Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1749
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: 365996
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:163653 original size:21 final size:23
Alignment explanation
Indices: 163629--163674 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
163619 AAAAGGAGGG
*
163629 AAAAAAGA-AAGAAAAA-AG-GA
1 AAAAAAAACAAGAAAAATAGAGA
163649 AAAAAAAACAAGAAAAATAGAGA
1 AAAAAAAACAAGAAAAATAGAGA
163672 AAA
1 AAA
163675 TAGTTGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 2 0.09
23 5 0.23
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAGAAAAATAGAGA
Found at i:163664 original size:19 final size:19
Alignment explanation
Indices: 163627--163664 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
163617 AAAAAAGGAG
*
163627 GGAAAAAAGAAAGAAAAAA
1 GGAAAAAAGAAACAAAAAA
163646 GGAAAAAA-AAACAAGAAAA
1 GGAAAAAAGAAACAA-AAAA
163665 ATAGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (19 bp):
GGAAAAAAGAAACAAAAAA
Found at i:165631 original size:155 final size:155
Alignment explanation
Indices: 165092--165738 Score: 641
Period size: 155 Copynumber: 4.2 Consensus size: 155
165082 TACTTCTACA
* * * *
165092 TCGAAGGTATCC-CTTAGGGG-ATTTTCGTAATTTTTCTATAACTGAGTCTTAGGTTGTCAAC-A
1 TCGAAGGTATCCTC-TAGGGGTATTTTCGTAATTTTT-TATAACCGAGTCCTAGGTTGT-TACTG
* * **
165154 GGTCTACTTTTATGCCAAAGGTAGGTATTTAGGATAGGTTCACCCCATCCATATATTTTTTAAGC
63 GGTCTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGC
* *
165219 CCTTTAGGGGTATCAAG-TACTTTTACG
128 CCTTTAGGGGTATCGAGATACTTTTATG
* * * * * *
165246 TCGAAAGTATCCCCTAGGGGTATTTTCATAATTTTTT-T-ACTGAGTTCTAGGTTGTTACTGAGT
1 TCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTATAACCGAGTCCTAGGTTGTTACTGGGT
* * * *
165309 TTGTTTTTTATGCCAAAGGTGGGTATTTAGGATAGG-CCACCCAATCCATATCCTTTTTAAGCCC
66 CTG-CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGCCC
** * *
165373 TTTAAAGGTATCG-GGTACTTTTATA
130 TTTAGGGGTATCGAGATACTTTTATG
* * * * * * * * ** *
165398 TCAAAGATAT-CTCCTAGGGGCATTTTCGTAAGTTTTCTAGAATCGAGTCTTAGGATGTCCCTAG
1 TCGAAGGTATCCT-CTAGGGGTATTTTCGTAA-TTTTTTATAACCGAGTCCTAGGTTGTTACTGG
* * *
165462 GTCTACTTTTATGCCAAAGGTGGGTATTTAGAATAGGTTCACCCCATCCATATCCTTTTTAAGTC
64 GTCTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGCC
*
165527 CTTTAGGGGTACCGAGATACTTTTATG
129 CTTTAGGGGTATCGAGATACTTTTATG
* * * *
165554 TCGAAGGTATCCTCTAGGGATATTTTCGTAATTTTTTATAACCAACTCCTAGGTTCTTACTGGGT
1 TCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTATAACCGAGTCCTAGGTTGTTACTGGGT
* * * * * * *
165619 CCGCTTTCATGCCGAAGGTGGGTATTTAGGATAGGTTCAACCCATCTTAAAT-CTTTTTAAGTCC
66 CTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACCCCATC-CATATCCTTTTTAAGCCC
* * *
165683 TTTAGGGTTATCGGGATACTTTCATG
130 TTTAGGGGTATCGAGATACTTTTATG
* *
165709 CCGAAGGTATACC-CATAGGGGCATTTTCGT
1 TCGAAGGTAT-CCTC-TAGGGGTATTTTCGT
165739 TTTTTCTAGA
Statistics
Matches: 399, Mismatches: 79, Indels: 28
0.79 0.16 0.06
Matches are distributed among these distances:
151 4 0.01
152 83 0.21
153 36 0.09
154 48 0.12
155 174 0.44
156 52 0.13
157 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (155 bp):
TCGAAGGTATCCTCTAGGGGTATTTTCGTAATTTTTTATAACCGAGTCCTAGGTTGTTACTGGGT
CTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCACCCCATCCATATCCTTTTTAAGCCCT
TTAGGGGTATCGAGATACTTTTATG
Found at i:167088 original size:77 final size:77
Alignment explanation
Indices: 166986--167140 Score: 222
Period size: 77 Copynumber: 2.0 Consensus size: 77
166976 CTAATTTAAT
* ** * *
166986 TTTATTTATTTTCGTAAATACCATTTTGTACCTTAATAGAAGCCC-AAAAAGATACGAAAAGTTT
1 TTTATTTATTTTCGAAAATACCATTTCATACCTTAATAAAAGCCCGAAAAA-ATACAAAAAGTTT
167050 TTGAAATCTTTTA
65 TTGAAATCTTTTA
* * *
167063 TTTATTTATTTTTGAAAATATCATTTCATACTTTAATAAAAGCCCGAAAAAATACAAAAAGTTTT
1 TTTATTTATTTTCGAAAATACCATTTCATACCTTAATAAAAGCCCGAAAAAATACAAAAAGTTTT
167128 TGAAATCTTTTA
66 TGAAATCTTTTA
167140 T
1 T
167141 ACCTTTACGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 64 0.93
78 5 0.07
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (77 bp):
TTTATTTATTTTCGAAAATACCATTTCATACCTTAATAAAAGCCCGAAAAAATACAAAAAGTTTT
TGAAATCTTTTA
Found at i:168832 original size:166 final size:166
Alignment explanation
Indices: 168425--168886 Score: 515
Period size: 166 Copynumber: 2.8 Consensus size: 166
168415 AATTTCTTCA
* * * * * *
168425 AAAATATTTATGGAA-TAGAAAA-TTCGTTTTTTTAAAAAATGAGAATTTCAAGGAAAAAATTCA
1 AAAATATTTA-CGAAGTAGAAAATTTCG-TTTTTGAAAAAAGGAAAATTTTAAGAAAAAAATTCA
* * * * * *
168488 AATACTTAT-AAAAAGAATGAATTTTTGAAAACCCTAATTTAATATGAAATAAATAATAATATTT
64 AAAACTCATGAAAATGAATTAATTTTTGAAAA--CTAATTTAATATGAAATAAATAAGAATGTTT
* * * **
168552 GATGAATTTTAATAATTAAAAACTAAGAAAAATCTCCGTG
127 GATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCCG
* * *
168592 AAAAAAATTAC-AGAGTAAAAAATTTCGTATTTTGAAAAAAAGG-AAATTTTAAAGAAAAAAATT
1 AAAATATTTACGA-AGTAGAAAATTTCGT-TTTTG-AAAAAAGGAAAATTTT-AAGAAAAAAATT
* * *
168655 -AAAAACTCATGAAATTGAATTAATTTTTGAAAAATAATTTACTATGAAATAAATAAGAATGTTT
62 CAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATGAAATAAATAAGAATGTTT
*
168719 GATAAATTTTAAAAATT-AAAACCAAGAAAAATTTCCCCG
127 GATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCCG
* *
168758 AAAATATTTACGAAGTAGAAAATTTTGTTTTTCGAAAATAGGAAAATTTTAAGAAAAAAATTCAA
1 AAAATATTTACGAAGTAGAAAATTTCGTTTTT-GAAAAAAGGAAAATTTTAAGAAAAAAATTCAA
* ** * *
168823 AAACTCATGAAAATAAATTAATTTTTGAAAACCGATTTAATACGGAATAAATAAGAATGTTTGA
65 AAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATGAAATAAATAAGAATGTTTGA
168887 CGAATTTTGA
Statistics
Matches: 247, Mismatches: 37, Indels: 23
0.80 0.12 0.07
Matches are distributed among these distances:
165 24 0.10
166 107 0.43
167 58 0.23
168 21 0.09
169 37 0.15
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (166 bp):
AAAATATTTACGAAGTAGAAAATTTCGTTTTTGAAAAAAGGAAAATTTTAAGAAAAAAATTCAAA
AACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATGAAATAAATAAGAATGTTTGATA
AATTTTAAAAATTAAAAACCAAGAAAAATCTCCCCG
Found at i:172078 original size:26 final size:26
Alignment explanation
Indices: 172040--172092 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
172030 ACACCATATC
172040 CATGGATAGTGGTTAATATGCTCTCT
1 CATGGATAGTGGTTAATATGCTCTCT
* *
172066 CATGGATATTGGTTAATATTCTCTCT
1 CATGGATAGTGGTTAATATGCTCTCT
172092 C
1 C
172093 TCTCTCTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (26 bp):
CATGGATAGTGGTTAATATGCTCTCT
Found at i:172092 original size:2 final size:2
Alignment explanation
Indices: 172085--172115 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
172075 TGGTTAATAT
172085 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
172116 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:175196 original size:40 final size:41
Alignment explanation
Indices: 175151--175237 Score: 140
Period size: 40 Copynumber: 2.1 Consensus size: 41
175141 TTTAGTTAAT
* *
175151 AATATTGTCTTTAAAATTTTTTAAATACATAATTTT-AAAA
1 AATATTATCTTCAAAATTTTTTAAATACATAATTTTAAAAA
*
175191 AATATTATCTTCAAAATTTTTTAAATATATAATTTTAAAAA
1 AATATTATCTTCAAAATTTTTTAAATACATAATTTTAAAAA
175232 AATATT
1 AATATT
175238 TAAAATATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
40 33 0.77
41 10 0.23
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (41 bp):
AATATTATCTTCAAAATTTTTTAAATACATAATTTTAAAAA
Found at i:181085 original size:13 final size:13
Alignment explanation
Indices: 181067--181098 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
181057 GCAATTGTGT
181067 ATGTATCGATACA
1 ATGTATCGATACA
181080 ATGTATCGATACA
1 ATGTATCGATACA
*
181093 AAGTAT
1 ATGTAT
181099 GATGTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:184316 original size:97 final size:97
Alignment explanation
Indices: 184105--184316 Score: 293
Period size: 97 Copynumber: 2.2 Consensus size: 97
184095 AATTTTATTT
* * *
184105 ATCGGGGATACCCTAA-CCTATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
184169 GTTTAAATCTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* * * * ** *
184201 ATTGGGGACACT-TCAACCCTATTCCTCTGAGGGTATACTTCAACCCCGCTTTTAAACGTATGAA
1 ATCGGGGACACTCT-AACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
* *
184265 AGTTTAAATTTTATTCTCACTTATATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAATTGTCATC
184298 ATCGGGGACACTCTAACCC
1 ATCGGGGACACTCTAACCC
184317 CGTTTTTCAA
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.01
96 11 0.11
97 87 0.87
98 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (97 bp):
ATCGGGGACACTCTAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:189016 original size:22 final size:22
Alignment explanation
Indices: 188990--189050 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
188980 AAAAAAAGGT
** *
188990 CAAAAGCAAAAGTATAAAATATG
1 CAAAAGCAAAACAAAAAAAT-TG
*
189013 -AAAAGAAAAACAAAAAAATTG
1 CAAAAGCAAAACAAAAAAATTG
*
189034 CAAAAGCAAAATAAAAA
1 CAAAAGCAAAACAAAAA
189051 GGGAACAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.70, C:0.08, G:0.10, T:0.11
Consensus pattern (22 bp):
CAAAAGCAAAACAAAAAAATTG
Found at i:190449 original size:55 final size:56
Alignment explanation
Indices: 190331--190457 Score: 168
Period size: 55 Copynumber: 2.3 Consensus size: 56
190321 AGTGGCATTT
* ** * *
190331 CTTTTCAAAGTCCACAACTTTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAAGTCAACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACC
*
190388 CTTTTAAAGTCAACAACTCCGTGGCACCCTTTT-AAGTCCACAACTTCATGGCACC
1 CTTTTAAAGTCAACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACC
*
190443 CTTTT-AAGTCTACAA
1 CTTTTAAAGTCAACAA
190458 GTCGATGGCA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 9 0.14
55 25 0.40
56 24 0.38
57 5 0.08
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.30
Consensus pattern (56 bp):
CTTTTAAAGTCAACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACC
Found at i:190490 original size:32 final size:32
Alignment explanation
Indices: 190454--191293 Score: 1109
Period size: 32 Copynumber: 26.7 Consensus size: 32
190444 TTTTAAGTCT
* * *
190454 ACAAGTCGATGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190486 ACAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190518 ACATGTCGGTGGCAACCCATTTCAAAG-CC-C
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
190548 ACAAGTCAGTGGC-ATCC-TTTTAAAG-CC-C
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
190576 ACAAGTCAGTGGC-ATCC-TTTTAAAG-CC-C
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * * *
190604 ACAAGTCAGTGAC-A-TCATTTAAAAG-CC-C
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190632 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
190664 ATAAGTCGGTGGCAACTCC-TTTGAAAGCTCAC
1 ACAAGTCGGTGGCAAC-CCATTTCAAAGCCCAC
**
190696 ACAAGTTAGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190728 ACAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190760 ACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* ** *
190792 ACAAGTTGGTGGCAACTGATTTGAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
190824 ACAAGTTGGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
190856 ACAAGTTGGTGGCAACCCATTTCAAAGCCCGC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
190888 ACAAGTCGGT-GCTAACTCATTTGAAAGCCCGC
1 ACAAGTCGGTGGC-AACCCATTTCAAAGCCCAC
* * *
190920 ACAAGTCGGTGGCAACTCATTTGAAGGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190952 ACAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
190984 AAAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
191016 AAAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
191048 ACAAGTCGGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
191080 ACAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
191112 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
191144 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
191176 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
191208 ACAAGTTGGTGGCAACCCATTTCAAAGTCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
191240 ATAAGTTGGTGGCAACCCATTTCAAAGCCCAC
1 ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
191272 TCAAGTCGGTGGCAACCCATTT
1 ACAAGTCGGTGGCAACCCATTT
191294 TAGTGGCATC
Statistics
Matches: 739, Mismatches: 60, Indels: 18
0.90 0.07 0.02
Matches are distributed among these distances:
27 1 0.00
28 72 0.10
29 4 0.01
30 22 0.03
31 8 0.01
32 629 0.85
33 3 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (32 bp):
ACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
Found at i:190608 original size:28 final size:28
Alignment explanation
Indices: 190319--190728 Score: 225
Period size: 28 Copynumber: 13.9 Consensus size: 28
190309 AGTCCACGAT
* * *
190319 TCAGTGGCATTTCTTTTCAAAGTCCACAAC
1 TCAGTGGCA-TCCTTTT-AAAGCCCACAAG
** * *
190349 TTTGTGGCATCCTTTTAAAGTCCACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * * *
190377 TCCGTGGCACCCTTTTAAAGTCAACAAC
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * * *
190405 TCCGTGGCACCCTTTT-AAGTCCACAACT
1 TCAGTGGCATCCTTTTAAAGCCCACAA-G
* * *
190433 TCA-TGGCACCCTTTT-AAGTCTACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* *
190459 TC-GATGGCAACTCATTTGAAAGCCCACACAAG
1 TCAG-TGGC-A-TCCTTTTAAAG-CC-CACAAG
** * *
190491 TTGGTGGCAACCCATTTCAAAGCCCACACATG
1 TCAGTGGC-ATCC-TTTTAAAGCCCACA-A-G
* * *
190523 TCGGTGGCAACCCATTTCAAAGCCCACAAG
1 TCAGTGGC-ATCC-TTTTAAAGCCCACAAG
190553 TCAGTGGCATCCTTTTAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
190581 TCAGTGGCATCCTTTTAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
190609 TCAGTGACATCATTTAAAAGCCCACAAG
1 TCAGTGGCATCCTTTTAAAGCCCACAAG
* * *
190637 TCGGTGGCAACTCATTTCAAAGCCCACATAAG
1 TCAGTGGC-A-TCCTTTTAAAGCCCAC--AAG
* *
190669 TCGGTGGCAACTCCTTTGAAAGCTCACACAAG
1 TCAGTGGC-A-TCCTTTTAAAGC-C-CACAAG
* * *
190701 TTAGTGGCAACCCATTTCAAAGCCCACA
1 TCAGTGGC-ATCC-TTTTAAAGCCCACA
190729 CAAGTTGGTG
Statistics
Matches: 324, Mismatches: 37, Indels: 38
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.01
27 34 0.10
28 129 0.40
29 14 0.04
30 41 0.13
31 9 0.03
32 90 0.28
33 2 0.01
34 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
TCAGTGGCATCCTTTTAAAGCCCACAAG
Found at i:191325 original size:28 final size:28
Alignment explanation
Indices: 191295--191610 Score: 269
Period size: 28 Copynumber: 10.9 Consensus size: 28
191285 AACCCATTTT
*
191295 AGTGGCATCCTTTTAAAGCCCACAAGTT
1 AGTGGCATCCTTTTAAAGCCCACAAGTC
* * *
191323 AGTGGCATCATTTCAAAGTCCACAAGTC
1 AGTGGCATCCTTTTAAAGCCCACAAGTC
* *
191351 AATGGCATACCCTTTCAAAGCCCACAAGTC
1 AGTGGCAT--CCTTTTAAAGCCCACAAGTC
* * *
191381 AATGGCA-CATTTTCAAAGCCCACAAGAC
1 AGTGGCATCCTTTT-AAAGCCCACAAGTC
*
191409 AGTGGCAT-CTTTTCAAAGCCCACAAGTT
1 AGTGGCATCCTTTT-AAAGCCCACAAGTC
* *
191437 AGTGACATCCTTTCAAAAGCCCACAAG-C
1 AGTGGCATCCTTT-TAAAGCCCACAAGTC
* *
191465 TAGTGACATTCTTTTCAAAGCCCACAAGTC
1 -AGTGGCATCCTTTT-AAAGCCCACAAGTC
*
191495 AGTGGCATCCTTTTCAAAGCCCGCAAGTC
1 AGTGGCATCCTTTT-AAAGCCCACAAGTC
* *
191524 AGTGGTATCCTTTCAAAGCCTACACAAGTC
1 AGTGGCATCCTTTTAAAGCC--CACAAGTC
* * *
191554 GGTGGCAACTCTTTTTTTCAAAGCCTACAAGTC
1 AGTGGC-A-TC--CTTTT-AAAGCCCACAAGTC
* * *
191587 AGTGGTACCCTTTCAAAGCCCACA
1 AGTGGCATCCTTTTAAAGCCCACA
191611 CAAGTCGGTA
Statistics
Matches: 236, Mismatches: 36, Indels: 32
0.78 0.12 0.11
Matches are distributed among these distances:
27 4 0.02
28 89 0.38
29 81 0.34
30 37 0.16
31 2 0.01
32 3 0.01
33 11 0.05
34 3 0.01
35 6 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (28 bp):
AGTGGCATCCTTTTAAAGCCCACAAGTC
Found at i:191387 original size:58 final size:58
Alignment explanation
Indices: 191295--191610 Score: 285
Period size: 58 Copynumber: 5.4 Consensus size: 58
191285 AACCCATTTT
* * *
191295 AGTGGCAT--CCTTTTAAAGCCCACAAGTTAGTGGCATCATTTCAAAGTCCACAAGTC
1 AGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
* * *
191351 AATGGCATACCCTTTCAAAGCCCACAAGTCAATGGCA-CATTTTCAAAGCCCACAAGAC
1 AGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCATCA-TTTCAAAGCCCACAAGTC
* * * *
191409 AGTGGCAT--CTTTTCAAAGCCCACAAGTTAGTGACATCCTTTCAAAAGCCCACAAG-C
1 AGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTC-AAAGCCCACAAGTC
* * * * *
191465 TAGTGACAT-TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCGCAAGTC
1 -AGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGTC
* * * *
191524 AGTGG--TATCCTTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTTTTTCAAAGCCTACAAGTC
1 AGTGGCATACCCTTTCAAAGCC--CACAAGTCAGTGGC-A-TC---ATTTCAAAGCCCACAAGTC
191587 AGTGG--TACCCTTTCAAAGCCCACA
1 AGTGGCATACCCTTTCAAAGCCCACA
191611 CAAGTCGGTA
Statistics
Matches: 220, Mismatches: 23, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
56 36 0.16
57 34 0.15
58 88 0.40
59 19 0.09
60 2 0.01
61 5 0.02
63 36 0.16
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (58 bp):
AGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
Found at i:191463 original size:29 final size:28
Alignment explanation
Indices: 190304--191208 Score: 227
Period size: 32 Copynumber: 29.5 Consensus size: 28
190294 CTGTGACCTC
* * * *
190304 TTCAAAGTCCACGATTCAGTGGCATTTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA--TCCT
* * **
190334 TTCAAAGTCCACAACTTTGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * *
190362 TTTAAAGTCCACAACTCCGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
190390 TTTAAAGTCAACAACTCCGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
190418 TT-TAAGTCCACAACTTCA-TGGCACCCT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCT
* * * *
190445 TT-TAAGTCTACAAGTC-GATGGCAACTCAT
1 TTCAAAGCCCACAAGTCAG-TGGC-A-TCCT
* ** *
190474 TTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
190506 TTCAAAGCCCACACATGTCGGTGGCAACCCAT
1 TTCAAAGCCCACA-A-GTCAGTGGC-ATCC-T
190538 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
190566 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
190594 TTTAAAGCCCACAAGTCAGTGACATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
190622 TTAAAAGCCCACAAGTCGGTGGCAACTCAT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
*
190652 TTCAAAGCCCACATAAGTCGGTGGCAACTCCT
1 TTCAAAGCCCAC--AAGTCAGTGGC-A-TCCT
* * *
190684 TTGAAAGCTCACACAAGTTAGTGGCAACCCAT
1 TTCAAAGC-C-CACAAGTCAGTGGC-ATCC-T
** *
190716 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
190748 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
** **
190780 TTCAAAGCCCACACAAGTTGGTGGCAACTGAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* ** *
190812 TTGAAAGCCCACACAAGTTGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* ** *
190844 TTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
190876 TTCAAAGCCCGCACAAGTCGGT-GCTAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC--A-TCCT
* * *
190908 TTGAAAGCCCGCACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* * ** *
190940 TTGAAGGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
190972 TTCAAAGCCCACAAAAGTCGGTGGCAACCCAT
1 TTCAAAGCCCAC--AAGTCAGTGGC-ATCC-T
* *
191004 TTCAAAGCCCACAAAAGTCGGTGGCAACCCAT
1 TTCAAAGCCCAC--AAGTCAGTGGC-ATCC-T
* *
191036 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
* ** *
191068 TTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
191100 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
191132 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
* *
191164 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ATCC-T
191196 TTCAAAGCCCACA
1 TTCAAAGCCCACA
191209 CAAGTTGGTG
Statistics
Matches: 770, Mismatches: 73, Indels: 64
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.00
27 34 0.04
28 133 0.17
29 8 0.01
30 57 0.07
31 17 0.02
32 503 0.65
33 10 0.01
34 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:191542 original size:86 final size:83
Alignment explanation
Indices: 191294--191610 Score: 314
Period size: 86 Copynumber: 3.6 Consensus size: 83
191284 CAACCCATTT
* * * *
191294 TAGTGGCATCCTTTT-AAAGCCCACAAGTTAGTGGCATCATTTCAAAGTCCACAAGTCAATGGCA
1 TAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG--
*
191358 TACCCTTTCAAAGCCCACAAG
63 TATCCTTTCAAAGCCCACAAG
* * * **
191379 TCAATGGCA-CATTTTCAAAGCCCACAAGACAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGAC
1 T-AGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGT
191443 ATCCTTTCAAAAGCCCACAAG
64 ATCCTTTC-AAAGCCCACAAG
* *
191464 CTAGTGACATTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCGCAAGTCAGTGG
1 -TAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGG
191529 TATCCTTTCAAAGCCTACACAAG
63 TATCCTTTCAAAGCC--CACAAG
* * * * *
191552 TCGGTGGCAACTCTTTTTTTCAAAGCCTACAAGTCAGTGGTACCCTTTCAAAGCCCACA
1 T-AGTGGC-A-TC---TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACA
191611 CAAGTCGGTA
Statistics
Matches: 192, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
84 8 0.04
85 22 0.11
86 79 0.41
87 32 0.17
88 10 0.05
89 3 0.02
91 14 0.07
92 24 0.12
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (83 bp):
TAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGTAT
CCTTTCAAAGCCCACAAG
Found at i:191580 original size:35 final size:35
Alignment explanation
Indices: 191534--191631 Score: 102
Period size: 33 Copynumber: 3.0 Consensus size: 35
191524 AGTGGTATCC
191534 TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTT
1 TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTT
* * *
191569 TTTCAAAGCCT--ACAAGTCAGTGG-TAC-C---C
1 TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTT
* *
191597 TTTCAAAGCCCACACAAGTCGGTAGCAACTCTTTT
1 TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTT
191632 CAAAGTCCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
28 10 0.21
30 10 0.21
31 3 0.06
32 3 0.06
33 11 0.23
35 11 0.23
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (35 bp):
TTTCAAAGCCTACACAAGTCGGTGGCAACTCTTTT
Found at i:191585 original size:63 final size:63
Alignment explanation
Indices: 191505--191631 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
191495 AGTGGCATCC
* * * *
191505 TTTTCAAAGCCCGCAAGTCAGTGGTATCCTTTCAAAGCCTACACAAGTCGGTGGCAACTCTTT
1 TTTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTT
*
191568 TTTTCAAAGCCTACAAGTCAGTGGTACCCTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTT
1 TTTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTT
191631 T
1 T
191632 CAAAGTCCAC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (63 bp):
TTTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTT
Found at i:191635 original size:32 final size:31
Alignment explanation
Indices: 191474--191647 Score: 96
Period size: 29 Copynumber: 5.7 Consensus size: 31
191464 CTAGTGACAT
* *
191474 TCTTTTCAAAG-CC-CACAAGTCAGTGGCATC
1 TCTTTTCAAAGCCCACACAAGTCGGT-GCAAC
* * **
191504 -CTTTTCAAAG-CC-CGCAAGTCAGTGGTA-
1 TCTTTTCAAAGCCCACACAAGTCGGTGCAAC
* *
191531 TCCTTTCAAAGCCTACACAAGTCGGTGGCAAC
1 TCTTTTCAAAGCCCACACAAGTCGGT-GCAAC
* * **
191563 TCTTTTTTTCAAAG-CC-TACAAGTCAGTGGTAC
1 TC---TTTTCAAAGCCCACACAAGTCGGTGCAAC
*
191595 -CCTTTCAAAGCCCACACAAGTCGGTAGCAAC
1 TCTTTTCAAAGCCCACACAAGTCGGT-GCAAC
* *
191626 TCTTTTCAAAGTCCACATAAGT
1 TCTTTTCAAAGCCCACACAAGT
191648 TAATGGCACC
Statistics
Matches: 108, Mismatches: 24, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
28 18 0.17
29 25 0.23
30 18 0.17
31 6 0.06
32 23 0.21
33 9 0.08
34 1 0.01
35 8 0.07
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
TCTTTTCAAAGCCCACACAAGTCGGTGCAAC
Found at i:192856 original size:9 final size:9
Alignment explanation
Indices: 192828--192873 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
192818 GGTAAGAAAG
*
192828 AAAGAAGAT
1 AAAGAAGAA
*
192837 GAAGAAG-A
1 AAAGAAGAA
192845 AAAGAAGAA
1 AAAGAAGAA
192854 AAAGAA-AA
1 AAAGAAGAA
*
192862 AAAAAAGAA
1 AAAGAAGAA
192871 AAA
1 AAA
192874 AACATCTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 13 0.42
9 18 0.58
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
AAAGAAGAA
Found at i:192858 original size:17 final size:17
Alignment explanation
Indices: 192821--192873 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
192811 CTGGTTAGGT
* **
192821 AAGAAAGAAAGAAGATG
1 AAGAAAAAAAGAAGAAA
*
192838 AAGAAGAAAAGAAGAAA
1 AAGAAAAAAAGAAGAAA
*
192855 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAGAAGAAA
192872 AA
1 AA
192874 AACATCTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAGAAGAAA
Found at i:194701 original size:97 final size:97
Alignment explanation
Indices: 194541--194757 Score: 335
Period size: 97 Copynumber: 2.2 Consensus size: 97
194531 AATTTTATTT
* * *
194541 ATCGGAGATACTCCAACCCTATTCCTCCGTGGGGATACTCCAACCCCGCTTTTAAACAAATCAAA
1 ATCGGAGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACAAATCAAA
194606 GTTTAAATCTTATTCTCACTTAAATTATCATC
66 GTTTAAATCTTATTCTCACTTAAATTATCATC
* * **
194638 ATCGGAGACACTTCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACGCATCAAA
1 ATCGGAGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACAAATCAAA
* *
194703 GTTTAAATTTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTATCATC
* *
194735 ATCGGGGAGACTCCAACCCCATT
1 ATCGGAGACACTCCAACCCCATT
194758 TTTCAATAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 108 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (97 bp):
ATCGGAGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACAAATCAAA
GTTTAAATCTTATTCTCACTTAAATTATCATC
Found at i:195972 original size:13 final size:13
Alignment explanation
Indices: 195954--195993 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
195944 ATAGTAACCC
195954 ATGTATCGATACA
1 ATGTATCGATACA
195967 ATGTATCGATACA
1 ATGTATCGATACA
*
195980 ATGTATTGATACA
1 ATGTATCGATACA
195993 A
1 A
195994 AGAACATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:197881 original size:13 final size:13
Alignment explanation
Indices: 197863--197889 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
197853 ACATTATGCT
197863 TTGTATCGATACA
1 TTGTATCGATACA
197876 TTGTATCGATACA
1 TTGTATCGATACA
197889 T
1 T
197890 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:197898 original size:19 final size:19
Alignment explanation
Indices: 197873--197931 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
197863 TTGTATCGAT
*
197873 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
* *
197892 TCATTGTATTGATACATGA
1 ACATTGTATCGATACATGA
*
197911 ACAAATGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
197931 A
1 A
197932 ACTGGCAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:197925 original size:20 final size:19
Alignment explanation
Indices: 197877--197931 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
197867 ATCGATACAT
** *
197877 TGTATCGATACATGTTCAT
1 TGTATCGATACATGAACAA
*
197896 TGTATTGATACATGAACAAA
1 TGTATCGATACATGAAC-AA
197916 TGTATCGATACATGAA
1 TGTATCGATACATGAA
197932 ACTGGCAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATGAACAA
Found at i:198018 original size:33 final size:33
Alignment explanation
Indices: 197959--198023 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
197949 TACCACTGTT
*
197959 TGTATCGATACATGGCACATTTTATCGATACAA
1 TGTATCGATACATGGCACATTGTATCGATACAA
197992 TGTATCGATACATGAAG-A-ATTGTATCGATACA
1 TGTATCGATACATG--GCACATTGTATCGATACA
198024 TTGACTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGTATCGATACAA
Found at i:204087 original size:13 final size:13
Alignment explanation
Indices: 204069--204108 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
204059 ACAATGTTCT
204069 TTGTATCGATACA
1 TTGTATCGATACA
204082 TTGTATCGATACA
1 TTGTATCGATACA
* *
204095 ATGTATCGAAACA
1 TTGTATCGATACA
204108 T
1 T
204109 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:206614 original size:19 final size:19
Alignment explanation
Indices: 206590--206663 Score: 121
Period size: 19 Copynumber: 3.8 Consensus size: 19
206580 GTATCGATAT
206590 ATTGTATCGATACATGTTC
1 ATTGTATCGATACATGTTC
206609 ATTGTATCGATACATGTTC
1 ATTGTATCGATACATGTTC
*
206628 ATTGTATCGATACATGTAC
1 ATTGTATCGATACATGTTC
*
206647 AAATGTATCGATACATG
1 -ATTGTATCGATACATG
206664 AAACTGGTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
19 37 0.71
20 15 0.29
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (19 bp):
ATTGTATCGATACATGTTC
Found at i:206735 original size:33 final size:32
Alignment explanation
Indices: 206693--206757 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
206683 TACTACTGTT
206693 TGTATCAATACATG-GCACATTGTATCGATACAA
1 TGTATCAATACATGAG-A-ATTGTATCGATACAA
206726 TGTATCAATACATGAAGAATTGTATCGATACA
1 TGTATCAATACATG-AGAATTGTATCGATACA
206758 TTGACTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATACAA
Found at i:206817 original size:19 final size:20
Alignment explanation
Indices: 206793--206830 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
206783 ATAATTTCAA
206793 ATGCA-TGTATCGAGACATT
1 ATGCATTGTATCGAGACATT
*
206812 ATGCATTGTATCGATACAT
1 ATGCATTGTATCGAGACAT
206831 AGCAATGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGCATTGTATCGAGACATT
Found at i:212113 original size:20 final size:20
Alignment explanation
Indices: 212088--212161 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
212078 GTTAGAAGCA
212088 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
212108 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
*
212128 ATGTATCAATACAATTCATC
1 ATGTATCGATACAATTCATC
212148 ATGTATCGATACAA
1 ATGTATCGATACAA
212162 ACAGTTGTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:212228 original size:19 final size:19
Alignment explanation
Indices: 212184--212239 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
212174 TAGCTAGTTT
**
212184 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
212204 CATGTATCGAGACAATGAA
1 CATGTATCGATACAATGAA
212223 CATGTATCGATACAATG
1 CATGTATCGATACAATG
212240 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:212242 original size:13 final size:13
Alignment explanation
Indices: 212224--212249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
212214 GACAATGAAC
212224 ATGTATCGATACA
1 ATGTATCGATACA
212237 ATGTATCGATACA
1 ATGTATCGATACA
212250 TCTAGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:214596 original size:20 final size:21
Alignment explanation
Indices: 214571--214610 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
214561 TTTGTTGGTG
*
214571 ATTTTGATG-AAAAATGAAGT
1 ATTTTGAAGTAAAAATGAAGT
214591 ATTTTGAAGTAAAAATGAAG
1 ATTTTGAAGTAAAAATGAAG
214611 AAATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTAAAAATGAAGT
Found at i:220971 original size:33 final size:33
Alignment explanation
Indices: 220928--220992 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
220918 TTAGCAGCAA
*
220928 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
*
220961 TGTATTGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
220993 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:221066 original size:19 final size:19
Alignment explanation
Indices: 221022--221077 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
221012 CTGCCAGTTT
**
221022 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
221042 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
221061 CATGTACCGATACAATG
1 CATGTATCGATACAATG
221078 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:222231 original size:20 final size:19
Alignment explanation
Indices: 222204--222296 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 19
222194 ACTATCAATT
222204 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
222223 TGTATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
222243 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
* * *
222263 TGATGTATCAATACATCTAGA
1 TCATGTATCGATACA-AT-GA
222284 T-ATGTATCGATAC
1 TCATGTATCGATAC
222297 TTTCAAGGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
19 18 0.30
20 40 0.66
21 2 0.03
22 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:222269 original size:39 final size:41
Alignment explanation
Indices: 222204--222296 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 41
222194 ACTATCAATT
* *
222204 TCATGTATCGATACAATTGTGTATGTATCGATACA-AT-GA
1 TCATGTATCGATACAATAGTGTATGTATCAATACATATAGA
*
222243 TCATGTATCGATACAA-AGCATG-ATGTATCAATACATCTAGA
1 TCATGTATCGATACAATAG--TGTATGTATCAATACATATAGA
222284 T-ATGTATCGATAC
1 TCATGTATCGATAC
222297 TTTCAAGGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
38 1 0.02
39 28 0.60
40 15 0.32
41 3 0.06
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (41 bp):
TCATGTATCGATACAATAGTGTATGTATCAATACATATAGA
Found at i:223111 original size:13 final size:13
Alignment explanation
Indices: 223093--223117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
223083 TTCAACGATT
223093 TGTATCGATACAA
1 TGTATCGATACAA
223106 TGTATCGATACA
1 TGTATCGATACA
223118 TAAGTGTTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:223134 original size:19 final size:19
Alignment explanation
Indices: 223108--223155 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
223098 CGATACAATG
223108 TATCGATACATAAGTGTTA
1 TATCGATACATAAGTGTTA
* * *
223127 TTTCGATACATAAGTTTTG
1 TATCGATACATAAGTGTTA
223146 TATCGATACA
1 TATCGATACA
223156 ATGTATCGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
TATCGATACATAAGTGTTA
Found at i:229406 original size:20 final size:21
Alignment explanation
Indices: 229364--229411 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
229354 CTCAAATTTG
**
229364 AATTAAACATTATTTTATTAA
1 AATTAAACATTATTTTAAAAA
*
229385 AATTAAA-ATTTTTTTAAAAA
1 AATTAAACATTATTTTAAAAA
229405 AATTAAA
1 AATTAAA
229412 TTTGACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTAAACATTATTTTAAAAA
Found at i:231392 original size:22 final size:22
Alignment explanation
Indices: 231336--231391 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
231326 AATTATAAAG
*
231336 AAAATAAAT-AAAATTAATTTA
1 AAAATAACTAAAAATTAATTTA
*
231357 AAAATAGCTAAAAATTAA-TTA
1 AAAATAACTAAAAATTAATTTA
*
231378 AATATAACTAAAAA
1 AAAATAACTAAAAA
231392 ACTCTAAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATAACTAAAAATTAATTTA
Found at i:232967 original size:19 final size:20
Alignment explanation
Indices: 232943--232993 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
232933 TAGCCAAACT
**
232943 TGTATCGATACA-CACAGTA
1 TGTATCGATACACCACAAAA
*
232962 TGTATCGATACACCATAAAA
1 TGTATCGATACACCACAAAA
232982 TGTATCGATACA
1 TGTATCGATACA
232994 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCACAAAA
Found at i:239325 original size:20 final size:20
Alignment explanation
Indices: 239290--239330 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
239280 CAAATTTCCT
239290 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
239312 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
239331 ATAAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:241578 original size:20 final size:20
Alignment explanation
Indices: 241547--241603 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
241537 TTCAAAACCC
*
241547 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
241567 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
241587 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
241604 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:241607 original size:13 final size:13
Alignment explanation
Indices: 241589--241617 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
241579 ATACAGATTG
241589 CATTGTATCGATA
1 CATTGTATCGATA
241602 CATTGTATCGATA
1 CATTGTATCGATA
241615 CAT
1 CAT
241618 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:241630 original size:20 final size:21
Alignment explanation
Indices: 241605--241657 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
241595 ATCGATACAT
**
241605 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
241625 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
241646 TGTATCGATACA
1 TGTATCGATACA
241658 AGTCATTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:241727 original size:13 final size:13
Alignment explanation
Indices: 241709--241733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241699 ACACACAGTA
241709 TGTATCGATACAT
1 TGTATCGATACAT
241722 TGTATCGATACA
1 TGTATCGATACA
241734 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:241730 original size:32 final size:33
Alignment explanation
Indices: 241689--241756 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
241679 GTAGCCAAAC
**
241689 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
241721 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
241754 TTG
1 TTG
241757 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:244134 original size:165 final size:163
Alignment explanation
Indices: 243850--244145 Score: 396
Period size: 165 Copynumber: 1.8 Consensus size: 163
243840 TAGGTGGTTA
* *
243850 CTCCAATCTAAATAATAGTTGTTGGAATAAAGACTGGTATTACATAGTGTAGTTTCCAATATATT
1 CTCCAATCTAAATAATAGTTGTTAGAATAAAGACTGGTATTACATAGTGTAGTTTCCAACATATT
* * * * *
243915 GCATGATTTCAAGATTGATTGAACAAAAACCACAATGTTGTCCTCTTTCGCATAATTCACAAGTT
66 GCATGATTTCAAGATTGATTGAACAAAAACAACAATGGTATCCTCCTCCGCATAATTCACAAGTT
243980 ACAAATGAGCTTTGCTTCTTTATTGAGTGATCG
131 ACAAATGAGCTTTGCTTCTTTATTGAGTGATCG
* ** * * *
244013 CTCCAATCTAGATGGTAGTTGTTAGAATAAAGA-TTGTTTTACTATTTATTGTAGTTTCCAACAT
1 CTCCAATCTAAATAATAGTTGTTAGAATAAAGACTGGTATTAC-A--TAGTGTAGTTTCCAACAT
* ** **
244077 ATTGCATTATTTCAAGATTGATTGGGCACCAACAACAATGGTATCCTCCTCCGCATAATTCACAA
63 ATTGCATGATTTCAAGATTGATTGAACAAAAACAACAATGGTATCCTCCTCCGCATAATTCACAA
244142 GTTA
128 GTTA
244146 TGAATTGGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
162 7 0.06
163 30 0.27
165 75 0.67
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (163 bp):
CTCCAATCTAAATAATAGTTGTTAGAATAAAGACTGGTATTACATAGTGTAGTTTCCAACATATT
GCATGATTTCAAGATTGATTGAACAAAAACAACAATGGTATCCTCCTCCGCATAATTCACAAGTT
ACAAATGAGCTTTGCTTCTTTATTGAGTGATCG
Found at i:244842 original size:2 final size:2
Alignment explanation
Indices: 244835--244870 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
244825 ATTTGGTTAC
*
244835 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
244871 TCTTGTCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:245917 original size:32 final size:32
Alignment explanation
Indices: 245871--245947 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
245861 GTTAATAGCT
**
245871 AGTTATTTCAAGTTTGAGTCACTTTAAATTTA
1 AGTTATTTTGAGTTTGAGTCACTTTAAATTTA
* * *
245903 AGTTATTTTGAGTTTTAGTCATTTTAGATTTA
1 AGTTATTTTGAGTTTGAGTCACTTTAAATTTA
245935 AGTTGATTATTGA
1 AGTT-ATT-TTGA
245948 AGCTATTGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 31 0.82
33 3 0.08
34 4 0.11
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.51
Consensus pattern (32 bp):
AGTTATTTTGAGTTTGAGTCACTTTAAATTTA
Found at i:248525 original size:25 final size:26
Alignment explanation
Indices: 248497--248550 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
248487 CATATTGTTA
248497 TAATGTATA-AAATATTATTAT-ATTT
1 TAAT-TATATAAATATTATTATAATTT
* *
248522 TAATTTTATAAATATTATTTTAATTT
1 TAATTATATAAATATTATTATAATTT
248548 TAA
1 TAA
248551 AATATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 15 0.60
26 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TAATTATATAAATATTATTATAATTT
Found at i:248555 original size:19 final size:19
Alignment explanation
Indices: 248515--248559 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
248505 AAAATATTAT
248515 TATATTTTAATTTTATAAA
1 TATATTTTAATTTTATAAA
248534 TATTATTTTAATTTTA-AAA
1 TA-TATTTTAATTTTATAAA
248553 TATATTT
1 TATATTT
248560 ATAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.20
19 7 0.28
20 13 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTTAATTTTATAAA
Found at i:248556 original size:25 final size:25
Alignment explanation
Indices: 248506--248556 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
248496 ATAATGTATA
**
248506 AAATATTATTATATTTTAATTTTAT
1 AAATATTATTATATTTTAATAATAT
*
248531 AAATATTATTTTAATTTTAA-AATAT
1 AAATATTATTAT-ATTTTAATAATAT
248556 A
1 A
248557 TTTATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATATTATTATATTTTAATAATAT
Found at i:248683 original size:18 final size:18
Alignment explanation
Indices: 248647--248683 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
248637 TATATATATC
*
248647 AAATTAATTTGTTATATA
1 AAATTAATTTGTTAAATA
*
248665 AAATTAATTTTTTAAATA
1 AAATTAATTTGTTAAATA
248683 A
1 A
248684 TTTATTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATTAATTTGTTAAATA
Found at i:249812 original size:16 final size:17
Alignment explanation
Indices: 249776--249814 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
249766 TTTGGGTTTT
249776 GGTTTGGGTCTATCTCA
1 GGTTTGGGTCTATCTCA
* *
249793 GGTTTGGGT-TCTCTCG
1 GGTTTGGGTCTATCTCA
249809 GGTTTG
1 GGTTTG
249815 AGTTTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.05, C:0.15, G:0.36, T:0.44
Consensus pattern (17 bp):
GGTTTGGGTCTATCTCA
Found at i:249844 original size:16 final size:16
Alignment explanation
Indices: 249825--249882 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
249815 AGTTTTTTAG
249825 GGTTCGAGCTTTCTCA
1 GGTTCGAGCTTTCTCA
* *
249841 GGTTCGGGCTTTCTCG
1 GGTTCGAGCTTTCTCA
* * *
249857 GGTCCGGGCTGTCTCA
1 GGTTCGAGCTTTCTCA
*
249873 AGTTCGAGCT
1 GGTTCGAGCT
249883 ATTTTAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.09, C:0.26, G:0.33, T:0.33
Consensus pattern (16 bp):
GGTTCGAGCTTTCTCA
Found at i:250187 original size:26 final size:25
Alignment explanation
Indices: 250131--250189 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
250121 AAAAATATAT
*
250131 TATTATAACTTATAAAATATTATTA
1 TATTTTAACTTATAAAATATTATTA
* *
250156 TCTTTTAACTT-TATAAATATTATTT
1 TATTTTAACTTATA-AAATATTATTA
250181 TAATTTTAA
1 T-ATTTTAA
250190 AATATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.07
25 20 0.71
26 6 0.21
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (25 bp):
TATTTTAACTTATAAAATATTATTA
Found at i:250197 original size:18 final size:20
Alignment explanation
Indices: 250158--250198 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
250148 TATTATTATC
250158 TTTTAACTTTATAAATATTA
1 TTTTAACTTTATAAATATTA
*
250178 TTTTAATTTTA-AAATA-TA
1 TTTTAACTTTATAAATATTA
250196 TTT
1 TTT
250199 ATAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 10 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAACTTTATAAATATTA
Found at i:250783 original size:16 final size:18
Alignment explanation
Indices: 250764--250801 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
250754 TGTGAAAAAA
250764 TAATTTT-TTATTTT-TT
1 TAATTTTCTTATTTTCTT
250780 TAATTTTCCTTATTTTCTT
1 TAATTTT-CTTATTTTCTT
250799 TAA
1 TAA
250802 AAATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
TAATTTTCTTATTTTCTT
Found at i:251051 original size:25 final size:22
Alignment explanation
Indices: 251018--251078 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
251008 TTATAATATT
*
251018 AAAATATTTTTATATTACTATTATA
1 AAAATATTTTTATATTA--AAT-TA
*
251043 AAAATATTTTTAAAATTAAATTA
1 AAAATATTTTT-ATATTAAATTA
251066 AAAATATTTTTAT
1 AAAATATTTTTAT
251079 TAATATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.03
23 13 0.41
24 2 0.06
25 11 0.34
26 5 0.16
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATATTTTTATATTAAATTA
Found at i:251517 original size:20 final size:20
Alignment explanation
Indices: 251494--251533 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
251484 TTCGTAATGA
251494 AATAGTTAAT-TTAATGAATT
1 AATAG-TAATGTTAATGAATT
*
251514 AATAGTACTGTTAATGAATT
1 AATAGTAATGTTAATGAATT
251534 GTCTTAGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (20 bp):
AATAGTAATGTTAATGAATT
Found at i:251941 original size:22 final size:22
Alignment explanation
Indices: 251915--251957 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
251905 CCTTTATCAT
251915 ATTTTTTTAATTTA-ATTTATAA
1 ATTTTTTT-ATTTATATTTATAA
251937 ATTTTTTTATTTATATTTATA
1 ATTTTTTTATTTATATTTATA
251958 TATAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTTTTATTTATATTTATAA
Found at i:251942 original size:21 final size:22
Alignment explanation
Indices: 251917--251957 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
251907 TTTATCATAT
251917 TTTTTTAATTTA-ATTTATAAA
1 TTTTTTAATTTATATTTATAAA
*
251938 TTTTTTTATTTATATTTATA
1 TTTTTTAATTTATATTTATA
251958 TATAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTTAATTTATATTTATAAA
Found at i:252940 original size:16 final size:17
Alignment explanation
Indices: 252905--252945 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
252895 TAGTATTTAT
**
252905 ATTTATTATCATTCTAA
1 ATTTATTATCATAATAA
252922 ATTTATTA-CATAATAA
1 ATTTATTATCATAATAA
252938 ATTT-TTAT
1 ATTTATTAT
252946 GTCTCTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 10 0.48
17 8 0.38
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATTATCATAATAA
Found at i:253005 original size:16 final size:17
Alignment explanation
Indices: 252984--253028 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
252974 AAATAATTTT
252984 ATTTTATATTTATTA-A
1 ATTTTATATTTATTATA
* *
253000 ATTTTAAATTTTTTATA
1 ATTTTATATTTATTATA
*
253017 ATTTTATTTTTA
1 ATTTTATATTTA
253029 AGTTTCTATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTATATTTATTATA
Found at i:253342 original size:1 final size:1
Alignment explanation
Indices: 253336--253360 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
253326 TTTGTTGTTG
253336 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
253361 CATTTACGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:253663 original size:24 final size:24
Alignment explanation
Indices: 253631--253679 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
253621 GAATTTGAGG
253631 ATTTCTGTTTTCCATGGGTTAAAA
1 ATTTCTGTTTTCCATGGGTTAAAA
*
253655 ATTTCTGTTTTCTATGGGTTAAAA
1 ATTTCTGTTTTCCATGGGTTAAAA
253679 A
1 A
253680 AAATTTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (24 bp):
ATTTCTGTTTTCCATGGGTTAAAA
Found at i:253871 original size:18 final size:19
Alignment explanation
Indices: 253848--253885 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
253838 GGTTTTCTTT
253848 TATTTT-TTTAGTTTTAAA
1 TATTTTATTTAGTTTTAAA
*
253866 TATTTTATTTATTTTTAAA
1 TATTTTATTTAGTTTTAAA
253885 T
1 T
253886 GATATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTTATTTAGTTTTAAA
Found at i:254002 original size:20 final size:20
Alignment explanation
Indices: 253973--254012 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
253963 ATAAAAAAAT
*
253973 TATTTTATTTATTAATTTTA
1 TATTTAATTTATTAATTTTA
* *
253993 TATTTAATTTTTTATTTTTA
1 TATTTAATTTATTAATTTTA
254013 AATGATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTAATTTATTAATTTTA
Found at i:254159 original size:6 final size:6
Alignment explanation
Indices: 254114--254153 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
254104 GTTTTTTGAA
* *
254114 TTTTCC TTTTAC TTTTAC TTTTAC TCTTAC TTTTAC TTTT
1 TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTT
254154 TATTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAC
Found at i:254793 original size:13 final size:13
Alignment explanation
Indices: 254772--254805 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
254762 TTTTTTTAAA
*
254772 ATAACTTTATTTT
1 ATAATTTTATTTT
254785 ATAATTTTATTTT
1 ATAATTTTATTTT
254798 ATAATTTT
1 ATAATTTT
254806 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATAATTTTATTTT
Found at i:255002 original size:10 final size:10
Alignment explanation
Indices: 254987--255011 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
254977 ATTTGGATTT
254987 AAGAAAAAAA
1 AAGAAAAAAA
254997 AAGAAAAAAA
1 AAGAAAAAAA
255007 AAGAA
1 AAGAA
255012 GGGTGCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:256319 original size:19 final size:19
Alignment explanation
Indices: 256285--256323 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
256275 CCATGCATTT
*
256285 TTTTTATTATGTTTCATGCA
1 TTTTTAATATGTTTCA-GCA
256305 TTTTTAATATG-TTCAGCA
1 TTTTTAATATGTTTCAGCA
256323 T
1 T
256324 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTAATATGTTTCAGCA
Found at i:265512 original size:22 final size:22
Alignment explanation
Indices: 265459--265521 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
265449 CCAAAAAAAC
*
265459 AAAAAAAA-AAGAAAAAACCAA
1 AAAAAAAATAAAAAAAAACCAA
265480 AAAAAATAATAAAAAAAAACCAA
1 AAAAAA-AATAAAAAAAAACCAA
* **
265503 GAAAAAAATAGCAAAAAAC
1 AAAAAAAATAAAAAAAAAC
265522 AGAAAGGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 6 0.17
22 13 0.36
23 17 0.47
ACGTcount: A:0.81, C:0.10, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAAAAATAAAAAAAAACCAA
Found at i:266806 original size:28 final size:28
Alignment explanation
Indices: 266741--267340 Score: 572
Period size: 28 Copynumber: 20.4 Consensus size: 28
266731 ATGTTCATCT
*
266741 TTTCAAAGCCCACAAGTCAATGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
266768 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
266796 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
266825 TTTCAAATCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
266853 TTTCAAAGCCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
266882 TTTCAAATCTCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
266910 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
266938 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
266966 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * *
266995 TTTCAAAGCCCACACAAGTCGGTGACATCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
* **
267025 TTTCAAAGCCCACACAAGTCGGTGGCAACTTA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * *
267057 TTTAAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * *
267089 TTTAAAAGCCCACACAAGTCAGTGGCATCA
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
**
267119 TTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
**
267150 ATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC
**
267182 ATTTCAAAGCCCACACAAGTTGGTGGCCACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGG-CACCC
* * *
267214 ATTTCAAAGCCCACACAAGTCACTAGCACCT
1 -TTTCAAAG-CC-CACAAGTCAGTGGCACCC
* * *
267245 TTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
267273 TTTCAAAGTCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
267301 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
267329 TTTCAAAGCCCA
1 TTTCAAAGCCCA
267341 TACAAGTTAA
Statistics
Matches: 510, Mismatches: 52, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
27 24 0.05
28 206 0.40
29 60 0.12
30 60 0.12
31 20 0.04
32 139 0.27
33 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:266850 original size:57 final size:57
Alignment explanation
Indices: 266741--267340 Score: 584
Period size: 57 Copynumber: 10.2 Consensus size: 57
266731 ATGTTCATCT
* *
266741 TTTCAAAGCCCACAAGTCAATGGCAC-C-TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
*
266796 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAATCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
* * * *
266853 TTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAATCTCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
* *
266910 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
* * * * *
266966 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACAAGTCGGTGACATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA-CCC-CACAAGTCAGTGGCACCC
* * * *
267025 TTTCAAAGCCCACACAAGTCGGTGGCAACT-TATTTAAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT-TTTCAAA-CCC-CACAAGTCAGTGGC-AC-CC
* * **
267089 TTTAAAAGCCCACACAAGTCAGTGGCA-TCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTTCAAA-CCC-CACAAGTCAGTGGC-ACCC
** * * **
267150 ATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCCACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAA-CCC-CACAAGTCAGTGG-CACCC
* * * * * *
267214 ATTTCAAAGCCCACACAAGTCACTAGCAC-CTTTTTAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
* * * *
267273 TTTCAAAGTCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
267329 TTTCAAAGCCCA
1 TTTCAAAGCCCA
267341 TACAAGTTAA
Statistics
Matches: 480, Mismatches: 48, Indels: 33
0.86 0.09 0.06
Matches are distributed among these distances:
55 25 0.05
56 103 0.21
57 115 0.24
58 10 0.02
59 26 0.05
60 14 0.03
61 16 0.03
62 85 0.18
63 5 0.01
64 80 0.17
65 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (57 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAACCCCACAAGTCAGTGGCACCC
Found at i:267070 original size:32 final size:32
Alignment explanation
Indices: 266741--267234 Score: 407
Period size: 32 Copynumber: 16.6 Consensus size: 32
266731 ATGTTCATCT
**
266741 TTTCAAAG-CC-CACAAGTCAATGGC-AC-C-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
266768 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
266796 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
266825 TTTCAAA-TCC-CACAAGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
** *
266853 TTTCAAAG-CC-CACAAGTCAATGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
266882 TTTCAAA--TCTCACAAGTCAGTGGC-A-TCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
266910 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
266938 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
** *
266966 TTTCAAAG-CC-CACAAGTTAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
266995 TTTCAAAGCCCACACAAGTCGGTGAC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
267025 TTTCAAAGCCCACACAAGTCGGTGGCAACTTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
*
267057 TTTAAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
267089 TTTAAAAGCCCACACAAGTCAGTGGC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
267119 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* *
267151 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
267183 TTTCAAAGCCCACACAAGTTGGTGGCCACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
267215 TTTCAAAGCCCACACAAGTC
1 TTTCAAAGCCCACACAAGTC
267235 ACTAGCACCT
Statistics
Matches: 426, Mismatches: 26, Indels: 25
0.89 0.05 0.05
Matches are distributed among these distances:
27 26 0.06
28 131 0.31
29 58 0.14
30 55 0.13
31 15 0.04
32 141 0.33
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.21
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
Found at i:267106 original size:94 final size:94
Alignment explanation
Indices: 266910--267314 Score: 394
Period size: 94 Copynumber: 4.5 Consensus size: 94
266900 AGTGGCATCC
* * * * *
266910 TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTT
1 TTTCAAAGCCCACACAAGTCGGTGACATCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT
* * *
266969 CAAAG-CC-CACAAGTTAGTGGC-ACTCT
66 AAAAGCCCACACAAGTTGGTGGCAACTCA
**
266995 TTTCAAAGCCCACACAAGTCGGTGACATCATTTCAAAGCCCACACAAGTCGGTGGCAACTTATTT
1 TTTCAAAGCCCACACAAGTCGGTGACATCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
267060 AAAAGCCCACACAAGTCGGTGGCAACTCA
66 AAAAGCCCACACAAGTTGGTGGCAACTCA
* * * *
267089 TTTAAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTT
1 TTTCAAAGCCCACACAAGTCGGTGACATCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT
* *
267154 CAAAGCCCACACAAGTTGGTGGCAACCCA
66 AAAAGCCCACACAAGTTGGTGGCAACTCA
* * * ** * *
267183 TTTCAAAGCCCACACAAGTTGGTGGCCACCCATTTCAAAGCCCACACAAGTCACTAGC-A-CCTT
1 TTTCAAAGCCCACACAAGTCGGT-GACA-TCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
267246 TTTAAAG-CC-CACAAGTTAGTGGC-A-TCC
64 TTAAAAGCCCACACAAGTTGGTGGCAACTCA
* * * *
267273 TTTCAAAG-TC-CACAAGTCAGTGGCATCTTTTCAAAGCCCACA
1 TTTCAAAGCCCACACAAGTCGGTGACATCATTTCAAAGCCCACA
267315 AGTCAATGGC
Statistics
Matches: 269, Mismatches: 40, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
85 8 0.03
86 17 0.06
87 25 0.09
88 11 0.04
89 14 0.05
90 11 0.04
91 8 0.03
92 15 0.06
93 14 0.05
94 118 0.44
95 4 0.01
96 24 0.09
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (94 bp):
TTTCAAAGCCCACACAAGTCGGTGACATCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT
AAAAGCCCACACAAGTTGGTGGCAACTCA
Found at i:267851 original size:9 final size:9
Alignment explanation
Indices: 267837--267866 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
267827 ATTTGGATTT
267837 AAGAAAAAA
1 AAGAAAAAA
267846 AAGAAAAAA
1 AAGAAAAAA
*
267855 AAGGAAAAA
1 AAGAAAAAA
267864 AAG
1 AAG
267867 GGGTGCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:268341 original size:83 final size:83
Alignment explanation
Indices: 268202--268368 Score: 273
Period size: 83 Copynumber: 2.0 Consensus size: 83
268192 TGGAGGCAAG
* *
268202 GTGTTCGGAATGTGAAAAGTATAGAAAAATACCCAGATGTATCGATACATTTTTCAATGTATTGA
1 GTGTTCGGAATGCGAAAAGTATAGAAAAATACCCAGATGTATCGATACATTTTTCAATGTATCGA
268267 TACAT-TGAAGAATGTATC
66 TACATGT-AAGAATGTATC
* *
268285 GTGTTCGGAATGCGAAAAGTATGGAAAAATACCTAGATGTATCGATACATTTTTCAATGTATCGA
1 GTGTTCGGAATGCGAAAAGTATAGAAAAATACCCAGATGTATCGATACATTTTTCAATGTATCGA
*
268350 TACATGTACGAATGTATC
66 TACATGTAAGAATGTATC
268368 G
1 G
268369 ATACATTCTT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 77 0.99
84 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (83 bp):
GTGTTCGGAATGCGAAAAGTATAGAAAAATACCCAGATGTATCGATACATTTTTCAATGTATCGA
TACATGTAAGAATGTATC
Found at i:268344 original size:20 final size:20
Alignment explanation
Indices: 268321--268397 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
268311 AAATACCTAG
268321 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
268341 ATGTATCGATACA-TGTACGA
1 ATGTATCGATACATTTTTC-A
*
268361 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
268381 ATGTATTGATAGATTTT
1 ATGTATCGATACATTTT
268398 ATCTTTTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.88
21 3 0.06
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:271642 original size:28 final size:28
Alignment explanation
Indices: 271611--271670 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
271601 AAATAAATAA
* *
271611 TTATTATATAATAATATTTAATTTAAAG
1 TTATTATATAATAATAATTAATTAAAAG
* * *
271639 TTATTATTTATTAATAATTAATTAAAAT
1 TTATTATATAATAATAATTAATTAAAAG
271667 TTAT
1 TTAT
271671 AAAAAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATTATATAATAATAATTAATTAAAAG
Found at i:272915 original size:58 final size:58
Alignment explanation
Indices: 272701--272945 Score: 259
Period size: 57 Copynumber: 4.3 Consensus size: 58
272691 AGAATGAAGC
* * * * *
272701 TAAAATGCATGGAATTGTATAATAGTCCCTAAAACAT-GAACATGACTAAAATGATCT
1 TAAAATGCATGAAATTGCATAATAATCCCTAAATCATGGAAAATGACTAAAATGATCT
* * * *
272758 TAAAATGCATGAAATTGCATAAATAAT-TCTAAATCATGGTAGACGACTAAAA--AT-T
1 TAAAATGCATGAAATTGCAT-AATAATCCCTAAATCATGGAAAATGACTAAAATGATCT
* * * * * *
272813 GTAAAAATGCATGAAATTACATAAGAACCCCT-AATCATGGAAAATGACGAAAATGGTGT
1 -T-AAAATGCATGAAATTGCATAATAATCCCTAAATCATGGAAAATGACTAAAATGATCT
* * *
272872 TAAAATGCATGAAATTGCATAATAATCCCTAAATCATGGAAAATTACTAAAATAACCT
1 TAAAATGCATGAAATTGCATAATAATCCCTAAATCATGGAAAATGACTAAAATGATCT
272930 TAAAATGCATGAAATT
1 TAAAATGCATGAAATT
272946 ATATAAATGG
Statistics
Matches: 153, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
55 1 0.01
56 24 0.16
57 72 0.47
58 55 0.36
59 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (58 bp):
TAAAATGCATGAAATTGCATAATAATCCCTAAATCATGGAAAATGACTAAAATGATCT
Found at i:272953 original size:29 final size:30
Alignment explanation
Indices: 272871--272953 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
272861 GAAAATGGTG
**
272871 TTAAAATGCATGAAATTGCAT-AATAATCC
1 TTAAAATGCATGAAATTATATAAATAATCC
*
272900 CT-AAAT-CATGGAAAATTACTA-AAATAA-CC
1 TTAAAATGCAT-G-AAATTA-TATAAATAATCC
272929 TTAAAATGCATGAAATTATATAAAT
1 TTAAAATGCATGAAATTATATAAAT
272954 GGTCCTTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
27 3 0.07
28 7 0.16
29 19 0.44
30 11 0.26
31 3 0.07
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.30
Consensus pattern (30 bp):
TTAAAATGCATGAAATTATATAAATAATCC
Found at i:273316 original size:21 final size:19
Alignment explanation
Indices: 273290--273344 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
273280 TTCTACAATT
273290 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
273311 TGTATCGATACATAAGTTT
1 TGTATCGATACAAAAGTAA
273330 TGTATCGATACAAAA
1 TGTATCGATACAAAA
273345 CTACCTTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:273335 original size:19 final size:21
Alignment explanation
Indices: 273287--273343 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
273277 AATTTCTACA
273287 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
273308 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
273328 -TTTGTATCGATACAAA
1 ATTTGTATCGATACAAA
273344 ACTACCTTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:273415 original size:22 final size:20
Alignment explanation
Indices: 273370--273445 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
273360 CAAAAGGAAA
*
273370 TGTATCTATACA-TTACTAAT
1 TGTATCGATACATTTAC-AAT
273390 TGTATCGATACATGCTTACAAT
1 TGTATCGATACAT--TTACAAT
* * *
273412 TGTATCAATACATTTCCCAT
1 TGTATCGATACATTTACAAT
273432 TGTATCGATACATT
1 TGTATCGATACATT
273446 CTGGGTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
20 29 0.60
22 15 0.31
23 4 0.08
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTACAAT
Found at i:281716 original size:30 final size:29
Alignment explanation
Indices: 281638--281722 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
281628 TCTTTGTCCA
* *
281638 AAAGCCCATGACTCCGTGGCATCCTTCCT
1 AAAGTCCATGACTCAGTGGCATCCTTCCT
*
281667 AAAGTCCACGACTCAGTGGCATCTCTT-CT
1 AAAGTCCATGACTCAGTGGCATC-CTTCCT
* * * *
281696 CCAAGTCCATAACTCTGTGGCACCCTT
1 -AAAGTCCATGACTCAGTGGCATCCTT
281723 TTTCCTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 25 0.54
30 21 0.46
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.26
Consensus pattern (29 bp):
AAAGTCCATGACTCAGTGGCATCCTTCCT
Found at i:281752 original size:34 final size:33
Alignment explanation
Indices: 281714--281929 Score: 133
Period size: 27 Copynumber: 6.9 Consensus size: 33
281704 ATAACTCTGT
281714 GGCACCCTTTTTCCTTTTAAATCCACAACTCCGA
1 GGCA-CCTTTTTCCTTTTAAATCCACAACTCCGA
* * * *
281748 GGCACC----T--TTTTAAGTCCATAACTTCGG
1 GGCACCTTTTTCCTTTTAAATCCACAACTCCGA
*
281775 GGCACC----T--TTTTAAGTCCACAACTCC-A
1 GGCACCTTTTTCCTTTTAAATCCACAACTCCGA
* *
281801 TGGCACCTTTTT--TTTTCAAA--CATAACTCCGT
1 -GGCACCTTTTTCCTTTT-AAATCCACAACTCCGA
*
281832 GGCACCCTTATTCCTTTTAAATCCACAACTCCGA
1 GGCA-CCTTTTTCCTTTTAAATCCACAACTCCGA
* * * *
281866 GGCACCATTTTCCTTTCAAAGCCCACAACTCCGT
1 GGCACCTTTTTCCTTTTAAA-TCCACAACTCCGA
* *
281900 GGCACCCTTTTTCCTTTTAACTCCATAACT
1 GGCA-CCTTTTTCCTTTTAAATCCACAACT
281930 TCATGGTACT
Statistics
Matches: 145, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
27 45 0.31
29 1 0.01
30 12 0.08
31 11 0.08
32 5 0.03
33 19 0.13
34 39 0.27
35 13 0.09
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.33
Consensus pattern (33 bp):
GGCACCTTTTTCCTTTTAAATCCACAACTCCGA
Found at i:281915 original size:68 final size:64
Alignment explanation
Indices: 281782--281935 Score: 184
Period size: 68 Copynumber: 2.3 Consensus size: 64
281772 CGGGGCACCT
* ** *
281782 TTTTAAGTCCACAACTCCATGGCACCTTTTTTTTTCAAACATAACTCCGTGGCACCCTTATTCC
1 TTTTAAATCCACAACTCCATGGCACCTTTTCCTTTCAAACACAACTCCGTGGCACCCTTATTCC
*
281846 TTTTAAATCCACAACTCCGA-GGCACCATTTTCCTTTCAAAGCCCACAACTCCGTGGCACCCTTT
1 TTTTAAATCCACAACTCC-ATGGCACC-TTTTCCTTTCAAA---CACAACTCCGTGGCACCCTTA
281910 TTCC
61 TTCC
* * *
281914 TTTTAACTCCATAACTTCATGG
1 TTTTAAATCCACAACTCCATGG
281936 TACTTTTTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
64 23 0.30
65 12 0.16
67 1 0.01
68 40 0.53
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (64 bp):
TTTTAAATCCACAACTCCATGGCACCTTTTCCTTTCAAACACAACTCCGTGGCACCCTTATTCC
Found at i:285239 original size:15 final size:15
Alignment explanation
Indices: 285215--285252 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
285205 AAACTTTATC
285215 TTTA-TTTTTTATTT
1 TTTATTTTTTTATTT
*
285229 TTTATTTTTTTCTTT
1 TTTATTTTTTTATTT
*
285244 TTTCTTTTT
1 TTTATTTTT
285253 GGTTTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTATTTTTTTATTT
Found at i:287033 original size:56 final size:56
Alignment explanation
Indices: 286973--287098 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 56
286963 TATCAATTTA
* *
286973 TGCCAATTTCAACTAAGG-TGAAACCTACC-ATCTATTCTTGAGCTTTTTCATTT-TGG
1 TGCCAATTTCAA-TAAGGATGAAACCTACCAAT-AACTCTTGAGCTTTTTCATTTCT-G
** *
287029 TGCCAATTTCAATTGGGATGAAACCTACCTAATAACTCTTGGGCTTTTTCATTTCTG
1 TGCCAATTTCAATAAGGATGAAACCTACC-AATAACTCTTGAGCTTTTTCATTTCTG
*
287086 TGCTAATTTCAAT
1 TGCCAATTTCAAT
287099 TGGGGCAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
55 3 0.05
56 23 0.38
57 31 0.52
58 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (56 bp):
TGCCAATTTCAATAAGGATGAAACCTACCAATAACTCTTGAGCTTTTTCATTTCTG
Found at i:287110 original size:57 final size:56
Alignment explanation
Indices: 287008--287138 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 56
286998 TACCATCTAT
* **
287008 TCTTGAGCTTTTTCATTTTGGTGCCAATTTCAATTGGGATGAAACCTACCTA-ATAAC
1 TCTTGGGCTTTTTCATTTTGGTGCCAATTTCAATTGGGACAAAACCTA-CTAGAT-AC
* * * *
287065 TCTTGGGCTTTTTCATTTCT-GTGCTAATTTCAATTGGGGCAAAACCTATTAGCTAC
1 TCTTGGGCTTTTTCATTT-TGGTGCCAATTTCAATTGGGACAAAACCTACTAGATAC
*
287121 TTTTGGGCTTTTTCATTT
1 TCTTGGGCTTTTTCATTT
287139 GAAGTTTGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
56 21 0.33
57 42 0.66
58 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (56 bp):
TCTTGGGCTTTTTCATTTTGGTGCCAATTTCAATTGGGACAAAACCTACTAGATAC
Found at i:287215 original size:21 final size:21
Alignment explanation
Indices: 287174--287215 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
287164 AAATGTTTAC
**
287174 GATGCAAATGTTTTTTGAAAT
1 GATGCAAATGTTTTTAAAAAT
287195 GATGCAAAT-TCTTTTAAAAAT
1 GATGCAAATGT-TTTTAAAAAT
287216 AATGTAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (21 bp):
GATGCAAATGTTTTTAAAAAT
Found at i:288829 original size:21 final size:21
Alignment explanation
Indices: 288803--288857 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
288793 TTCTACAATT
*
288803 TGTATCGATACAAACAGT-AAA
1 TGTATCGATACAAAC-CTAAAA
*
288824 TGTATCGATACATACCTAAAA
1 TGTATCGATACAAACCTAAAA
288845 TGTATC-ATACAAA
1 TGTATCGATACAAA
288858 ACCACCTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (21 bp):
TGTATCGATACAAACCTAAAA
Found at i:296525 original size:8 final size:8
Alignment explanation
Indices: 296514--296556 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
296504 ATTTTCCATT
296514 TTTTTTCA
1 TTTTTTCA
**
296522 TTTTTGGA
1 TTTTTTCA
296530 TCTTTTTCA
1 T-TTTTTCA
*
296539 TTTTTCCA
1 TTTTTTCA
296547 TTTTTTCA
1 TTTTTTCA
296555 TT
1 TT
296557 CAAGAAATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (8 bp):
TTTTTTCA
Found at i:296535 original size:17 final size:16
Alignment explanation
Indices: 296474--296556 Score: 71
Period size: 17 Copynumber: 5.1 Consensus size: 16
296464 TTTTTAAAAT
*
296474 TTTTTCCATTTTCTCA
1 TTTTTCCATTTTTTCA
* * *
296490 TTTTT-AATATTTTGA
1 TTTTTCCATTTTTTCA
296505 -TTTTCCATTTTTTTTCA
1 TTTTTCCA--TTTTTTCA
**
296522 TTTTTGGATCTTTTTCA
1 TTTTTCCAT-TTTTTCA
296539 TTTTTCCATTTTTTCA
1 TTTTTCCATTTTTTCA
296555 TT
1 TT
296557 CAAGAAATTC
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
14 4 0.08
15 7 0.14
16 15 0.29
17 20 0.39
18 5 0.10
ACGTcount: A:0.14, C:0.14, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTTCCATTTTTTCA
Found at i:300307 original size:19 final size:19
Alignment explanation
Indices: 300283--300328 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
300273 GAGCTTGAGC
300283 TTGTGATGTTTGGCATGTA
1 TTGTGATGTTTGGCATGTA
300302 TTGTGATGTTTGGCATGTA
1 TTGTGATGTTTGGCATGTA
*
300321 CTGTGATG
1 TTGTGATG
300329 ACTTGGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.07, G:0.33, T:0.46
Consensus pattern (19 bp):
TTGTGATGTTTGGCATGTA
Found at i:300501 original size:20 final size:20
Alignment explanation
Indices: 300476--300521 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
300466 GAATATATTG
* *
300476 ATACATTCATACATGTATCA
1 ATACATTCAAAAATGTATCA
* *
300496 ATACATTGAAAAATGTATCG
1 ATACATTCAAAAATGTATCA
300516 ATACAT
1 ATACAT
300522 CTGGGTACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (20 bp):
ATACATTCAAAAATGTATCA
Found at i:301527 original size:28 final size:28
Alignment explanation
Indices: 301445--302281 Score: 1045
Period size: 28 Copynumber: 29.5 Consensus size: 28
301435 CACCGACTCA
* *
301445 TGTGGGCTTTGAAAAGAGTTACCACT-AGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGA-CT
*
301475 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
301504 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
301532 TGT-AGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
301559 TGTGGGTTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
301588 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
301616 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
**
301646 TGTGGGCTTTGAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* **
301674 TGTGCGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
301703 TGTGGGCTTTGAAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
301731 TGTGGGCTTTGAAAAGAGTGCCAATGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
301760 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
301788 TATGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
301817 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
301845 TGCGTAGGCTTTGAAAGAGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
301875 TGTGGGCTTTGAAAAGATACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
301903 TGTGGGCTTTGAAAAGAGTGCCAC-GACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
301931 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
301960 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
301988 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
302016 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
302045 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
302073 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
302101 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
302129 TGTGGGCTTTAGAAA-GATAG-CACTGACT
1 TGTGGGCTTT-GAAAGGGT-GCCACTGACT
302157 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
302185 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
302213 TGTGGGATTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
302241 TGTGGGCTTTAAAACGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
302269 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
302282 GAGATGAACA
Statistics
Matches: 705, Mismatches: 85, Indels: 36
0.85 0.10 0.04
Matches are distributed among these distances:
27 28 0.04
28 439 0.62
29 169 0.24
30 69 0.10
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:301610 original size:57 final size:57
Alignment explanation
Indices: 301445--302281 Score: 1135
Period size: 57 Copynumber: 14.7 Consensus size: 57
301435 CACCGACTCA
* * *
301445 TGTGGGCTTTGAAAAGAGTTACCACT-AGCTTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGA-CTTGTGGGCTTTG-AAAGGGTGCCACTAACT
* * * * *
301504 TATGGGCTTTG-AAAGGGTGCCACTGACTTGT-AGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
*
301559 TGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* ** *
301616 TGCGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAAGTGCCACTGACT
1 T--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
301674 TGTGCGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
*
301731 TGTGGGCTTTGAAAAGAGTGCCAATGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
301788 TATGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
301845 TGCGTAGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGATACCACTAACT
1 T--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* *
301903 TGTGGGCTTTGAAAAGAGTGCCAC-GACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACT
* * *
301960 TGTGGGCTTTG-AAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
*
302016 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
302073 TGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
*
302129 TGTGGGCTTT-AGAAAGA-TAG-CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGA-AAAGAGT-GCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* *
302185 TGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGATTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
302241 TGTGGGCTTT-AAAACG-GTGCCACTGACTTGTGGGCTTTGAA
1 TGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTGAA
302282 GAGATGAACA
Statistics
Matches: 692, Mismatches: 68, Indels: 39
0.87 0.09 0.05
Matches are distributed among these distances:
55 28 0.04
56 266 0.38
57 282 0.41
58 84 0.12
59 32 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:303519 original size:10 final size:10
Alignment explanation
Indices: 303506--303575 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
303496 CCTTTTTGTT
*
303506 TTTTTTTCTA
1 TTTTTTTCTG
303516 TTTTTTTCTTG
1 TTTTTTTC-TG
*
303527 TTTTTTTTTG
1 TTTTTTTCTG
303537 TTTTTTT-TG
1 TTTTTTTCTG
*
303546 TTGTTCATTTTTGG
1 TT-TT--TTTCT-G
303560 TTTTTTTCT-
1 TTTTTTTCTG
303569 TTTTTTT
1 TTTTTTT
303576 TTGTGTATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 11 0.22
10 19 0.37
11 12 0.24
12 3 0.06
13 3 0.06
14 3 0.06
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTG
Found at i:303533 original size:22 final size:21
Alignment explanation
Indices: 303505--303577 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
303495 CCCTTTTTGT
303505 TTTTTTTTCTATTTTTTTCTTG
1 TTTTTTTT-TATTTTTTTCTTG
* *
303527 TTTTTTTTTGTTTTTTTTGTTG
1 TTTTTTTTT-ATTTTTTTCTTG
* **
303549 TTCATTTTTGGTTTTTTTCTT-
1 TT-TTTTTTTATTTTTTTCTTG
303570 TTTTTTTT
1 TTTTTTTT
303578 GTGTATAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.12
21 3 0.07
22 29 0.69
23 5 0.12
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTATTTTTTTCTTG
Found at i:303576 original size:10 final size:10
Alignment explanation
Indices: 303498--303576 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
303488 TCTGGACCCC
*
303498 TTTTTGTTTT
1 TTTTTCTTTT
*
303508 TTTTTCTATT
1 TTTTTCTTTT
303518 TTTTTCTTGTT
1 TTTTTCTT-TT
*
303529 TTTTTTTGTTT
1 TTTTTCT-TTT
*
303540 TTTTTGTTGTT
1 TTTTTCTT-TT
**
303551 CATTTTT-GGTT
1 --TTTTTCTTTT
303562 TTTTTCTTTT
1 TTTTTCTTTT
303572 TTTTT
1 TTTTT
303577 TGTGTATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 5 0.09
10 23 0.43
11 20 0.37
12 1 0.02
13 5 0.09
ACGTcount: A:0.03, C:0.05, G:0.09, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:306127 original size:13 final size:13
Alignment explanation
Indices: 306109--306134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306099 ACAATTTTTA
306109 TGTATCGATACAT
1 TGTATCGATACAT
306122 TGTATCGATACAT
1 TGTATCGATACAT
306135 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:306875 original size:21 final size:21
Alignment explanation
Indices: 306834--306876 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
306824 CTCTCCTTTA
* *
306834 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
306855 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
306876 T
1 T
306877 TATATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.26, C:0.30, G:0.05, T:0.40
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:308706 original size:13 final size:13
Alignment explanation
Indices: 308688--308726 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
308678 ATAATCACCC
308688 TGTATCGATACAA
1 TGTATCGATACAA
308701 TGTATCGATACAA
1 TGTATCGATACAA
*
308714 TGTATTGATACAA
1 TGTATCGATACAA
308727 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:310826 original size:15 final size:15
Alignment explanation
Indices: 310806--310836 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
310796 ATTTTGTTTG
*
310806 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
310821 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
310836 G
1 G
310837 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:312669 original size:21 final size:21
Alignment explanation
Indices: 312640--312684 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
312630 AAGTTTTCAT
*
312640 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
312660 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
312682 TTT
1 TTT
312685 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:314898 original size:13 final size:13
Alignment explanation
Indices: 314880--314905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
314870 ACAATTTTTG
314880 TGTATCGATACAT
1 TGTATCGATACAT
314893 TGTATCGATACAT
1 TGTATCGATACAT
314906 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:314902 original size:32 final size:32
Alignment explanation
Indices: 314861--314923 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
314851 TACAAGCCAA
**
314861 TGTATCGATACAATTTTTG-TGTATCGATACAT
1 TGTATCGATAC-ATACTTGCTGTATCGATACAT
314893 TGTATCGATACATACTTGCTGTATCGATACA
1 TGTATCGATACATACTTGCTGTATCGATACA
314924 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGCTGTATCGATACAT
Found at i:316311 original size:13 final size:13
Alignment explanation
Indices: 316293--316317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
316283 AAAATGCAAC
316293 ATGTATCGATACA
1 ATGTATCGATACA
316306 ATGTATCGATAC
1 ATGTATCGATAC
316318 TGTGCAACAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:316312 original size:33 final size:33
Alignment explanation
Indices: 316275--316340 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
316265 TCTTTTTCAA
316275 GTATCGATAAAATGCAACATGTATCGATACAAT
1 GTATCGATAAAATGCAACATGTATCGATACAAT
***
316308 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATAAAATGCAACATGTATCGATACAAT
316341 TAACTGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (33 bp):
GTATCGATAAAATGCAACATGTATCGATACAAT
Found at i:318633 original size:20 final size:21
Alignment explanation
Indices: 318604--318644 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
318594 TGTTTTTGAT
318604 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
318623 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
318645 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:318674 original size:20 final size:20
Alignment explanation
Indices: 318649--318693 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
318639 AAAAACAAGA
318649 AATTTGCAAAAGAATTGAAG
1 AATTTGCAAAAGAATTGAAG
318669 AATTTGCAAAAGAATTGAAG
1 AATTTGCAAAAGAATTGAAG
318689 AATTT
1 AATTT
318694 TGATGATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (20 bp):
AATTTGCAAAAGAATTGAAG
Done.