copynumber: 4.4 Consensus size: 115
2668879 TTTGGCCCTA
*
2668889 AACTTTCCAAAAATTACATTTTCACCCTCGAACTTCAAAAAATTCCATTTTTGACCGTGAAA-TT
1 AACTTTCCAAAAATTACATTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGACC-TGAAACTT
* **
2668953 TCTATAAATTACCATTTTACCCTCAGA-TGTCCAAAACTTTCAATTTTGACCCG
64 TCCA-AAATTACCATTTTACCCTCAGACT-TCCAAAAAATTCAATTTTGACCCG
** *
2669006 AAC-TTCCAAAAATTACATTTTCACCCTCGAACTTCTGAAAATTCCATTTTTGACCTTGAAATTT
1 AACTTTCCAAAAATTACATTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGACC-TGAAACTT
* * * *
2669070 TCGAAAATTACCATTTTACCCTCGGA-TGTCCAAAAATTTCATTTTTGACCCG
64 TCCAAAATTACCATTTTACCCTCAGACT-TCCAAAAAATTCAATTTTGACCCG
* * *
2669122 AAACTTTCCAAAAATTTCCATTTTACCCTCGAA-TGACCAAAAATACCATTTTTGACCCTG-AAC
1 -AACTTTCCAAAAA-TTACATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGA-CCTGAAAC
* * ** *
2669185 TTTCCAAAATTACCATTTTACCC-CTAAACTTCCAAAAAAATCCTTTTTTGACCTTG
62 TTTCCAAAATTACCATTTTACCCTC-AGACTTCC-AAAAAATTCAATTTTGACC-CG
** **
2669241 AACTTTCCAAAAATTACCATTTTACCCTAAAACTTCCAAAAATTCCA-TTTTGACCCCAAACTTT
1 AACTTTCCAAAAATTA-CATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTGAAACTTT
* *
2669305 CCAAAAATTAGCATTTTACTCTC-GAACTTCC-AAAAATTCAATTTT-AGCCCTG
65 CC-AAAATTACCATTTTACCCTCAG-ACTTCCAAAAAATTCAATTTTGA-CCC-G
* * * * *
2669357 AAC-TTCCAAAAATTTCTAGTTTACCCCCGAACATCCCAAAATTACCATTTTT
1 AACTTTCCAAAAATTAC-ATTTTACCCTCGAACTTCCAAAAATT-CCATTTTT
2669409 TCCCTTAAAG
Statistics
Matches: 341, Mismatches: 41, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
114 1 0.00
115 32 0.09
116 123 0.36
117 60 0.18
118 112 0.33
119 13 0.04
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (115 bp):
AACTTTCCAAAAATTACATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTGAAACTTTC
CAAAATTACCATTTTACCCTCAGACTTCCAAAAAATTCAATTTTGACCCG
Found at i:2670642 original size:15 final size:16
Alignment explanation
Indices: 2670622--2670654 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2670612 ATGTTTACGC
2670622 TTATAATATAA-ATTT
1 TTATAATATAATATTT
*
2670637 TTATAATTTAATATTT
1 TTATAATATAATATTT
2670653 TT
1 TT
2670655 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATAATATAATATTT
Found at i:2680178 original size:22 final size:23
Alignment explanation
Indices: 2680152--2680214 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
2680142 AAATAATTGG
2680152 AATGTATTTAATAATTTAATTT-
1 AATGTATTTAATAATTTAATTTA
* *
2680174 AATGTATTTATTTATTT-ATTTA
1 AATGTATTTAATAATTTAATTTA
* * *
2680196 AATTTTTTTCATAATTTAA
1 AATGTATTTAATAATTTAA
2680215 AATAATTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.12
22 27 0.84
23 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
AATGTATTTAATAATTTAATTTA
Found at i:2680638 original size:21 final size:20
Alignment explanation
Indices: 2680596--2680655 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
2680586 AACTTATTTA
* **
2680596 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
2680616 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
*
2680637 TA-TTTAATTAAACTTAATT
1 TATTTTAATTAATCTTAATT
2680656 ATTAATTTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.46
20 2 0.06
21 17 0.49
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:2681627 original size:31 final size:30
Alignment explanation
Indices: 2681534--2681695 Score: 97
Period size: 28 Copynumber: 5.5 Consensus size: 30
2681524 TTAATATAAT
* * *
2681534 ATTTGGTACCTGAATTTGACACTTTTTCTTA
1 ATTTGGTACCTAAACTTGACA-TTTTTCCTA
* * *
2681565 ATTTGATATCTAAACTT----TTTTTGACCCA
1 ATTTGGTACCTAAACTTGACATTTTT--CCTA
*
2681593 ATTTGGTACCTGAACTTGACAATTTTTCCTA
1 ATTTGGTACCTAAACTTGAC-ATTTTTCCTA
* * *
2681624 ATTTGGTTCCTAAACTT----TTTTGGACCCA
1 ATTTGGTACCTAAACTTGACATTTT--TCCTA
* *
2681652 ATTTGGTACCTAAACTTGGCATTTTTTCTA
1 ATTTGGTACCTAAACTTGACATTTTTCCTA
*
2681682 ATTTGGTGCCTAAA
1 ATTTGGTACCTAAA
2681696 TTTATTAAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
26 9 0.09
28 35 0.35
30 15 0.15
31 31 0.31
32 4 0.04
33 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (30 bp):
ATTTGGTACCTAAACTTGACATTTTTCCTA
Found at i:2681683 original size:58 final size:58
Alignment explanation
Indices: 2681534--2681695 Score: 218
Period size: 59 Copynumber: 2.8 Consensus size: 58
2681524 TTAATATAAT
* * * *
2681534 ATTTGGTACCTGAATTTGACACTTTTTCTTAATTTGATAT-CTAAACTTTTTTTGACCCA
1 ATTTGGTACCTGAACTTGACATTTTTTC-TAATTTGGT-TCCTAAACTTTTTTGGACCCA
*
2681593 ATTTGGTACCTGAACTTGACAATTTTTCCTAATTTGGTTCCTAAACTTTTTTGGACCCA
1 ATTTGGTACCTGAACTTGAC-ATTTTTTCTAATTTGGTTCCTAAACTTTTTTGGACCCA
* * *
2681652 ATTTGGTACCTAAACTTGGCATTTTTTCTAATTTGGTGCCTAAA
1 ATTTGGTACCTGAACTTGACATTTTTTCTAATTTGGTTCCTAAA
2681696 TTTATTAAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
58 23 0.25
59 63 0.68
60 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (58 bp):
ATTTGGTACCTGAACTTGACATTTTTTCTAATTTGGTTCCTAAACTTTTTTGGACCCA
Found at i:2681939 original size:31 final size:31
Alignment explanation
Indices: 2681882--2681994 Score: 116
Period size: 31 Copynumber: 3.8 Consensus size: 31
2681872 GGACCCCAAA
* *
2681882 AAGTTTAAGTACCAATTTA--AAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
2681911 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
*
2681942 AAGTTT-GAGTACCAAATT-GGACAAAA----A
1 AAGTTTAG-GTACCAAATTAGGA-AAAAGTGTC
*
2681969 AAGTTTAGGTACCAAATTAAGAAAAA
1 AAGTTTAGGTACCAAATTAGGAAAAA
2681995 ATGTTAAGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
27 20 0.27
28 3 0.04
29 17 0.23
30 4 0.05
31 30 0.41
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.26
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
Found at i:2681995 original size:27 final size:27
Alignment explanation
Indices: 2681911--2681995 Score: 84
Period size: 27 Copynumber: 3.0 Consensus size: 27
2681901 AAAAAGTGTC
*
2681911 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAA----A
2681942 AAGTTT-GAGTACCAAATT-GGACAAAAA
1 AAGTTTAG-GTACCAAATTAGGA-AAAAA
*
2681969 AAGTTTAGGTACCAAATTAAGAAAAAA
1 AAGTTTAGGTACCAAATTAGGAAAAAA
2681996 TGTTAAGCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
27 21 0.44
28 3 0.06
30 4 0.08
31 20 0.42
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (27 bp):
AAGTTTAGGTACCAAATTAGGAAAAAA
Found at i:2683653 original size:18 final size:18
Alignment explanation
Indices: 2683630--2683667 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2683620 TAATATAGTT
2683630 TTATTCG-GTATATTCGAA
1 TTATTCGAGT-TATTCGAA
2683648 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
2683666 TT
1 TT
2683668 CGAAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:2685653 original size:144 final size:144
Alignment explanation
Indices: 2685447--2685750 Score: 457
Period size: 144 Copynumber: 2.1 Consensus size: 144
2685437 AGTCGTTGTG
* * *
2685447 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATCTTTGATCCTTTTG
1 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAATCTCCAATCTCTGAACC-TTTG
* * * *
2685512 G-GAAACAAAATCAATGGATCTATCCCATTAGAAATTGGATATTTGAGAAATTTGACATATTTGG
65 GAAAAAAAAAATAAATGGATCTATCCCATTAGAAATTCGATATTTGAGAAATTTGACATATTTGG
2685576 ATCTCTACAACAATA
130 ATCTCTACAACAATA
*
2685591 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAATCAATCTCCAATCTCTGAACCTTTGG
1 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAATCTCCAATCTCTGAACCTTTGG
* * *
2685656 AAAAAAAAAATAAATGGATCTATCCCATTTGAACTTCGATATTTGAGAAATTTGACTTATTTGGA
66 AAAAAAAAAATAAATGGATCTATCCCATTAGAAATTCGATATTTGAGAAATTTGACATATTTGGA
*
2685721 TCTCTCCAACAATA
131 TCTCTACAACAATA
* * *
2685735 GACTTGTCGGTTCAAT
1 GAATTGTTGGTCCAAT
2685751 ACCCATTACT
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
143 5 0.03
144 139 0.97
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (144 bp):
GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAATCTCCAATCTCTGAACCTTTGG
AAAAAAAAAATAAATGGATCTATCCCATTAGAAATTCGATATTTGAGAAATTTGACATATTTGGA
TCTCTACAACAATA
Found at i:2685796 original size:144 final size:143
Alignment explanation
Indices: 2685447--2685796 Score: 391
Period size: 144 Copynumber: 2.4 Consensus size: 143
2685437 AGTCGTTGTG
* * * * * * *
2685447 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATCTTTGATCCTTTTG
1 GAATTGTCGGTCCAATCCCTTCTGCTTT-GGCCAATTAACCAATCTCAAAACTCTGAACC-TTTG
* * * *
2685512 G-GAAACAAAATCAATGGATCTATCCCATTAGAAATTGGATATTTGAGAAATTTGACATATTTGG
64 GAAAAAAAAAATAAATGGATCTATCCCATTAGAAATTCGATATTTGAGAAATTTGACATATTTGG
2685576 ATCTCTACAACAATA
129 ATCTCTACAACAATA
* * * * *
2685591 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAATCAATCTCCAATCTCTGAACCTTTGG
1 GAATTGTCGGTCCAATCCCTTCTGCTTT-GGCCAATTAACCAATCTCAAAACTCTGAACCTTTGG
* * *
2685656 AAAAAAAAAATAAATGGATCTATCCCATTTGAACTTCGATATTTGAGAAATTTGACTTATTTGGA
65 AAAAAAAAAATAAATGGATCTATCCCATTAGAAATTCGATATTTGAGAAATTTGACATATTTGGA
*
2685721 TCTCTCCAACAATA
130 TCTCTACAACAATA
* * * * * *
2685735 GACTTGTCGGTTCAATACCCATTACT-CTTT-GCCAATTAACCAATTTGAAAACTTTGTACCTT
1 GAATTGTCGGTCCAAT-CCC-TT-CTGCTTTGGCCAATTAACCAATCTCAAAACTCTGAACCTT
2685797 GAATATAACT
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
143 5 0.03
144 163 0.91
145 3 0.02
146 6 0.03
147 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (143 bp):
GAATTGTCGGTCCAATCCCTTCTGCTTTGGCCAATTAACCAATCTCAAAACTCTGAACCTTTGGA
AAAAAAAAATAAATGGATCTATCCCATTAGAAATTCGATATTTGAGAAATTTGACATATTTGGAT
CTCTACAACAATA
Found at i:2686216 original size:144 final size:144
Alignment explanation
Indices: 2685926--2686191 Score: 381
Period size: 144 Copynumber: 1.8 Consensus size: 144
2685916 GTTCGTTTCA
* *
2685926 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTGTTGGTAGCTTATCAAAGATGCGGTA
1 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGCTTATCAAAGATGCAGTA
* * ** * * * *
2685991 CTTAATCCTTGGTTCTAATCTATTAAAAGGTCCTATCCCCCAAGAAATTTGTAATCTAGCAAATT
66 CTTAAGCCTTGGTTCAAATCTATTAAAAGGTCCTATCCCAAAAGAAATTGGCAAGCTAGCAAATC
* * **
2686056 TAACTTTATTGTAC
131 TAACTATACTAAAC
*
2686070 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAG-TTCTTCAAAGATGCAGT
1 CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGCTT-ATCAAAGATGCAGT
2686134 ACTTAAGCCTTGGTTCAAATCTATTAAAAGGTCCTATCCCAAAAGAAATTGGCAAGCT
65 ACTTAAGCCTTGGTTCAAATCTATTAAAAGGTCCTATCCCAAAAGAAATTGGCAAGCT
2686192 TTTTGATCTA
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
143 2 0.02
144 109 0.98
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (144 bp):
CTCTCCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGCTTATCAAAGATGCAGTA
CTTAAGCCTTGGTTCAAATCTATTAAAAGGTCCTATCCCAAAAGAAATTGGCAAGCTAGCAAATC
TAACTATACTAAAC
Found at i:2691115 original size:83 final size:83
Alignment explanation
Indices: 2691023--2691184 Score: 191
Period size: 83 Copynumber: 2.0 Consensus size: 83
2691013 CAAAAAAATC
* * ** * **
2691023 TAAC-AAAAAAATTCTATTTTGAAACAAATGTAAGAAAGCATAAAAAACTAAAGAAAACAAAGGA
1 TAACAAAAAAAACTC-ATTTCGAAACAAATACAAAAAAGCATAAAAAACTAAAGAAAACAAAAAA
2691087 ATCTCAACTTCTACTCCAA
65 ATCTCAACTTCTACTCCAA
* * * * * *
2691106 TAACTAAAAAAACTCATTTCGGAACAGATACAAAAAAGCATAGAAAATTAATGAAAACAAAAAAA
1 TAACAAAAAAAACTCATTTCGAAACAAATACAAAAAAGCATAAAAAACTAAAGAAAACAAAAAAA
2691171 TCTCAACTTCTACT
66 TCTCAACTTCTACT
2691185 TCAAATCAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
83 57 0.86
84 9 0.14
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (83 bp):
TAACAAAAAAAACTCATTTCGAAACAAATACAAAAAAGCATAAAAAACTAAAGAAAACAAAAAAA
TCTCAACTTCTACTCCAA
Found at i:2694894 original size:21 final size:20
Alignment explanation
Indices: 2694852--2694911 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
2694842 AGTTTATTTA
* **
2694852 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
2694872 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
2694893 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
2694912 ATTAATTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:2700308 original size:14 final size:14
Alignment explanation
Indices: 2700291--2700317 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2700281 GTAAAACAAT
2700291 AAAAATATTTTACG
1 AAAAATATTTTACG
2700305 AAAAATATTTTAC
1 AAAAATATTTTAC
2700318 ATGCAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAAATATTTTACG
Found at i:2700827 original size:30 final size:30
Alignment explanation
Indices: 2700791--2700869 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
2700781 GGACCTCAAA
*
2700791 AAGTTTAAGTACCAATTTA-AAATAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAA-AAGTGTC
* *
2700821 AAGTTTAGGTACTAAATTAGGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTA-GAAAAAGTGTC
* *
2700852 AAGTATGAGTACCAAATT
1 AAGTTTAAGTACCAAATT
2700870 GAACTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 16 0.40
31 21 0.52
32 3 0.08
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (30 bp):
AAGTTTAAGTACCAAATTAGAAAAAGTGTC
Found at i:2701514 original size:21 final size:21
Alignment explanation
Indices: 2701473--2701514 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
2701463 TTTTTTTATG
*
2701473 TTTTTTCAACTTTCCTTTTTT
1 TTTTTTCAACTTTCATTTTTT
* *
2701494 TTTTTTC-ATTTTCATTCTTT
1 TTTTTTCAACTTTCATTTTTT
2701514 T
1 T
2701515 CTACTTCCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTTCAACTTTCATTTTTT
Found at i:2706085 original size:144 final size:144
Alignment explanation
Indices: 2705825--2706098 Score: 444
Period size: 144 Copynumber: 1.9 Consensus size: 144
2705815 TCTCGTATTC
* * *
2705825 GTAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTACAAGCCCTTCT
1 GTAATCTAGAAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTAAGTGGTACAAGCCCTTCT
*
2705890 TGTGTTGGTAGTTTATCAAAGATGCTGTACTTAAGCCTTGGTTCAAATCTATTAAAAGGTCCTAT
66 TGTGTTGGTAGTTTATCAAAGATGCTGTACTTAAGCCTTGATTCAAATCTATTAAAAGGTCCTAT
2705955 TCCCCATGAAATTT
131 TCCCCATGAAATTT
* * * *
2705969 GTAATCTAGAAAATTTAACTTCATTGTA-CCTCTCCCAAAACAATTTAAGTGGTTCAATCCCTTC
1 GTAATCTAGAAAATTTAACTTCATT-AAGCCTCTCCCAAAACAAATTAAGTGGTACAAGCCCTTC
2706033 TTGTGTTGGTAGTTTATCAAAGATGCTGTACTTATA-CCTTGATTCAAATCTATTAAAAGGTCCT
65 TTGTGTTGGTAGTTTATCAAAGATGCTGTACTTA-AGCCTTGATTCAAATCTATTAAAAGGTCCT
2706097 AT
129 AT
2706099 CCCAAAAGAA
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
144 118 0.98
145 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (144 bp):
GTAATCTAGAAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTAAGTGGTACAAGCCCTTCT
TGTGTTGGTAGTTTATCAAAGATGCTGTACTTAAGCCTTGATTCAAATCTATTAAAAGGTCCTAT
TCCCCATGAAATTT
Found at i:2710966 original size:21 final size:21
Alignment explanation
Indices: 2710932--2710979 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
2710922 AGTATATATA
*
2710932 TATAAAAAATTATA-ATTGTTT
1 TATAAAAAAGTATATATT-TTT
*
2710953 TATAAATAAGTATATTATTTTT
1 TATAAAAAAGTATA-TATTTTT
2710975 TATAA
1 TATAA
2710980 CATATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 8 0.35
23 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
TATAAAAAAGTATATATTTTT
Found at i:2715329 original size:144 final size:144
Alignment explanation
Indices: 2715136--2715556 Score: 781
Period size: 144 Copynumber: 2.9 Consensus size: 144
2715126 AGTCAATGTG
* *
2715136 GAATTGTTGGTCCAATCCCTTCTGCTTTCGGTCAATTAACCAATCTCCAATCTCTGATCCTTTGG
1 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATCTCTGATCCTTTGG
2715201 GGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGG
66 GGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGG
2715266 TCTCTCCAACAACA
131 TCTCTCCAACAACA
* *
2715280 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATATCTGGTCCTTTGG
1 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATCTCTGATCCTTTGG
2715345 GGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGG
66 GGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGG
2715410 TCTCTCCAACAACA
131 TCTCTCCAACAACA
2715424 GAATTGTTGGTCCAATCCC-TCTGCTTTGGGTCAATTAACCAGTCTCCAATCTCTGATCCTTTGG
1 GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATCTCTGATCCTTTGG
* *
2715488 AGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGA
66 GGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGG
2715553 TCTC
131 TCTC
2715557 AGCGACAATA
Statistics
Matches: 269, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
143 110 0.41
144 159 0.59
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (144 bp):
GAATTGTTGGTCCAATCCCTTCTGCTTTGGGTCAATTAACCAGTCTCCAATCTCTGATCCTTTGG
GGGAACCAAATCAATGGATCTATCCCATTAGAAATTGGATACTTGAGAAATTTGACTATTTTGGG
TCTCTCCAACAACA
Done.