Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
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: 3172561
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 13
Found at i:802497 original size:22 final size:22
Alignment explanation
Indices: 802469--802534 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
802459 TTCTTATTTA
802469 TTTTACAATCA-AAC-CTAAACCC
1 TTTTACAAT-ATAACAC-AAACCC
802491 TTTTACAAATATAACACAAACCC
1 TTTTAC-AATATAACACAAACCC
*
802514 TTTTACAAATATAACCCAAAC
1 TTTTAC-AATATAACACAAAC
802535 TCAACTAGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
22 7 0.17
23 32 0.80
24 1 0.03
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (22 bp):
TTTTACAATATAACACAAACCC
Found at i:802515 original size:23 final size:23
Alignment explanation
Indices: 802485--802534 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
802475 AATCAAACCT
802485 AAACCCTTTTACAAATATAACAC
1 AAACCCTTTTACAAATATAACAC
*
802508 AAACCCTTTTACAAATATAACCC
1 AAACCCTTTTACAAATATAACAC
802531 AAAC
1 AAAC
802535 TCAACTAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (23 bp):
AAACCCTTTTACAAATATAACAC
Found at i:808146 original size:19 final size:20
Alignment explanation
Indices: 808099--808149 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
808089 GAAACCCCTT
**
808099 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
808119 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
808138 TGAAGATACATG
1 TGAAAATACATG
808150 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:816011 original size:46 final size:45
Alignment explanation
Indices: 815887--816039 Score: 209
Period size: 45 Copynumber: 3.4 Consensus size: 45
815877 TTCAAAATAT
* * ***
815887 TTACCATTTATCCCATAAGCTCCTAAGCTTATTTTAATGACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
815932 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
* * *
815977 TTACCATTTATTCCCATAAGCTCGTAAGATTATTTTACCAATACAC
1 TTACCATTTATT-CCATAAGCTCGTAAGCTTATTTTACCAACATAC
*
816023 TTGCCA-TTATTCCATAA
1 TTACCATTTATTCCATAA
816040 CCATATACCA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
44 6 0.06
45 57 0.58
46 35 0.36
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
Found at i:820151 original size:5 final size:5
Alignment explanation
Indices: 820141--820198 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
820131 TCTCTCATTT
* *
820141 TTTTC TTTTC TTTTC TATT- TTTTC TTCTTC GTTTTC TTTT- TTCT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC -TTTTC TTTTC TTTTC TTTTC
*
820190 TTCTC TTTT
1 TTTTC TTTT
820199 TTATATAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 9 0.21
5 26 0.60
6 6 0.14
7 2 0.05
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:820161 original size:19 final size:18
Alignment explanation
Indices: 820138--820200 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 18
820128 TCATCTCTCA
820138 TTTTTTTCTTTTCTTTTC
1 TTTTTTTCTTTTCTTTTC
820156 TATTTTTTCTTCTTCGTTTTC
1 T-TTTTTTCTT-TTC-TTTTC
*
820177 -TTTTTTCTTTTTCTTCTC
1 TTTTTTTC-TTTTCTTTTC
820195 TTTTTT
1 TTTTTT
820201 ATATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 5 0.13
19 24 0.62
20 5 0.13
21 5 0.13
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTTTTCTTTTCTTTTC
Found at i:823039 original size:46 final size:46
Alignment explanation
Indices: 822973--823080 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 46
822963 TTCAAAATAT
*
822973 TTACCATTTA-TCCCATAAGCTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCCATAAGCTCGTAAGCTTATTTTACCAACACAC
*
823018 TTACCATTTATTCCCATAAGCTCGTAAGCTTATTTTACCAATACAC
1 TTACCATTTATTCCCATAAGCTCGTAAGCTTATTTTACCAACACAC
*
823064 TTGCCA-TTATT-CCATAA
1 TTACCATTTATTCCCATAA
823081 CCATATACCA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
44 6 0.10
45 15 0.25
46 38 0.64
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (46 bp):
TTACCATTTATTCCCATAAGCTCGTAAGCTTATTTTACCAACACAC
Found at i:823269 original size:61 final size:61
Alignment explanation
Indices: 823162--823276 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
823152 GTAGTGCTAA
* * *
823162 ACCTGCACTAAGCTTGCGCCATAGTGCTAATCTGGACAACACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCTAGACAACACACATAAGGTCGTGCCCACC
* ** *
823223 ACCTACACTAAGCTTACGCTATAGTGCTAAT-TCAGACATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCT-AGACAACACACATAAGGTCGT
823277 ATCCACCTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 1 0.02
61 45 0.98
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCTAGACAACACACATAAGGTCGTGCCCACC
Found at i:825819 original size:9 final size:9
Alignment explanation
Indices: 825798--825857 Score: 77
Period size: 9 Copynumber: 6.4 Consensus size: 9
825788 CCCAAGAGGT
*
825798 AAAAAGGAA
1 AAAAAAGAA
825807 AAAAAA-AA
1 AAAAAAGAA
825815 GAAAAAAGAA
1 -AAAAAAGAA
825825 AAAGAATAGAA
1 AAA-AA-AGAA
825836 AAAAAAGAA
1 AAAAAAGAA
825845 AAAAAAGAA
1 AAAAAAGAA
825854 AAAA
1 AAAA
825858 TGGAGAGGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
8 2 0.04
9 31 0.67
10 6 0.13
11 7 0.15
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:827190 original size:136 final size:136
Alignment explanation
Indices: 826746--827364 Score: 803
Period size: 136 Copynumber: 4.5 Consensus size: 136
826736 TGAATCAATC
* * * * *
826746 AACATTTCTAATGGAGAGTTCATAATGAGAAGAGCTCATCCGACAGACGGAGAGGAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * * **
826811 TGTGAAGAACTTGTTCAACCTATTGTT-AGATTCACAACACTTCAAATCAGCAACGCCTCGCTCA
66 TGAGAAGAAATTGTTCGACCTATTATTCA-ATTCACAACACTTCGAATCAGCAACGCCTCGCTTG
826875 AGGGATT
130 AGGGATT
* * * * *
826882 GATATTTCCAA-ATGAGAGTTCATAATGAGAAGAACTTATCTGATAGAGGGAGAAGAAGTTCATA
1 AACATTTCCAATA-GAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATA
* * * * * * *
826946 ATGATAAGAACTTGTTCGACTTATTATTTCGATTCACAACACTTCGAATCAGTAATGCCTTGCTT
65 ATGAGAAGAAATTGTTCGACCTATTA-TTCAATTCACAACACTTCGAATCAGCAACGCCTCGCTT
827011 GAGGGATT
129 GAGGGATT
* ** *
827019 AACATTTCCAATAGAGAGTTCATAATGAGAGGAACTCATCCGGTAGAGGGATAAGAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
*
827084 TGAGAAGAAATTGTTCGACCTATTATTCAATTCACAACACTTCGAATCAACAACGCCTTC-CTTG
66 TGAGAAGAAATTGTTCGACCTATTATTCAATTCACAACACTTCGAATCAGCAACGCC-TCGCTTG
*
827148 AGGTATT
130 AGGGATT
* *
827155 AATATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * *
827220 TGAGAAGAAATTGTTCGACCTATTACTCGATTCACAACCCTTAGAATCAGCAATGCCTCGCTTGA
66 TGAGAAGAAATTGTTCGACCTATTATTCAATTCACAACACTTCGAATCAGCAACGCCTCGCTTGA
827285 GGGATT
131 GGGATT
* * * * *
827291 AACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAGGGAGAAAAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
827356 TGAGAAGAA
66 TGAGAAGAA
827365 CTTCGAATAC
Statistics
Matches: 420, Mismatches: 57, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
135 2 0.00
136 300 0.71
137 117 0.28
138 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (136 bp):
AACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
TGAGAAGAAATTGTTCGACCTATTATTCAATTCACAACACTTCGAATCAGCAACGCCTCGCTTGA
GGGATT
Found at i:827236 original size:273 final size:272
Alignment explanation
Indices: 826746--827364 Score: 866
Period size: 273 Copynumber: 2.3 Consensus size: 272
826736 TGAATCAATC
* * * * *
826746 AACATTTCTAATGGAGAGTTCATAATGAGAAGAGCTCATCCGACAGACGGAGAGGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * * *
826811 TGTGAAGAACTTGTTCAACCTATTGTTAGATTCACAACACTTCAAATCAGCAACGCCTCGCTCAA
66 TGAGAAGAAATTGTTCAACCTATTATTAGATTCACAACACTTCAAATCAACAACGCCTCGCTCAA
* * * * *
826876 GGGATTGATATTTCCAAATGAGAGTTCATAATGAGAAGAACTTATCTGATAGAGGGAGAAGAAGT
131 GGGATTAATATTTCCAAATGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGT
* * * * * *
826941 TCATAATGATAAGAACTTGTTCGACTTATTATTTCGATTCACAACACTTCGAATCAGTAATGCCT
196 TCATAATGAGAAGAAATTGTTCGACCTATTA-CTCGATTCACAACACTTAGAATCAGCAATGCCT
*
827006 TGCTTGAGGGATT
260 CGCTTGAGGGATT
* * ** *
827019 AACATTTCCAATAGAGAGTTCATAATGAGAGGAACTCATCCGGTAGAGGGATAAGAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * *
827084 TGAGAAGAAATTGTTCGACCTATTATTCA-ATTCACAACACTTCGAATCAACAACGCCTTC-CTT
66 TGAGAAGAAATTGTTCAACCTATTATT-AGATTCACAACACTTCAAATCAACAACGCC-TCGCTC
* *
827147 GAGGTATTAATATTTCC-AATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGA
129 AAGGGATTAATATTTCCAAAT-GAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGA
*
827211 AGTTCATAATGAGAAGAAATTGTTCGACCTATTACTCGATTCACAACCCTTAGAATCAGCAATGC
193 AGTTCATAATGAGAAGAAATTGTTCGACCTATTACTCGATTCACAACACTTAGAATCAGCAATGC
827276 CTCGCTTGAGGGATT
258 CTCGCTTGAGGGATT
* * *
827291 AACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAGGGAGAAAAAGTTCATAA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
827356 TGAGAAGAA
66 TGAGAAGAA
827365 CTTCGAATAC
Statistics
Matches: 304, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
272 110 0.36
273 191 0.63
274 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (272 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
TGAGAAGAAATTGTTCAACCTATTATTAGATTCACAACACTTCAAATCAACAACGCCTCGCTCAA
GGGATTAATATTTCCAAATGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGT
TCATAATGAGAAGAAATTGTTCGACCTATTACTCGATTCACAACACTTAGAATCAGCAATGCCTC
GCTTGAGGGATT
Found at i:827433 original size:81 final size:81
Alignment explanation
Indices: 827292--827448 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 81
827282 TGAGGGATTA
*
827292 ACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAGGGAGAAAAAGTTCATAAT
1 ACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAAGGAGAAAAAGTTCATAAT
827357 GAGAAGAACTTCGAAT
66 GAGAAGAACTTCGAAT
* * * *
827373 ACATTTCCAATGGAGAGTTCATAATGAGAAGAACTT-ATTCGATAA-AAGGAGAAGATGTTCATA
1 ACATTTCCAATGGAGAGTTCATAATGAGAA-AAATTCATCCGA-AAGAAGGAGAAAAAGTTCATA
827436 ATGAGAAGAACTT
64 ATGAGAAGAACTT
827449 GTTTGAACTA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
81 63 0.91
82 6 0.09
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (81 bp):
ACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAAGGAGAAAAAGTTCATAAT
GAGAAGAACTTCGAAT
Found at i:827451 original size:20 final size:20
Alignment explanation
Indices: 827389--827451 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
827379 CCAATGGAGA
827389 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * * **
827409 ATTCGATAA-AAGGAGAAGAT
1 GTTC-ATAATGAGAAGAACTT
827429 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
827449 GTT
1 GTT
827452 TGAACTATTG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:827536 original size:217 final size:217
Alignment explanation
Indices: 827158--827584 Score: 620
Period size: 217 Copynumber: 2.0 Consensus size: 217
827148 AGGTATTAAT
* *
827158 ATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGTTCATAATGA
1 ATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAAAAGGACAAGAAGTTCATAATGA
* * * * *
827223 GAAGAAATTGTTCGACCTATTACTCGATTCACAACCCTTAGAATCAGCAATGCCTCGCTTGAGGG
66 GAAGAAATTGTTCGAACTATTACTAGATTCACAACACTTAGAATCAACAACGCCTCGCTTGAGGG
* *
827288 ATTAACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAGGGAGAAAAAGTTCA
131 ATTAACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGAAAGAGGGAGAAAAAGTTCA
827353 TAATGAGAAGAACTTCGAATAC
196 TAATGAGAAGAACTTCGAATAC
* * * * * *
827375 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTTATTCGATAAAAGGAGAAGATGTTCATAATGA
1 ATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAAAAGGACAAGAAGTTCATAATGA
* * * * *
827440 GAAGAACTTGTTTGAACTATTGCTAGATTCACAACACTTCGAATCAACAACGCCTCGTTTGAGGG
66 GAAGAAATTGTTCGAACTATTACTAGATTCACAACACTTAGAATCAACAACGCCTCGCTTGAGGG
* * * * * *
827505 ATTAACATTTCTAATAGAGAGTTCCTAATGAGAATAACTCATCCGACAGAGGGAGGAGAAGTTCA
131 ATTAACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGAAAGAGGGAGAAAAAGTTCA
827570 TAATGAGAAGAACTT
196 TAATGAGAAGAACTT
827585 GTTCGACCTA
Statistics
Matches: 184, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
217 184 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (217 bp):
ATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAAAAGGACAAGAAGTTCATAATGA
GAAGAAATTGTTCGAACTATTACTAGATTCACAACACTTAGAATCAACAACGCCTCGCTTGAGGG
ATTAACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGAAAGAGGGAGAAAAAGTTCA
TAATGAGAAGAACTTCGAATAC
Found at i:827617 original size:136 final size:136
Alignment explanation
Indices: 827373--827651 Score: 360
Period size: 136 Copynumber: 2.1 Consensus size: 136
827363 AACTTCGAAT
* * * * *
827373 ACATTTCCAATGGAGAGTTCATAATGAGAAGAACTTATTCGATAAAAGGAGAAGATGTTCATAAT
1 ACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAAAAGGAGAAGAAGTTCATAAT
* * * **
827438 GAGAAGAACTTGTTTGAACTATTGCTAGATTCACAACACTTCGAATCAACAACGCCTCGTTTGAG
66 GAGAAGAACTTGTTCGAACTATCGCTAGAGTCACAACACTTCGAATCAACAACGCCTCACTTGAG
*
827503 GGATTA
131 GGATCA
* * * * * *
827509 ACATTTCTAATAGAGAGTTCCTAATGAGAATAACTCATCCGACAGAGGGAGGAGAAGTTCATAAT
1 ACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAAAAGGAGAAGAAGTTCATAAT
* * ***
827574 GAGAAGAACTTGTTCGACCTATCGCTGGAGTCACAACACTTCGAATCAGTGACGCCTCACTTGAG
66 GAGAAGAACTTGTTCGAACTATCGCTAGAGTCACAACACTTCGAATCAACAACGCCTCACTTGAG
827639 GGATCA
131 GGATCA
827645 ACATTTC
1 ACATTTC
827652 AAGTAGAAAT
Statistics
Matches: 121, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
136 121 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (136 bp):
ACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAAAAGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCGAACTATCGCTAGAGTCACAACACTTCGAATCAACAACGCCTCACTTGAG
GGATCA
Found at i:827674 original size:353 final size:353
Alignment explanation
Indices: 827020--827674 Score: 904
Period size: 353 Copynumber: 1.9 Consensus size: 353
827010 TGAGGGATTA
* * * * *
827020 ACATTTCCAATAGAGAGTTCATAATGAGAGGAACTCATCCGGTAGAGGGATAAGAAGTTCATAAT
1 ACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAAT
* *
827085 GAGAAGAAATTGTTCGACCTATTATTCAATTCACAACACTTCGAATCAACAACGCCTTCCTTGAG
66 GAGAAGAAATTGTTCGAACTATTACTCAATTCACAACACTTCGAATCAACAACGCCTTCCTTGAG
* *
827150 GTATTAATATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGTT
131 GGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGTT
* * * * *
827215 CATAATGAGAAGAAATTGTTCGACCTATTACTCGATTCACAACCCTTAGAATCAGCAATGCCTCG
196 CATAATGAGAAGAAATTGTTCGACCTATCACTCGAGTCACAACACTTAGAATCAGCAACGCCTCA
* * * *
827280 CTTGAGGGATTAACATTTCCAATGGAGAGTTCATAATGAGAAAAATTCATCCGAAAGAGGGAGAA
261 CTTGAGGGATCAACATTTCCAATAGAGAATTCACAATGAGAAAAATTCATCCGAAAGAGGGAGAA
827345 AAAGTTCATAATGAGAAGAACTTCGAAT
326 AAAGTTCATAATGAGAAGAACTTCGAAT
* * * *
827373 ACATTTCCAATGGAGAGTTCATAATGAGAAGAACTTATTCGATAAAAGGAGAAGATGTTCATAAT
1 ACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAAT
* * * *
827438 GAGAAGAACTTGTTTGAACTATTGCT-AGATTCACAACACTTCGAATCAACAACGCC-TCGTTTG
66 GAGAAGAAATTGTTCGAACTATTACTCA-ATTCACAACACTTCGAATCAACAACGCCTTC-CTTG
* * * **
827501 AGGGATTAACATTTCTAATAGAGAGTTCCTAATGAGAATAACTCATCCGACAGAGGGAGGAGAAG
129 AGGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAG
* * * * **
827566 TTCATAATGAGAAGAACTTGTTCGACCTATCGCTGGAGTCACAACACTTCGAATCAGTGACGCCT
194 TTCATAATGAGAAGAAATTGTTCGACCTATCACTCGAGTCACAACACTTAGAATCAGCAACGCCT
*
827631 CACTTGAGGGATCAACATTT-CAAGTAGA-AATATCACGATGAGAA
259 CACTTGAGGGATCAACATTTCCAA-TAGAGAAT-TCACAATGAGAA
827675 GAACCAGTGA
Statistics
Matches: 260, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
352 8 0.03
353 252 0.97
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (353 bp):
ACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAAT
GAGAAGAAATTGTTCGAACTATTACTCAATTCACAACACTTCGAATCAACAACGCCTTCCTTGAG
GGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGACAAGAAGTT
CATAATGAGAAGAAATTGTTCGACCTATCACTCGAGTCACAACACTTAGAATCAGCAACGCCTCA
CTTGAGGGATCAACATTTCCAATAGAGAATTCACAATGAGAAAAATTCATCCGAAAGAGGGAGAA
AAAGTTCATAATGAGAAGAACTTCGAAT
Found at i:832003 original size:21 final size:21
Alignment explanation
Indices: 831979--832020 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
831969 AAGATTGATT
831979 CCTTAAGGAAAAGGATCGATC
1 CCTTAAGGAAAAGGATCGATC
*
832000 CCTTAAGGAAAAGGATTGATC
1 CCTTAAGGAAAAGGATCGATC
832021 GCTTCCCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (21 bp):
CCTTAAGGAAAAGGATCGATC
Found at i:837555 original size:14 final size:15
Alignment explanation
Indices: 837530--837562 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
837520 ATCCCAAAAT
*
837530 AAATATTTACAATCA
1 AAATATTTACAACCA
837545 AAATA-TTACAACCA
1 AAATATTTACAACCA
837559 AAAT
1 AAAT
837563 CTTAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATATTTACAACCA
Found at i:838225 original size:22 final size:22
Alignment explanation
Indices: 838197--838242 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
838187 CGTTTTTACA
838197 TTTGAATTAAACATCATTAATG
1 TTTGAATTAAACATCATTAATG
838219 TTTGAATTAAACATCATTAATG
1 TTTGAATTAAACATCATTAATG
838241 TT
1 TT
838243 ATCACTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (22 bp):
TTTGAATTAAACATCATTAATG
Found at i:838381 original size:17 final size:18
Alignment explanation
Indices: 838337--838384 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
838327 AAACATATTG
838337 AAAGTATCGATACTAGCTC
1 AAAGTATCGATACTA-CTC
838356 AAGAGTATCGATACTTA-T-
1 AA-AGTATCGATAC-TACTC
838374 AAAGTATCGAT
1 AAAGTATCGAT
838385 CCTTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.33
18 2 0.07
19 3 0.11
20 11 0.41
21 2 0.07
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (18 bp):
AAAGTATCGATACTACTC
Found at i:840217 original size:19 final size:20
Alignment explanation
Indices: 840179--840218 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
840169 TTATAATTTA
*
840179 ATTTTAAAAGTATAAAATAT
1 ATTTTAAAACTATAAAATAT
840199 ATTTTAAAACTAT-AAATAT
1 ATTTTAAAACTATAAAATAT
840218 A
1 A
840219 ATGTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
ATTTTAAAACTATAAAATAT
Found at i:844746 original size:6 final size:6
Alignment explanation
Indices: 844735--844765 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
844725 ATTTTGCACG
*
844735 AAATAA AAATAA GAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
844766 GGAAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:850275 original size:22 final size:22
Alignment explanation
Indices: 850222--850275 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
850212 CCAATTTGAT
* *
850222 ACATATTTTCTCAAGCACGTTT
1 ACATAGTTTCTCAAGCACGTTG
* *
850244 ACATATTTTCTCAAGCATGTTG
1 ACATAGTTTCTCAAGCACGTTG
850266 ATCAT-GTTTC
1 A-CATAGTTTC
850276 CTTTGTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (22 bp):
ACATAGTTTCTCAAGCACGTTG
Found at i:858654 original size:13 final size:13
Alignment explanation
Indices: 858615--858654 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
858605 AAAGATAGAA
858615 GAAATGATTTAAG
1 GAAATGATTTAAG
* *
858628 GGAATGAATATAAG
1 GAAATG-ATTTAAG
858642 GAAATGATTTAAG
1 GAAATGATTTAAG
858655 AACAAGGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (13 bp):
GAAATGATTTAAG
Found at i:858667 original size:27 final size:27
Alignment explanation
Indices: 858615--858667 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
858605 AAAGATAGAA
** *
858615 GAAATGATTTAAGGGAATGAATATAAG
1 GAAATGATTTAAGACAAGGAATATAAG
858642 GAAATGATTTAAGAACAAGGAA-ATAA
1 GAAATGATTTAAG-ACAAGGAATATAA
858668 AAGAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (27 bp):
GAAATGATTTAAGACAAGGAATATAAG
Found at i:865677 original size:17 final size:15
Alignment explanation
Indices: 865655--865689 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
865645 AAGGGACCAT
865655 AATGAGAAACTAGAGAA
1 AATGAGAAA-TAGA-AA
865672 AATGAGAAATAGAAA
1 AATGAGAAATAGAAA
865687 AAT
1 AAT
865690 TGATATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.20, T:0.14
Consensus pattern (15 bp):
AATGAGAAATAGAAA
Found at i:876138 original size:28 final size:28
Alignment explanation
Indices: 876083--876138 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
876073 TCGCGTTGAA
*
876083 CGTGGGTGAGGGAAAGTGAAGAGTAAAG
1 CGTGGGTGAGGGAAAGTGAAGAGAAAAG
* *
876111 CGTGAGGT-AGGGAAAGTGGATAGAAAAG
1 CGTG-GGTGAGGGAAAGTGAAGAGAAAAG
876139 TGAGGCAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.45, T:0.14
Consensus pattern (28 bp):
CGTGGGTGAGGGAAAGTGAAGAGAAAAG
Found at i:878432 original size:47 final size:47
Alignment explanation
Indices: 878334--878432 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
878324 TCGAATAAAT
* **
878334 GCATGCGAACTAGAAATCATGCGATTAGGTTTATTTTTCTCGAACAA
1 GCATGCGAACTAGAAATCATGCGATTAGGATTATTTTTCAAGAACAA
* * * * *
878381 GCATGCGAATTAGATATCATGCGGTTAGGATT-TTTTTGAATAACAA
1 GCATGCGAACTAGAAATCATGCGATTAGGATTATTTTTCAAGAACAA
878427 GGCATG
1 -GCATG
878433 GGGTAGATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 10 0.23
47 33 0.77
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (47 bp):
GCATGCGAACTAGAAATCATGCGATTAGGATTATTTTTCAAGAACAA
Found at i:879484 original size:18 final size:18
Alignment explanation
Indices: 879453--879489 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
879443 GTCCAAGATG
*
879453 AGAAATAACGCAATGAAA
1 AGAAAGAACGCAATGAAA
*
879471 AGAAAGAACTCAATGAAA
1 AGAAAGAACGCAATGAAA
879489 A
1 A
879490 CAATCTCAAG
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:0.62, C:0.11, G:0.16, T:0.11
Consensus pattern (18 bp):
AGAAAGAACGCAATGAAA
Found at i:881208 original size:16 final size:18
Alignment explanation
Indices: 881177--881210 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
881167 AACTAAGGCT
881177 GCTGATAGAGAGGAAATC
1 GCTGATAGAGAGGAAATC
881195 GCTGATA-A-AGGAAATC
1 GCTGATAGAGAGGAAATC
881211 AGTCTCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (18 bp):
GCTGATAGAGAGGAAATC
Found at i:881807 original size:38 final size:38
Alignment explanation
Indices: 881756--881838 Score: 166
Period size: 38 Copynumber: 2.2 Consensus size: 38
881746 GACAGCACAA
881756 GTTTAACCTCCTTTGTTAGAAGAAGAAATATCATATAT
1 GTTTAACCTCCTTTGTTAGAAGAAGAAATATCATATAT
881794 GTTTAACCTCCTTTGTTAGAAGAAGAAATATCATATAT
1 GTTTAACCTCCTTTGTTAGAAGAAGAAATATCATATAT
881832 GTTTAAC
1 GTTTAAC
881839 GATTCTCTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (38 bp):
GTTTAACCTCCTTTGTTAGAAGAAGAAATATCATATAT
Found at i:885279 original size:13 final size:13
Alignment explanation
Indices: 885261--885285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
885251 TGAAGCAAAC
885261 CCATCAGTAAGTG
1 CCATCAGTAAGTG
885274 CCATCAGTAAGT
1 CCATCAGTAAGT
885286 CTTTCGAGCA
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:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:885339 original size:93 final size:93
Alignment explanation
Indices: 885180--885409 Score: 406
Period size: 93 Copynumber: 2.5 Consensus size: 93
885170 AGTCCTTTGG
* * * *
885180 GCCATCAGTAAGGCTTTCGAGCATGATGATTAAGTCTTTCAGGTAATTTGTAAGCCTTCACCGAA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAA
*
885245 GAGTAGTGAAGCAAACCCATCAGTAAGT
66 GAGTAGTGAAACAAACCCATCAGTAAGT
885273 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAA
*
885338 GAGTAGTGAAACAAATCCATCAGTAAGT
66 GAGTAGTGAAACAAACCCATCAGTAAGT
885366 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
885410 CATCAAGAAG
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 131 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (93 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAA
GAGTAGTGAAACAAACCCATCAGTAAGT
Found at i:885372 original size:13 final size:13
Alignment explanation
Indices: 885354--885378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
885344 TGAAACAAAT
885354 CCATCAGTAAGTG
1 CCATCAGTAAGTG
885367 CCATCAGTAAGT
1 CCATCAGTAAGT
885379 CTTTCGAGCA
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:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:885427 original size:42 final size:42
Alignment explanation
Indices: 885366--885635 Score: 312
Period size: 42 Copynumber: 6.5 Consensus size: 42
885356 ATCAGTAAGT
*
885366 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
* * *
885408 GTCATCAAG-AAGTCTTTCGAGCATGATGATGAAGTCATTCGG
1 GCCATC-AGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
* * * *
885450 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
*
885492 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
**
885534 GCCATCAGTAAGTCTTTCGATTATGATGATTAAATCATTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
* *** * * * *
885576 GTCATTTTTGAGTCTTTCGAGCAAGAT-AATAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
* *
885617 GTCATCCA-TAAGTCCTTCG
1 GCCAT-CAGTAAGTCTTTCG
885636 GGTAGGATGT
Statistics
Matches: 198, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
41 28 0.14
42 168 0.85
43 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
Found at i:885468 original size:20 final size:20
Alignment explanation
Indices: 885439--885552 Score: 74
Period size: 20 Copynumber: 5.5 Consensus size: 20
885429 CATGATGATG
*
885439 AAGTCATTCGGGCCATCAGT
1 AAGTCTTTCGGGCCATCAGT
* *
885459 AAGTCTTTCGAG-CATGATGAT
1 AAGTCTTTCGGGCCATCA-G-T
885480 GAAGTCCTTT-GGGCCATCAGT
1 -AAGT-CTTTCGGGCCATCAGT
* *
885501 AAGTCTTTCGAG-CATGATGATT
1 AAGTCTTTCGGGCCATCA-G--T
*
885523 AAATCATTT-GGGCCATCAGT
1 AAGTC-TTTCGGGCCATCAGT
885543 AAGTCTTTCG
1 AAGTCTTTCG
885553 ATTATGATGA
Statistics
Matches: 71, Mismatches: 11, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
19 15 0.21
20 24 0.34
21 2 0.03
22 15 0.21
23 15 0.21
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
AAGTCTTTCGGGCCATCAGT
Found at i:886175 original size:53 final size:53
Alignment explanation
Indices: 886056--886358 Score: 328
Period size: 53 Copynumber: 5.8 Consensus size: 53
886046 AGAATCACAC
* * *
886056 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGG-A-GGA-CTGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGG
* * *
886106 CAGAAGATTATCCGAGTTCTACTCCCTGAAGCAAGAGGAAACGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGG
* * ** *
886159 CAGAAGATTGTTCGAGTTCTACTCCTTGAAACAAGAGGGAGTGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGG
* *
886212 CAGAAGATTGTTCGAGTTCTAC-CCCTTGAAGCAAGAGGGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCC-TGAAGCAAGAGGGAACGAACCCGTAGG
* * * ** * ***
886265 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATATGGAGTGAACCCATTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGG
* *
886318 TAGAAGATTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGGGA
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGA
886359 GCGGACCCAT
Statistics
Matches: 214, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
50 35 0.16
51 1 0.00
52 4 0.02
53 153 0.71
54 11 0.05
55 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGG
Found at i:886257 original size:106 final size:105
Alignment explanation
Indices: 886056--886366 Score: 369
Period size: 106 Copynumber: 3.0 Consensus size: 105
886046 AGAATCACAC
* * * * *
886056 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAG-G-A-CTGTAGGCAGAAGATTATC
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGACAGAAGATTGTT
* * *
886118 CGAGTTCTACTCCCTGAAGCAAGAGGAAACGAACCCGTAGG
66 CGAGTTCTAC-CCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
886159 CAGAAGATTGTTCGAGTTCTACTCCTTGAAACAAGAGGGAGTGAACCCGTAGACAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGACAGAAGATTGTT
886224 CGAGTTCTACCCCTTGAAGCAAGAGGGAGCGAACCCGTAAG
66 CGAGTTCTACCCC-TGAAGCAAGAGGGAGCGAACCCGTAAG
* * * * ****
886265 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATATGGAGTGAACCCATTTTTAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGACAGAAGATTGTT
* *
886330 CGAGTTCCTTAATCCCTGAA-CAAGAGGGAGCGGACCC
66 CGAGTT-C-T-ACCCCTGAAGCAAGAGGGAGCGAACCC
886367 ATCGTTTGAA
Statistics
Matches: 179, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
103 38 0.21
104 1 0.01
105 4 0.02
106 110 0.61
107 17 0.09
108 5 0.03
109 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (105 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGTAGACAGAAGATTGTT
CGAGTTCTACCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:887550 original size:28 final size:28
Alignment explanation
Indices: 887495--887550 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
887485 TCGCGTTGAA
*
887495 CGTGGGTGAGGGAAAGTGAAGAGTAAAG
1 CGTGGGTGAGGGAAAGTGAAGAGAAAAG
* *
887523 CGTGAGGT-AGGGAAAGTGGATAGAAAAG
1 CGTG-GGTGAGGGAAAGTGAAGAGAAAAG
887551 TAAGGCAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.45, T:0.14
Consensus pattern (28 bp):
CGTGGGTGAGGGAAAGTGAAGAGAAAAG
Found at i:893554 original size:22 final size:24
Alignment explanation
Indices: 893513--893557 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
893503 AAAAGATGAT
*
893513 GATTGATGGATGTTGGTGAAGATG
1 GATTGATGGATGTTGATGAAGATG
893537 GATT-ATGGA-GTTGATGAAGAT
1 GATTGATGGATGTTGATGAAGAT
893558 AGTATCTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 5 0.25
24 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (24 bp):
GATTGATGGATGTTGATGAAGATG
Found at i:894072 original size:20 final size:20
Alignment explanation
Indices: 894047--894214 Score: 137
Period size: 20 Copynumber: 8.4 Consensus size: 20
894037 AATTTGTAAA
894047 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
894067 TTGCAACACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
894087 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
894107 TCGCAATACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
894127 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
894147 TCGCAACACTGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
* * **
894168 TCGTAACTC-GATTTTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* * *
894188 TCGCAACAC-GAATTTAATT
1 TCGCAACACAGAAGTCAAAT
894207 TCGCAACA
1 TCGCAACA
894215 GGTTTTAGTT
Statistics
Matches: 121, Mismatches: 21, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
19 15 0.12
20 90 0.74
21 16 0.13
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.24
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:894186 original size:41 final size:40
Alignment explanation
Indices: 893962--894213 Score: 178
Period size: 40 Copynumber: 6.3 Consensus size: 40
893952 AAATGACCAA
* * * *
893962 CAAATTTGCAACGCGA-ACTCCAATTTCGCAAC-CCAATTT
1 CAAATTCGCAACGCGATAGT-CAAATTCGCAACACGAATTT
* * * *
894001 CCAAATTCGCAACGTGAATCTGT-AAA-TCGCAACGCAAATTT
1 -CAAATTCGCAACGCG-AT-AGTCAAATTCGCAACACGAATTT
* * * **
894042 GTAAA-TCGCAACACAGA-AGTCAAATTTGCAACAC-ATAAGT
1 -CAAATTCGCAACGC-GATAGTCAAATTCGCAACACGA-ATTT
* * **
894082 CAAATTCGCAACGCGATAGTCAAATTCGCAATACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACGAATTT
894122 CAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAATTT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACAC-GAATTT
* * **
894163 CAAATTCGTAACTCGATTTTCAAATTCGCAACACGAATTT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACGAATTT
*
894203 -AATTTCGCAAC
1 CAAATTCGCAAC
894214 AGGTTTTAGT
Statistics
Matches: 171, Mismatches: 29, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
38 2 0.01
39 18 0.11
40 103 0.60
41 47 0.27
43 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGCAACACGAATTT
Found at i:894211 original size:19 final size:20
Alignment explanation
Indices: 893962--894214 Score: 119
Period size: 20 Copynumber: 12.7 Consensus size: 20
893952 AAATGACCAA
* * * *
893962 CAAATTTGCAACGCGAACTC
1 CAAATTCGCAACACGAATTT
* *
893982 CAATTTCGCAAC-CCAATTT
1 CAAATTCGCAACACGAATTT
**
894001 CCAAATTCGCAACGTGAATCTGT
1 -CAAATTCGCAACACGAAT-T-T
* *
894024 -AAA-TCGCAACGCAAATTT
1 CAAATTCGCAACACGAATTT
* *
894042 GTAAA-TCGCAACACAGAA-GT
1 -CAAATTCGCAACAC-GAATTT
* **
894062 CAAATTTGCAACAC-ATAAGT
1 CAAATTCGCAACACGA-ATTT
* *
894082 CAAATTCGCAACGCG-ATAGT
1 CAAATTCGCAACACGAAT-TT
* * **
894102 CAAATTCGCAATACAAAAGT
1 CAAATTCGCAACACGAATTT
* *
894122 CAAATTCGCAACGCG-ATAGT
1 CAAATTCGCAACACGAAT-TT
894142 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAATTT
* * *
894163 CAAATTCGTAACTCGATTTT
1 CAAATTCGCAACACGAATTT
894183 CAAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
*
894203 -AATTTCGCAACA
1 CAAATTCGCAACA
894215 GGTTTTAGTT
Statistics
Matches: 182, Mismatches: 35, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.01
19 22 0.12
20 131 0.72
21 23 0.13
22 3 0.02
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:894398 original size:16 final size:15
Alignment explanation
Indices: 894370--894408 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
894360 TCCCCATCTC
894370 TAATTTTTTTTTACA
1 TAATTTTTTTTTACA
*
894385 TAATTTTATTTTTATA
1 TAATTTT-TTTTTACA
894401 TAATTTTT
1 TAATTTTT
894409 CAATGATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATTTTTTTTTACA
Found at i:895024 original size:12 final size:12
Alignment explanation
Indices: 895003--895036 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
894993 ATCACATTTC
*
895003 CAATACCAAACA
1 CAATATCAAACA
895015 CAATATCAAACA
1 CAATATCAAACA
*
895027 CAATCTCAAA
1 CAATATCAAA
895037 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:895375 original size:3 final size:3
Alignment explanation
Indices: 895367--895399 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
895357 TATAACCCTA
*
895367 AAG AAG AAG AAG AAG AAG AAG AAG GAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
895400 TCCTCAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:897377 original size:18 final size:18
Alignment explanation
Indices: 897354--897389 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
897344 AAGCAAAAGG
*
897354 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
897372 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
897390 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:897800 original size:65 final size:63
Alignment explanation
Indices: 897710--897880 Score: 188
Period size: 65 Copynumber: 2.6 Consensus size: 63
897700 AATTTAAAAC
897710 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAAC-TTTACAAATCAATTAAACAAGCAAAAAAA-AATTCTTATTTACACATC-AATT
897775 A
63 A
* * * *
897776 AACAAATCAACTTTACAAATCAATT--A-AA-CATAAAAACATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTACAAATCAATTAAACAAGCAAAAAAAAATTCTTATTTACACATCAATTA
*
897835 AACAAATCAACTTTCAATGTAAAATTCAATTAAACAAGCAAAAAAA
1 AACAAATCAACTTT--A---CAAA-TCAATTAAACAAGCAAAAAAA
897881 GTGTACCCAG
Statistics
Matches: 89, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
59 19 0.21
60 15 0.17
61 8 0.09
62 2 0.02
63 1 0.01
64 3 0.03
65 20 0.22
66 11 0.12
67 1 0.01
68 2 0.02
69 7 0.08
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.28
Consensus pattern (63 bp):
AACAAATCAACTTTACAAATCAATTAAACAAGCAAAAAAAAATTCTTATTTACACATCAATTA
Found at i:899250 original size:21 final size:21
Alignment explanation
Indices: 899226--899320 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 21
899216 TAGGGACCCA
* *
899226 TTGAACGATGACAGGGGCATC
1 TTGAACGATGAGAGGGGCCTC
* * *
899247 TTGAATGGTGGGAGGGGCCTC
1 TTGAACGATGAGAGGGGCCTC
*
899268 TTGAACGATGAGAGGAGCCTC
1 TTGAACGATGAGAGGGGCCTC
* **
899289 ATGAACGAT-AGGAGGCACCTC
1 TTGAACGATGA-GAGGGGCCTC
899310 TTGAACGATGA
1 TTGAACGATGA
899321 TAGGTGAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (21 bp):
TTGAACGATGAGAGGGGCCTC
Found at i:899272 original size:42 final size:41
Alignment explanation
Indices: 899199--899320 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 41
899189 GTTGTGAATC
*
899199 GGGCTCTTGAACGGTGGTAGGGACC-CATTGAACGATGACAG
1 GGGCTCTTGAACGGTGGGAGGGACCTC-TTGAACGATGACAG
* * *
899240 GGGCATCTTGAATGGTGGGAGGGGCCTCTTGAACGATGAGAG
1 GGGC-TCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAG
* * * * *
899282 GAGCCTCATGAACGATAGGAGGCACCTCTTGAACGATGA
1 G-GGCTCTTGAACGGTGGGAGGGACCTCTTGAACGATGA
899321 TAGGTGAATC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.06
42 60 0.90
43 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.20
Consensus pattern (41 bp):
GGGCTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAG
Found at i:899626 original size:21 final size:21
Alignment explanation
Indices: 899602--899651 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
899592 TGAAACAATC
* *
899602 TCACATAGAGTAGCTACCTTA
1 TCACATAGAGTAGATACCTCA
* *
899623 TCACGTAAAGTAGATACCTCA
1 TCACATAGAGTAGATACCTCA
899644 TCACATAG
1 TCACATAG
899652 CGCACCATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (21 bp):
TCACATAGAGTAGATACCTCA
Found at i:901449 original size:60 final size:60
Alignment explanation
Indices: 901381--901651 Score: 277
Period size: 60 Copynumber: 4.5 Consensus size: 60
901371 TAAACGCGCT
* ** * * *
901381 TTGCGAATTTGACTTTCGTATTGTGAATTTGACTTTTGTGTTGCGAATTTAACTATCATG
1 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGTG
* *
901441 TTGCGAATTTGACTATCACGTTGCGAATTTGACTTTTATGTTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATC-GTG
* * * *
901501 TTGCG-ATTT-ACAGATTCGCGTTGCG-ATTT-ACAGATTCGCGTTGCGAATTTGACTATCGTG
1 TTGCGAATTTGAC-TA-TCGCGTTGCGAATTTGAC--TTTTGTGTTGCGAATTTGACTATCGTG
* *
901561 TTGCGAATTTGACTATCGCGTTGTGAATTTGACTTCTGTGTTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATC-GTG
* * *
901621 TTACG-ATTTAAATATTCGCGTTGCGAATTTG
1 TTGCGAATTTGACTA-TCGCGTTGCGAATTTG
901652 GAAAATCGCA
Statistics
Matches: 175, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
58 4 0.02
59 20 0.11
60 136 0.78
61 11 0.06
62 4 0.02
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (60 bp):
TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTATCGTG
Found at i:901554 original size:100 final size:100
Alignment explanation
Indices: 901381--901651 Score: 282
Period size: 100 Copynumber: 2.7 Consensus size: 100
901371 TAAACGCGCT
* * * * * ** **
901381 TTGCGAATTTGACTT-TCGTATTGTGAATTTGACTTTTGTGTTGCGAATTTAACTA-TCATGTTG
1 TTGCGAATTTGACTTCT-GTGTTGCGAATTTGACTTCTGCGTTACG-ATTTAAAGATTCGCGTTG
* * *
901444 CGAATTTGACTATCACGTTGCGAATTTGACTTTTATG
64 CGAATTTGACTATCACGTTGCGAATTTGACTATCACG
* *
901481 TTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAGATTC-GCGTTGCGATTTACAGATTCGCGTT
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGAC---TTCTGCGTTACGATTTAAAGATTCGCGTT
** *
901543 GCGAATTTGACTATCGTGTTGCGAATTTGACTATCGCG
63 GCGAATTTGACTATCACGTTGCGAATTTGACTATCACG
* * *
901581 TTGTGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTACGATTTAAATATTCGCGTTGCG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGCGTTACGATTTAAAGATTCGCGTTGCG
901646 AATTTG
66 AATTTG
901652 GAAAATCGCA
Statistics
Matches: 143, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
98 2 0.01
99 13 0.09
100 119 0.83
101 7 0.05
102 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (100 bp):
TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGCGTTACGATTTAAAGATTCGCGTTGCG
AATTTGACTATCACGTTGCGAATTTGACTATCACG
Found at i:901594 original size:120 final size:120
Alignment explanation
Indices: 901420--901646 Score: 373
Period size: 120 Copynumber: 1.9 Consensus size: 120
901410 TGACTTTTGT
*
901420 GTTGCGAATTTAACTATCATGTTGCGAATTTGACTATCACGTTGCGAATTTGACTTTTATGTTGC
1 GTTGCGAATTTAACTATCATGTTGCGAATTTGACTATCACGTTGCGAATTTGACTTCTATGTTGC
* *
901485 GAATTTGACTTCTGTGTTGCGATTTACAGATTCGCGTTGCGATTTACAGATTCGC
66 GAATTTGACTTCTGTGTTACGATTTAAAGATTCGCGTTGCGATTTACAGATTCGC
* * * * *
901540 GTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGTGAATTTGACTTCTGTGTTGC
1 GTTGCGAATTTAACTATCATGTTGCGAATTTGACTATCACGTTGCGAATTTGACTTCTATGTTGC
*
901605 GAATTTGACTTCTGTGTTACGATTTAAATATTCGCGTTGCGA
66 GAATTTGACTTCTGTGTTACGATTTAAAGATTCGCGTTGCGA
901647 ATTTGGAAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 98 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.41
Consensus pattern (120 bp):
GTTGCGAATTTAACTATCATGTTGCGAATTTGACTATCACGTTGCGAATTTGACTTCTATGTTGC
GAATTTGACTTCTGTGTTACGATTTAAAGATTCGCGTTGCGATTTACAGATTCGC
Found at i:901616 original size:20 final size:19
Alignment explanation
Indices: 901381--901622 Score: 195
Period size: 20 Copynumber: 12.1 Consensus size: 19
901371 TAAACGCGCT
*
901381 TTGCGAATTTGACTTTCGTA
1 TTGCGAATTTGAC-TTCGTG
* *
901401 TTGTGAATTTGACTTTTGTG
1 TTGCGAATTTGAC-TTCGTG
* *
901421 TTGCGAATTTAACTATCATG
1 TTGCGAATTTGACT-TCGTG
**
901441 TTGCGAATTTGACTATCACG
1 TTGCGAATTTGACT-TCGTG
**
901461 TTGCGAATTTGACTTTTATG
1 TTGCGAATTTGAC-TTCGTG
901481 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTC-GTG
*
901501 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC---TTCGTG
*
901521 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC---TTCGTG
901541 TTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACT-TCGTG
*
901561 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACT-TCGTG
*
901581 TTGTGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTC-GTG
901601 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTC-GTG
901621 TT
1 TT
901623 ACGATTTAAA
Statistics
Matches: 193, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
18 2 0.01
19 10 0.05
20 171 0.89
21 8 0.04
22 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (19 bp):
TTGCGAATTTGACTTCGTG
Found at i:901644 original size:40 final size:40
Alignment explanation
Indices: 901405--901651 Score: 143
Period size: 40 Copynumber: 6.2 Consensus size: 40
901395 TTCGTATTGT
* * * **
901405 GAATTTGACTTTTGTGTTGCGAATTTAACTA-TCATGTTGC
1 GAATTTGAC-TTCGCGTTGCGAATTTAAATATTCGCGTTGC
* * * ***
901445 GAATTTGACTATCACGTTGCGAATTTGACT-TTTATGTTGC
1 GAATTTGACT-TCGCGTTGCGAATTTAAATATTCGCGTTGC
* * *
901485 GAATTTGACTTCTGTGTTGCG-ATTTACAGATTCGCGTTGC
1 GAATTTGACTTC-GCGTTGCGAATTTAAATATTCGCGTTGC
* * *
901525 G-ATTT-ACAGATTCGCGTTGCGAATTTGACTA-TCGTGTTGC
1 GAATTTGAC---TTCGCGTTGCGAATTTAAATATTCGCGTTGC
* * * *
901565 GAATTTGACTATCGCGTTGTGAATTT-GA-CTTCTGTGTTGC
1 GAATTTGACT-TCGCGTTGCGAATTTAAATATTC-GCGTTGC
* *
901605 GAATTTGACTTCTGTGTTACG-ATTTAAATATTCGCGTTGC
1 GAATTTGACTTC-GCGTTGCGAATTTAAATATTCGCGTTGC
901645 GAATTTG
1 GAATTTG
901652 GAAAATCGCA
Statistics
Matches: 161, Mismatches: 30, Indels: 32
0.72 0.13 0.14
Matches are distributed among these distances:
38 2 0.01
39 20 0.12
40 122 0.76
41 15 0.09
42 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (40 bp):
GAATTTGACTTCGCGTTGCGAATTTAAATATTCGCGTTGC
Found at i:901660 original size:21 final size:21
Alignment explanation
Indices: 901636--901772 Score: 82
Period size: 21 Copynumber: 6.7 Consensus size: 21
901626 ATTTAAATAT
901636 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
****
901657 TCGCAACACGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
****
901678 TCGCAACACGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
** ** * *
901699 TCGCAATGCG-ATTTACATAT
1 TCGCGTTGCGAATTTGGAAAA
*
901719 TCGCGTTGCGAATTTGGAAAC
1 TCGCGTTGCGAATTTGGAAAA
* * **
901740 T-GGGTTGCGAAATTGG-AGT
1 TCGCGTTGCGAATTTGGAAAA
901759 TCGCGTTGCGAATT
1 TCGCGTTGCGAATT
901773 AGTTCGTCAT
Statistics
Matches: 92, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
19 2 0.02
20 37 0.40
21 53 0.58
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:904376 original size:19 final size:19
Alignment explanation
Indices: 904354--904394 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
904344 ACCGGTCCAA
*
904354 ACCGGTCCGAACCGGTTTG
1 ACCGGTCCGAACCGGGTTG
*
904373 ACCGGTCCGAATCGGGTTG
1 ACCGGTCCGAACCGGGTTG
904392 ACC
1 ACC
904395 CGTTGACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.20
Consensus pattern (19 bp):
ACCGGTCCGAACCGGGTTG
Found at i:904461 original size:29 final size:28
Alignment explanation
Indices: 904419--904569 Score: 128
Period size: 29 Copynumber: 5.3 Consensus size: 28
904409 ACCCGACCCG
904419 GTGACATTTTGGGAATTATTGTGAAAAAT
1 GTGACA-TTTGGGAATTATTGTGAAAAAT
* *
904448 GTGACATTCTGGGAATTATTTTGAAAAAG
1 GTGACATT-TGGGAATTATTGTGAAAAAT
* * *
904477 GTGATATTTCGGTAATT-TTTTGAAAAA-
1 GTGACATTT-GGGAATTATTGTGAAAAAT
* * * *
904504 ATGACATTTCGAGAATTTTTGTGAAGAAT
1 GTGACATTT-GGGAATTATTGTGAAAAAT
* * *
904533 GTGACATTCTAGGAATTATTCT-AAAAAA
1 GTGACATT-TGGGAATTATTGTGAAAAAT
904561 GTGACATTT
1 GTGACATTT
904570 TGGTAAATTT
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
27 14 0.14
28 33 0.33
29 52 0.52
30 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.38
Consensus pattern (28 bp):
GTGACATTTGGGAATTATTGTGAAAAAT
Found at i:904579 original size:85 final size:85
Alignment explanation
Indices: 904420--904575 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 85
904410 CCCGACCCGG
* * * * * *
904420 TGACATTTTGGGAATTATTGTGAAAAATGTGACATTCTGGGAATTATTTTGAAAAAGGTGATATT
1 TGACATTTCGAGAATTATTGTGAAAAATGTGACATTCTAGGAATTATTCTGAAAAAAGTGACATT
904485 TCGGTAATTTTTTGAAAAAA
66 TCGGTAATTTTTTGAAAAAA
* *
904505 TGACATTTCGAGAATTTTTGTGAAGAATGTGACATTCTAGGAATTATTCT-AAAAAAGTGACATT
1 TGACATTTCGAGAATTATTGTGAAAAATGTGACATTCTAGGAATTATTCTGAAAAAAGTGACATT
*
904569 TTGGTAA
66 TCGGTAA
904576 ATTTCGAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 18 0.29
85 44 0.71
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (85 bp):
TGACATTTCGAGAATTATTGTGAAAAATGTGACATTCTAGGAATTATTCTGAAAAAAGTGACATT
TCGGTAATTTTTTGAAAAAA
Found at i:911909 original size:18 final size:18
Alignment explanation
Indices: 911875--911920 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
911865 AAACCGGTCT
*
911875 GACCCGTTGA-TCGACCC
1 GACCCGTTGACCCGACCC
911892 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
*
911910 GACCCGGTGAC
1 GACCCGTTGAC
911921 ATTTTGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.17, C:0.43, G:0.26, T:0.13
Consensus pattern (18 bp):
GACCCGTTGACCCGACCC
Found at i:912007 original size:58 final size:58
Alignment explanation
Indices: 911916--912040 Score: 205
Period size: 58 Copynumber: 2.2 Consensus size: 58
911906 ACCCGACCCG
** *
911916 GTGACATTTTGGGAATTATTGTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAT
1 GTGACATTTCAGGAATTATTGTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAA
* *
911974 GTGACATTTCAGGAATTTTTGTGAAAAATGTGACATTCTGGGAATTATTTTGAAAAAA
1 GTGACATTTCAGGAATTATTGTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAA
912032 GTGACATTT
1 GTGACATTT
912041 GGTAAATTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (58 bp):
GTGACATTTCAGGAATTATTGTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAA
Found at i:912048 original size:29 final size:28
Alignment explanation
Indices: 911916--912042 Score: 166
Period size: 29 Copynumber: 4.4 Consensus size: 28
911906 ACCCGACCCG
* *
911916 GTGACATTTTGGGAATTATTGTGAAAAAG
1 GTGACA-TTTGGGAATTATTTTGAAAAAT
911945 GTGACATTCTGGGAATTATTTTGAAAAAT
1 GTGACATT-TGGGAATTATTTTGAAAAAT
*
911974 GTGACATTTCAGGAATT-TTTGTGAAAAAT
1 GTGACATTT-GGGAATTATTT-TGAAAAAT
*
912003 GTGACATTCTGGGAATTATTTTGAAAAAA
1 GTGACATT-TGGGAATTATTTTGAAAAAT
912032 GTGACATTTGG
1 GTGACATTTGG
912043 TAAATTTAGA
Statistics
Matches: 88, Mismatches: 5, Indels: 11
0.85 0.05 0.11
Matches are distributed among these distances:
28 9 0.10
29 75 0.85
30 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (28 bp):
GTGACATTTGGGAATTATTTTGAAAAAT
Found at i:914371 original size:46 final size:46
Alignment explanation
Indices: 914316--914612 Score: 375
Period size: 46 Copynumber: 6.4 Consensus size: 46
914306 TTATTCATTA
* * * *
914316 ATTTCAGTTATGGTC-TCTTTTCATGCATTAATACATCCATTCATGC
1 ATTTTAGTTATGG-CATCCTTTCATGCCTTAATGCATCCATTCATGC
* *
914362 ATTTTAGTTATGGCATCCTTTTTATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCC-TTTCATGCCTTAATGCATCCATTCATGC
* * *
914409 ATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGC
* *
914455 ATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGC
* *
914501 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCAT-CATTTCATGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCA-TTCATGC
* **
914547 ATTTTTAATTATTACATCCTTTCATGCCTTAATGCAT-CATTTCATGC
1 A-TTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCA-TTCATGC
*
914594 ATTTTAGTTATGACATCCT
1 ATTTTAGTTATGGCATCCT
914613 GTTGAATTAT
Statistics
Matches: 226, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 143 0.63
47 81 0.36
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGC
Found at i:914427 original size:26 final size:26
Alignment explanation
Indices: 914395--914526 Score: 135
Period size: 26 Copynumber: 5.5 Consensus size: 26
914385 ATGCCTTAAT
914395 GCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCATTTTAATTATG
* *
914421 GAATCCTTTCATGC--CTT-A--AT-
1 GCATCCTTTCATGCATTTTAATTATG
914441 GCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCATTTTAATTATG
*
914467 GCATCCTTTCATGC--CTT-A--AT-
1 GCATCCTTTCATGCATTTTAATTATG
* *
914487 GCATCCTTTCATGCATTTCAGTTATG
1 GCATCCTTTCATGCATTTTAATTATG
914513 GCATCCTTTCATGC
1 GCATCCTTTCATGC
914527 CTTAATGCAT
Statistics
Matches: 86, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
20 27 0.31
21 4 0.05
22 3 0.03
23 3 0.03
24 4 0.05
25 4 0.05
26 41 0.48
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAATTATG
Found at i:914446 original size:93 final size:92
Alignment explanation
Indices: 914316--914605 Score: 402
Period size: 93 Copynumber: 3.1 Consensus size: 92
914306 TTATTCATTA
* ** * * * *
914316 ATTTCAGTTATGGTCTCTTTTCATGCATTAATACATCCATTCATGCATTTTAGTTATGGCATCCT
1 ATTTTAGTTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATCC-
*
914381 TTTTATGCCTTAATGCATCCTTTCATGC
65 TTTCATGCCTTAATGCATCCTTTCATGC
* *
914409 ATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCCT
1 ATTTTAGTTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATCCT
914474 TTCATGCCTTAATGCATCCTTTCATGC
66 TTCATGCCTTAATGCATCCTTTCATGC
* * * **
914501 ATTTCAGTTATGGCATCCTTTCATGCCTTAATGCAT-CATTTCATGTATTTTTAATTATTACATC
1 ATTTTAGTTATGGAATCCTTTCATGCCTTAATGCATCCA-TTCATGCA-TTTTAATTATGGCATC
*
914565 CTTTCATGCCTTAATGCATCATTTCATGC
64 CTTTCATGCCTTAATGCATCCTTTCATGC
914594 ATTTTAGTTATG
1 ATTTTAGTTATG
914606 ACATCCTGTT
Statistics
Matches: 176, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
91 1 0.01
92 67 0.38
93 108 0.61
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (92 bp):
ATTTTAGTTATGGAATCCTTTCATGCCTTAATGCATCCATTCATGCATTTTAATTATGGCATCCT
TTCATGCCTTAATGCATCCTTTCATGC
Found at i:914448 original size:20 final size:20
Alignment explanation
Indices: 914374--914545 Score: 119
Period size: 20 Copynumber: 7.7 Consensus size: 20
914364 TTTAGTTATG
*
914374 GCATCCTTTTTATGCCTTAAT
1 GCATCC-TTTCATGCCTTAAT
*
914395 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
914420 GGAATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
914441 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
914466 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
914487 GCATCCTTTCATGCATTTCAGTTAT
1 GCATCCTTTCATGC-CTT-A---AT
914512 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
914533 GCATCATTTCATG
1 GCATCCTTTCATG
914546 TATTTTTAAT
Statistics
Matches: 123, Mismatches: 10, Indels: 37
0.72 0.06 0.22
Matches are distributed among these distances:
20 46 0.37
21 14 0.11
22 5 0.04
23 4 0.03
24 5 0.04
25 8 0.07
26 41 0.33
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:914566 original size:139 final size:139
Alignment explanation
Indices: 914334--914612 Score: 427
Period size: 139 Copynumber: 2.0 Consensus size: 139
914324 TATGGTCTCT
* *
914334 TTTCATGCATTAATACATCCATTCATGCATTTTAGTTATGGCATCCTTTTTATGCCTTAATGCAT
1 TTTCATGCATTAATACATCCATTCATGCATTTCAGTTATGGCATCCTTTTCATGCCTTAATGCAT
* *
914399 CCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATT
66 CATTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATT
*
914464 ATGGCATCC
131 ATGACATCC
* * *
914473 TTTCATGCCTTAATGCATCCTTTCATGCATTTCAGTTATGGCATCC-TTTCATGCCTTAATGCAT
1 TTTCATGCATTAATACATCCATTCATGCATTTCAGTTATGGCATCCTTTTCATGCCTTAATGCAT
* * *
914537 CATTTCATGTATTTTTAATTAT-TACATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAG
66 CATTTCATGCA-TTTTAATTATGGA-ATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAA
914601 TTATGACATCC
129 TTATGACATCC
914612 T
1 T
914613 GTTGAATTAT
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
138 27 0.21
139 100 0.79
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.44
Consensus pattern (139 bp):
TTTCATGCATTAATACATCCATTCATGCATTTCAGTTATGGCATCCTTTTCATGCCTTAATGCAT
CATTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATT
ATGACATCC
Found at i:915321 original size:34 final size:33
Alignment explanation
Indices: 915264--915334 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
915254 CATTGTAAAG
*
915264 GGGAAAGGTTCTAACTAAGCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAACTAAGCCCGTG-AAAAACTA
** * *
915298 GGGAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTCTAACTAAGCCCGTGAAAAACTA
915331 GGGA
1 GGGA
915335 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTCTAACTAAGCCCGTGAAAAACTA
Found at i:916217 original size:19 final size:19
Alignment explanation
Indices: 916193--916239 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
916183 AATGATTTTC
916193 TTTTGAAAGCAAAAATG-AA
1 TTTTGAAAGC-AAAATGAAA
*
916212 TTTTGAAAATCAAAATGAAA
1 TTTTG-AAAGCAAAATGAAA
916232 TTTTGAAA
1 TTTTGAAA
916240 AAGGATTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (19 bp):
TTTTGAAAGCAAAATGAAA
Found at i:916522 original size:25 final size:25
Alignment explanation
Indices: 916488--916540 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
916478 GCATAATGTT
*
916488 CAAGGATCCAAAGCAATTTGGATAC
1 CAAGGATCCAAAGAAATTTGGATAC
916513 CAAGGATCCAAAGAAATTTGGATAC
1 CAAGGATCCAAAGAAATTTGGATAC
916538 CAA
1 CAA
916541 AATCTACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (25 bp):
CAAGGATCCAAAGAAATTTGGATAC
Found at i:921593 original size:36 final size:36
Alignment explanation
Indices: 921546--921622 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
921536 CTAGTGGGAT
921546 ATTGTTAGAGTATGCCCAAAGACCAATCATATGATG
1 ATTGTTAGAGTATGCCCAAAGACCAATCATATGATG
921582 ATTGTTAGAGTATGCCCAAAGACCAATCATATGATG
1 ATTGTTAGAGTATGCCCAAAGACCAATCATATGATG
921618 ATTGT
1 ATTGT
921623 AATAATACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (36 bp):
ATTGTTAGAGTATGCCCAAAGACCAATCATATGATG
Found at i:922697 original size:90 final size:89
Alignment explanation
Indices: 922585--922761 Score: 300
Period size: 90 Copynumber: 2.0 Consensus size: 89
922575 TAATCGCGAA
* * *
922585 TATTTAATTTCAATTAATTAAATATAGATTTGATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
922650 TAGGGTAACTTGGATATAAAAGGAT
65 TAGGGTAACTTGGATATAAAAGGAT
*
922675 TATTAAATTCCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
922740 AGGGTAACTTGGCTATAAAAGG
66 AGGGTAACTTGGATATAAAAGG
922762 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 34 0.41
90 48 0.59
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:923252 original size:20 final size:21
Alignment explanation
Indices: 923222--923260 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
923212 GTTTTATAGA
923222 AAAATCATCCCAAACGGCTCC
1 AAAATCATCCCAAACGGCTCC
*
923243 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
923261 TGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:923739 original size:20 final size:20
Alignment explanation
Indices: 923714--923884 Score: 65
Period size: 20 Copynumber: 7.7 Consensus size: 20
923704 AATCCCAACA
923714 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
923734 CATCCTTTAATGCATTTTACTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
* *
923760 CATTCTTTCATGCATTAATG
1 CATCCTTTCATGCCTTAATG
* *
923780 CATCTTTTCATGCATTTTTAATTATGG
1 CATCCTTTCATGC---CTT-A--AT-G
*
923807 CATCC-TTAATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
923826 CATCCTTTCATGCATTTTAATTATGG
1 CATCCTTTCATGC--CTT-A--AT-G
*
923852 CATCATTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
923872 TATCCTTTTATGC
1 CATCCTTTCATGC
923885 ATTTAATTAT
Statistics
Matches: 113, Mismatches: 18, Indels: 40
0.66 0.11 0.23
Matches are distributed among these distances:
19 6 0.05
20 43 0.38
21 4 0.04
22 6 0.05
23 6 0.05
24 6 0.05
25 4 0.04
26 33 0.29
27 5 0.04
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:923793 original size:46 final size:45
Alignment explanation
Indices: 923718--923895 Score: 250
Period size: 46 Copynumber: 3.9 Consensus size: 45
923708 CCAACACATC
* *
923718 CTTTCATGCCTTAATGCATCCTTTAATGCATTTTACTTATGGCATT
1 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCA-T
* *
923764 CTTTCATGCATTAATGCATCTTTTCATGCATTTTTAATTATGGCAT
1 CTTTCATGCCTTAATGCATCCTTTCATGCA-TTTTAATTATGGCAT
* *
923810 CCTTAATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCAT
1 CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCAT
* *
923855 CATTTCATGCCTTAATGTATCCTTTTATGCA-TTTAATTATG
1 C-TTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATG
923896 AATTCGATTT
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
45 26 0.22
46 79 0.67
47 13 0.11
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.46
Consensus pattern (45 bp):
CTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCAT
Found at i:930191 original size:139 final size:139
Alignment explanation
Indices: 929941--930213 Score: 528
Period size: 139 Copynumber: 2.0 Consensus size: 139
929931 AAATCTAACA
*
929941 CTATGACGTTAGGTGTACAAAATCAGCAAAAGAGTGAATCAAGAACTTTTAGGTCGAACCAAGAG
1 CTATGACGTTAGGTGTACAAAATCAGCAAAAGAGTGAATCAAGAACTATTAGGTCGAACCAAGAG
930006 AAATTACAATTCACTCTTATTTTAGTCCCCTATAAGGAGTTGTATGAAAAATTGCTAGAATAAAT
66 AAATTACAATTCACTCTTATTTTAGTCCCCTATAAGGAGTTGTATGAAAAATTGCTAGAATAAAT
930071 ATTGTTTAC
131 ATTGTTTAC
930080 CTATGACGTTAGGTGTACAAAATCAGCAAAAGAGTGAATCAAGAACTATTAGGTCGAACCAAGAG
1 CTATGACGTTAGGTGTACAAAATCAGCAAAAGAGTGAATCAAGAACTATTAGGTCGAACCAAGAG
*
930145 AAATTACAATTCACTCTTATTTTAGTCCCCTATAAGGAGTTGTATGAACAATTGCTAGAATAAAT
66 AAATTACAATTCACTCTTATTTTAGTCCCCTATAAGGAGTTGTATGAAAAATTGCTAGAATAAAT
930210 ATTG
131 ATTG
930214 GTTTCTCCAA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 132 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (139 bp):
CTATGACGTTAGGTGTACAAAATCAGCAAAAGAGTGAATCAAGAACTATTAGGTCGAACCAAGAG
AAATTACAATTCACTCTTATTTTAGTCCCCTATAAGGAGTTGTATGAAAAATTGCTAGAATAAAT
ATTGTTTAC
Found at i:937775 original size:18 final size:18
Alignment explanation
Indices: 937752--937793 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
937742 GGATGGAAAG
937752 TGGTGCTAAAGTGTAATT
1 TGGTGCTAAAGTGTAATT
937770 TGGTGCTAAAGTGTAATT
1 TGGTGCTAAAGTGTAATT
937788 TGGTGC
1 TGGTGC
937794 ATAGGATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (18 bp):
TGGTGCTAAAGTGTAATT
Found at i:939664 original size:55 final size:55
Alignment explanation
Indices: 939503--939887 Score: 200
Period size: 55 Copynumber: 7.1 Consensus size: 55
939493 ACTCAATTTT
* * * *
939503 AAAAATTTGCTTC-ACTCTTCTATAATAGAGGATCACTAGAGCTCACTCGATCTT-
1 AAAAATTT-ATTCTACTCTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
* ** * * * ** *
939557 AAAATTTTACCCTACTCCTCTATAACAAAGTAATGCTAGAGCTCACTTGGTCTTA
1 AAAAATTTATTCTACTCTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
* * *
939612 AAAAATTTATTCTACTCTTCCATAATAAAGGAGCACTAGAGCTTACTCGGTCTTA
1 AAAAATTTATTCTACTCTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
*** * ** * * * * *
939667 AAAAAAAAATTCT-CTACTCCTCCAACAAAGAAACGCTAAAGCTCACTCGATCTTA
1 AAAAATTTATTCTACT-CTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
* * * * * * **
939722 AAAAATTTA-CCTACT-TTCCATAACAACGAAACGCTAGAGCTCACTCCATCTTA
1 AAAAATTTATTCTACTCTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
* * * * * * * * *
939775 CAAAA--TAGCTCTATTCCTCCATCACAAAGGAACACTAGAACTCACTCTGTCTTA
1 AAAAATTTA-TTCTACTCTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
** * **
939829 AAAAATTGCTT-TA--CTTC-ATCACA-AAAGAAACACTAGAGCTCACTTTGTCTTA
1 AAAAATTTATTCTACTCTTCTAT-A-ATAAAGGAACACTAGAGCTCACTCGGTCTTA
939881 AAAAATT
1 AAAAATT
939888 CTCAACTCCA
Statistics
Matches: 250, Mismatches: 70, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
51 4 0.02
52 36 0.14
53 41 0.16
54 79 0.32
55 90 0.36
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (55 bp):
AAAAATTTATTCTACTCTTCTATAATAAAGGAACACTAGAGCTCACTCGGTCTTA
Found at i:939725 original size:109 final size:108
Alignment explanation
Indices: 939490--939835 Score: 262
Period size: 109 Copynumber: 3.2 Consensus size: 108
939480 AACTTTAGAA
* * * * * *
939490 CTCACTCAAT-TTTAAAAATTTGCTTC-ACTCTTCTATAATAGAGGATCACTAGAGCTCACTCGA
1 CTCACTCGATCTTAAAAAATTT-ATTCTACTCTTCCATAATAAAGGAGCACTAGAGCTCACTCGA
** * * * *
939553 TCTTAAAATTTTACCCTACTCCTCTATAACAAAGTAATGCTAGAG
65 TCTTAAAAAATTACCCTACTCCTC-ACAACAAAGAAACGCTAAAG
* * * *
939598 CTCACTTGGTCTTAAAAAATTTATTCTACTCTTCCATAATAAAGGAGCACTAGAGCTTACTCGGT
1 CTCACTCGATCTTAAAAAATTTATTCTACTCTTCCATAATAAAGGAGCACTAGAGCTCACTCGAT
*
939663 CTTAAAAAAAAAATT-CTCTACTCCTC-CAACAAAGAAACGCTAAAG
66 CTT----AAAAAATTACCCTACTCCTCACAACAAAGAAACGCTAAAG
* * * * * * *
939708 CTCACTCGATCTTAAAAAATTTA-CCTACT-TTCCATAACAACGAAACGCTAGAGCTCACTCCAT
1 CTCACTCGATCTTAAAAAATTTATTCTACTCTTCCATAATAAAGGAGCACTAGAGCTCACTCGAT
* * * * *
939771 CTTACAAAA-TAGCTCTATTCCTC-CATCACAAAGGAACACTAGAA-
66 CTTAAAAAATTA-CCCTACTCCTCACA--ACAAAGAAACGCTA-AAG
939815 CTCACTCTG-TCTTAAAAAATT
1 CTCACTC-GATCTTAAAAAATT
939836 GCTTTACTTC
Statistics
Matches: 194, Mismatches: 32, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
103 1 0.01
104 5 0.03
105 12 0.06
107 31 0.16
108 42 0.22
109 51 0.26
110 36 0.19
112 10 0.05
113 6 0.03
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (108 bp):
CTCACTCGATCTTAAAAAATTTATTCTACTCTTCCATAATAAAGGAGCACTAGAGCTCACTCGAT
CTTAAAAAATTACCCTACTCCTCACAACAAAGAAACGCTAAAG
Found at i:939753 original size:53 final size:55
Alignment explanation
Indices: 939538--939835 Score: 236
Period size: 55 Copynumber: 5.5 Consensus size: 55
939528 TAGAGGATCA
* * * *
939538 CTAGAGCTCACTCGATCTT-AAAATTTTACCCTACTCCTCTATAACAAAGTAATG
1 CTAGAGCTCACTCGATCTTAAAAAATTTACCCTACTCCTCCATAACAAAGAAACG
* * ** * * * * *
939592 CTAGAGCTCACTTGGTCTTAAAAAATTTATTCTACTCTTCCATAATAAAGGAGCA
1 CTAGAGCTCACTCGATCTTAAAAAATTTACCCTACTCCTCCATAACAAAGAAACG
* * * *
939647 CTAGAGCTTACTCGGTCTTAAAAAAAAAATT-CTCTACTCCTCC--AACAAAGAAACG
1 CTAGAGCTCACTCGATCTT---AAAAAATTTACCCTACTCCTCCATAACAAAGAAACG
* * *
939702 CTAAAGCTCACTCGATCTTAAAAAATTTA-CCTACT-TTCCATAACAACGAAACG
1 CTAGAGCTCACTCGATCTTAAAAAATTTACCCTACTCCTCCATAACAAAGAAACG
* * * * * * *
939755 CTAGAGCTCACTCCATCTTACAAAA--TAGCTCTATTCCTCCATCACAAAGGAACA
1 CTAGAGCTCACTCGATCTTAAAAAATTTA-CCCTACTCCTCCATAACAAAGAAACG
*
939809 CTAGAACTCACTCTG-TCTTAAAAAATT
1 CTAGAGCTCACTC-GATCTTAAAAAATT
939836 GCTTTACTTC
Statistics
Matches: 190, Mismatches: 41, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
51 5 0.03
52 13 0.07
53 37 0.19
54 51 0.27
55 66 0.35
57 10 0.05
58 8 0.04
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.28
Consensus pattern (55 bp):
CTAGAGCTCACTCGATCTTAAAAAATTTACCCTACTCCTCCATAACAAAGAAACG
Found at i:939820 original size:54 final size:52
Alignment explanation
Indices: 939693--939886 Score: 135
Period size: 54 Copynumber: 3.7 Consensus size: 52
939683 CTCCTCCAAC
* * * * *
939693 AAAGAAACGCTAAAGCTCACTCGATCTTAAAAAATTTA-C-CTACTTTCCATAAC-
1 AAAGAAACACTAGAGCTCACTCCATCTTAAAAAA--TAGCTTTAC--TCCATCACA
* * * *
939746 AACGAAACGCTAGAGCTCACTCCATCTTACAAAATAGCTCTATTCCTCCATCAC-
1 AAAGAAACACTAGAGCTCACTCCATCTTAAAAAATAG--CT-TTACTCCATCACA
* * ** * *
939800 AAAGGAACACTAGAACTCACTCTGTCTTAAAAAATTGCTTTACTTCATCACA
1 AAAGAAACACTAGAGCTCACTCCATCTTAAAAAATAGCTTTACTCCATCACA
***
939852 AAAGAAACACTAGAGCTCACTTTGTCTTAAAAAAT
1 AAAGAAACACTAGAGCTCACTCCATCTTAAAAAAT
939887 TCTCAACTCC
Statistics
Matches: 115, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
51 12 0.10
52 34 0.30
53 30 0.26
54 37 0.32
56 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.26
Consensus pattern (52 bp):
AAAGAAACACTAGAGCTCACTCCATCTTAAAAAATAGCTTTACTCCATCACA
Found at i:939844 original size:107 final size:104
Alignment explanation
Indices: 939678--939872 Score: 227
Period size: 107 Copynumber: 1.8 Consensus size: 104
939668 AAAAAAAATT
*
939678 CTCTACTCCTCCAACAAAGAAACGCTAAAGCTCACTCGATCTTAAAAAATTTACCTACTTTCCAT
1 CTCTACTCCTCCAACAAAGAAACACTAAAGCTCACTCGATCTTAAAAAATTTACCTAC-TT-CAT
* *
939743 AAC-AACGAAACGCTAGAGCTCACTCCATCTTACAAAATAG
64 AACAAAAGAAACACTAGAGCTCACTCCATCTTACAAAATAG
* * * *
939783 CTCTATTCCTCCATCACAAAGGAACACTAGAA-CTCACTCTG-TCTTAAAAAA-TTGCTTTACTT
1 CTCTACTCCTCCA--ACAAAGAAACACTA-AAGCTCACTC-GATCTTAAAAAATTTAC-CTACTT
*
939845 CATCACAAAAGAAACACTAGAGCTCACT
61 CATAACAAAAGAAACACTAGAGCTCACT
939873 TTGTCTTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
105 17 0.22
106 24 0.32
107 32 0.42
108 3 0.04
ACGTcount: A:0.37, C:0.29, G:0.09, T:0.25
Consensus pattern (104 bp):
CTCTACTCCTCCAACAAAGAAACACTAAAGCTCACTCGATCTTAAAAAATTTACCTACTTCATAA
CAAAAGAAACACTAGAGCTCACTCCATCTTACAAAATAG
Found at i:941150 original size:51 final size:51
Alignment explanation
Indices: 941070--941447 Score: 416
Period size: 51 Copynumber: 7.4 Consensus size: 51
941060 GTGATGATAT
* * *
941070 AATAAAGTGTTAAATTTCATTCGTGTAAGTCTGTGATAAGTTCATTGCTGG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* * * * *
941121 AATAATGTGTTAAATTTCACTGGTTTAAGTTTGTGATATGTTCATTGCTAG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* * * * *** * * *
941172 AATAATTTGTTATATTTCACTAATGGAAGTCCACGATTAGTTTATTGTTGG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* * * * *
941223 AATAATGTGTTAAATTTCACTGGTTTAAGTTTGTGATAAATTCATTGCTAG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* * * * *
941274 AATAATTTGTTAAACTTCACTAGTGTAAGTCTGTGATAAGTTAATTTCTAG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* * *
941325 AATAATTTGTTAAACTTCACTAGTGTAAGTCTGTGATAAGTTCATTGTTGG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* * * *
941376 AATAATGTGTTAAATTTCACTGGTGTAAGTTTGTGATAAGTTCACTGTTGG
1 AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
* *
941427 AATTATGTGTT-AGTTTCACTA
1 AATAATGTGTTAAATTTCACTA
941448 CTGGAAATGT
Statistics
Matches: 270, Mismatches: 57, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
50 8 0.03
51 262 0.97
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (51 bp):
AATAATGTGTTAAATTTCACTAGTGTAAGTCTGTGATAAGTTCATTGCTGG
Found at i:941296 original size:23 final size:23
Alignment explanation
Indices: 941270--941347 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
941260 AAATTCATTG
941270 CTAGAATAATTTGTTAAACTTCA
1 CTAGAATAATTTGTTAAACTTCA
** * * * *
941293 CTAGTGTAAGTCTGTGATAAGTTAA
1 CTAGAATAA-TTTGTTA-AACTTCA
941318 TTTCTAGAATAATTTGTTAAACTTCA
1 ---CTAGAATAATTTGTTAAACTTCA
941344 CTAG
1 CTAG
941348 TGTAAGTCTG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
23 11 0.29
24 5 0.13
25 5 0.13
26 5 0.13
27 5 0.13
28 7 0.18
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (23 bp):
CTAGAATAATTTGTTAAACTTCA
Found at i:941355 original size:153 final size:153
Alignment explanation
Indices: 941070--941438 Score: 486
Period size: 153 Copynumber: 2.4 Consensus size: 153
941060 GTGATGATAT
* * * * *
941070 AATAAAGTGTTAAATTTCATTCGTGTAAGTCTGTGATAAGTTCATTGCTGGAATAATGTGTTAAA
1 AATAATGTGTTAAATTTCACTGGTGTAAGTTTGTGATAAGTTCATTGCTAGAATAATGTGTTAAA
* * * * * * * *
941135 TTTCACTGGTTTAAGTTTGTGATATGTTCATTGCTAGAATAATTTGTTATATTTCACTAATGGAA
66 CTTCACTAGTGTAAGTCTGTGATAAGTTAATTGCTAGAATAATTTGTTAAACTTCACTAATGGAA
* *
941200 GTCCACGATTAGTTTATTGTTGG
131 GTCCACGATAAGTTCATTGTTGG
* * *
941223 AATAATGTGTTAAATTTCACTGGTTTAAGTTTGTGATAAATTCATTGCTAGAATAATTTGTTAAA
1 AATAATGTGTTAAATTTCACTGGTGTAAGTTTGTGATAAGTTCATTGCTAGAATAATGTGTTAAA
* * *
941288 CTTCACTAGTGTAAGTCTGTGATAAGTTAATTTCTAGAATAATTTGTTAAACTTCACTAGTGTAA
66 CTTCACTAGTGTAAGTCTGTGATAAGTTAATTGCTAGAATAATTTGTTAAACTTCACTAATGGAA
***
941353 GTCTGTGATAAGTTCATTGTTGG
131 GTCCACGATAAGTTCATTGTTGG
* * * *
941376 AATAATGTGTTAAATTTCACTGGTGTAAGTTTGTGATAAGTTCACTGTTGGAATTATGTGTTA
1 AATAATGTGTTAAATTTCACTGGTGTAAGTTTGTGATAAGTTCATTGCTAGAATAATGTGTTA
941439 GTTTCACTAC
Statistics
Matches: 185, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
153 185 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (153 bp):
AATAATGTGTTAAATTTCACTGGTGTAAGTTTGTGATAAGTTCATTGCTAGAATAATGTGTTAAA
CTTCACTAGTGTAAGTCTGTGATAAGTTAATTGCTAGAATAATTTGTTAAACTTCACTAATGGAA
GTCCACGATAAGTTCATTGTTGG
Found at i:941368 original size:25 final size:25
Alignment explanation
Indices: 941289--941421 Score: 67
Period size: 25 Copynumber: 5.2 Consensus size: 25
941279 TTTGTTAAAC
941289 TTCACTAGTGTAAGTCTGTGATAAG
1 TTCACTAGTGTAAGTCTGTGATAAG
* ** * * *
941314 TTAATTTCTAGAATAA-TTTGTTA-AAC
1 TTCA---CTAGTGTAAGTCTGTGATAAG
941340 TTCACTAGTGTAAGTCTGTGATAAG
1 TTCACTAGTGTAAGTCTGTGATAAG
* * * * *
941365 TTCA-TTGTTGGAA-TAATGTGTTAAAT
1 TTCACTAG-TGTAAGT-CTGTGAT-AAG
* *
941391 TTCACTGGTGTAAGTTTGTGATAAG
1 TTCACTAGTGTAAGTCTGTGATAAG
941416 TTCACT
1 TTCACT
941422 GTTGGAATTA
Statistics
Matches: 76, Mismatches: 22, Indels: 20
0.64 0.19 0.17
Matches are distributed among these distances:
23 7 0.09
24 8 0.11
25 26 0.34
26 20 0.26
27 8 0.11
28 7 0.09
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (25 bp):
TTCACTAGTGTAAGTCTGTGATAAG
Found at i:941422 original size:25 final size:25
Alignment explanation
Indices: 941340--941422 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
941330 TTTGTTAAAC
* *
941340 TTCACTAGTGTAAGTCTGTGATAAG
1 TTCACTGGTGTAAGTATGTGATAAG
* * * * *
941365 TTCATTGTTGGAA-TAATGTGTTAAAT
1 TTCACTGGTGTAAGT-ATGTGAT-AAG
*
941391 TTCACTGGTGTAAGTTTGTGATAAG
1 TTCACTGGTGTAAGTATGTGATAAG
941416 TTCACTG
1 TTCACTG
941423 TTGGAATTAT
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
24 1 0.02
25 23 0.55
26 17 0.40
27 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.41
Consensus pattern (25 bp):
TTCACTGGTGTAAGTATGTGATAAG
Found at i:941435 original size:25 final size:25
Alignment explanation
Indices: 941356--941435 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
941346 AGTGTAAGTC
* *
941356 TGTGATAAGTTCATTGTTGGAATAA
1 TGTGATAAGTTCACTGTTGGAATTA
* * * *
941381 TGTGTTAAATTTCACTGGTGTAAGTT-
1 TGTGAT-AAGTTCACTGTTGGAA-TTA
941407 TGTGATAAGTTCACTGTTGGAATTA
1 TGTGATAAGTTCACTGTTGGAATTA
941432 TGTG
1 TGTG
941436 TTAGTTTCAC
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
24 2 0.05
25 22 0.52
26 17 0.40
27 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.42
Consensus pattern (25 bp):
TGTGATAAGTTCACTGTTGGAATTA
Found at i:941444 original size:25 final size:25
Alignment explanation
Indices: 941365--941468 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
941355 CTGTGATAAG
* * *
941365 TTCATTGTTGGAATAATGTGTTAAAT
1 TTCACTGTTGGAATTATGTGTT-AGT
* * *
941391 TTCACTGGTGTAAGTT-TGTGATAAG-
1 TTCACTGTTGGAA-TTATGTG-TTAGT
941416 TTCACTGTTGGAATTATGTGTTAGT
1 TTCACTGTTGGAATTATGTGTTAGT
** *
941441 TTCACTACTGGAA--ATGTTTTAGT
1 TTCACTGTTGGAATTATGTGTTAGT
941464 TTCAC
1 TTCAC
941469 GGGTGTAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
23 14 0.23
24 5 0.08
25 26 0.42
26 15 0.24
27 2 0.03
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (25 bp):
TTCACTGTTGGAATTATGTGTTAGT
Found at i:941511 original size:26 final size:24
Alignment explanation
Indices: 941430--941512 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 24
941420 CTGTTGGAAT
*
941430 TATGTGTTAGTTTCACTACTGGAA
1 TATGTGTTAGTTTCACTACTGAAA
* ***
941454 -ATGTTTTAGTTTCACGGGTGTAAA
1 TATGTGTTAGTTTCACTACTG-AAA
**
941478 TACATGTTAGATTTCACTACTGAAA
1 TATGTGTTAG-TTTCACTACTGAAA
941503 TTATGTGTTA
1 -TATGTGTTA
941513 AAGTTCAGTG
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
23 16 0.38
24 2 0.05
25 9 0.21
26 15 0.36
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (24 bp):
TATGTGTTAGTTTCACTACTGAAA
Found at i:942944 original size:2 final size:2
Alignment explanation
Indices: 942937--942971 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
942927 TCAGATATGT
942937 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
942972 GTAATTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:943584 original size:38 final size:38
Alignment explanation
Indices: 943533--943609 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
943523 CTTACCGTGT
*
943533 AAGTGATTTACACGTAGGTACCGAAAAACAAGAGGATC
1 AAGTGATTTACACGTAGATACCGAAAAACAAGAGGATC
943571 AAGTGATTTACACGTAGATACCGAAAAACAAGAGGATC
1 AAGTGATTTACACGTAGATACCGAAAAACAAGAGGATC
943609 A
1 A
943610 GCCTTAGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (38 bp):
AAGTGATTTACACGTAGATACCGAAAAACAAGAGGATC
Found at i:944560 original size:36 final size:36
Alignment explanation
Indices: 944506--944580 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
944496 CGTGCATGGC
**
944506 ATACATGCGCTTGTTACTGATGATTATATGAATGAT
1 ATACATGCGCTTACTACTGATGATTATATGAATGAT
* * **
944542 ATACATGCGTTTACTACTGATGTTTATATTCATGAT
1 ATACATGCGCTTACTACTGATGATTATATGAATGAT
944578 ATA
1 ATA
944581 TGTGTGATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (36 bp):
ATACATGCGCTTACTACTGATGATTATATGAATGAT
Found at i:947353 original size:32 final size:30
Alignment explanation
Indices: 947317--947392 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
947307 GAGGCCACGG
*
947317 GGCCTACCTAAGAACACATCTTAAGGCCGCA
1 GGCCTACCTAAGAACA-ATCTCAAGGCCGCA
* * * *
947348 TGGCCTACCCAAGAATAATCTCAGGGCTGCA
1 -GGCCTACCTAAGAACAATCTCAAGGCCGCA
947379 GAGCCTACCTAAGA
1 G-GCCTACCTAAGA
947393 GTCACATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 1 0.03
31 22 0.59
32 14 0.38
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (30 bp):
GGCCTACCTAAGAACAATCTCAAGGCCGCA
Found at i:948759 original size:37 final size:37
Alignment explanation
Indices: 948665--948769 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
948655 CCTTTTCGTC
*
948665 CTACTAGGATTCAAACTCATAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
948702 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
948739 CTACTATGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
948770 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:949166 original size:18 final size:17
Alignment explanation
Indices: 949127--949169 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
949117 ATTATATGGA
*
949127 TATT-TTATTCATTTAT
1 TATTATTATTCATCTAT
*
949143 TTTTATTATTCATGCTAT
1 TATTATTATTCAT-CTAT
949161 TATTATTAT
1 TATTATTAT
949170 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 8 0.36
18 11 0.50
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTATTATTCATCTAT
Found at i:949453 original size:17 final size:18
Alignment explanation
Indices: 949426--949470 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
949416 TATAACTTTA
949426 TATTA-TTTTTTATT-AT
1 TATTATTTTTTTATTCAT
949442 T-TTCATTTTTTTATTCAT
1 TATT-ATTTTTTTATTCAT
949460 TATTATTTTTT
1 TATTATTTTTT
949471 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 9 0.36
18 10 0.40
19 2 0.08
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTATTTTTTTATTCAT
Found at i:949669 original size:2 final size:2
Alignment explanation
Indices: 949662--949697 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
949652 TAATACTTTG
*
949662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
949698 TTTTTTCCTT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:954081 original size:183 final size:183
Alignment explanation
Indices: 953773--954309 Score: 959
Period size: 183 Copynumber: 2.9 Consensus size: 183
953763 ATTAAATCCG
953773 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
953838 ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTTGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
953903 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
953956 TAAAGCTGAGCTATTCCACTAAGGCAATTAGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
954021 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTTCTT
66 ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* *
954086 TTGTCAGGCCAAAGACTTTGTGATGAGACGAATCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
954139 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* ** *
954204 ATAAATTACATTCAAA-TCATAACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
954268 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
954310 TAAACCTGAT
Statistics
Matches: 337, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 336 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:955489 original size:36 final size:34
Alignment explanation
Indices: 955449--955562 Score: 86
Period size: 36 Copynumber: 3.2 Consensus size: 34
955439 CACTCAAATT
955449 TGTTTTTCTTAAAACATACTTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACA-A-TTTGTCTCACTTGAGAC
* * * ** *
955485 TGTTTTTCTCGAAAGA-AGATTTATTTCACTCAAGAT
1 TGTTTTTCT-TAAA-ACA-ATTTGTCTCACTTGAGAC
*
955521 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAAC-A-ATTTGTCTCACTTGAGAC
*
955557 CGTTTT
1 TGTTTT
955563 CACTCGAAAG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 49 0.83
37 5 0.08
38 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (34 bp):
TGTTTTTCTTAAAACAATTTGTCTCACTTGAGAC
Found at i:955525 original size:72 final size:75
Alignment explanation
Indices: 955433--955608 Score: 227
Period size: 72 Copynumber: 2.4 Consensus size: 75
955423 ATGCAGATGA
* * * *
955433 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
955495 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
955505 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
955570 AAGAAGGCAT
66 AAGAAGGCAT
* *
955580 TTCATTTCACTCAAGGTTGTTTTTTTTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
955609 GAAGATTTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
71 1 0.01
72 50 0.55
73 11 0.12
74 1 0.01
75 4 0.04
76 24 0.26
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.43
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:955709 original size:104 final size:98
Alignment explanation
Indices: 955601--955892 Score: 268
Period size: 90 Copynumber: 3.0 Consensus size: 98
955591 CAAGGTTGTT
*
955601 TTTTTTAAGAAGATTTTATCTTGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTCGTCTCCCTT
1 TTTTTT-A-AAGATTTTATCTT-CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTT
*** *
955666 GAGACAGTTTCTCTTGAAAACATTTCCCTTG--AA-A
63 GAGACAGTTTCTCTTG-AAACATAAACATTGAAAACA
* *
955700 ----TT--A-ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGA
1 TTTTTTAAAGATTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGA
*
955758 GATAGTTTCTCTTGAAACATAAACATTGAAAACA
65 GACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
955792 TTTCCCTTGAAATGAATTTTATCTCACTTGAGATAGTTTCCCTTGAAAC-G--AATTTTGTCTCC
1 TTT---TTTAAA-G-ATTTTATCT-TCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
** *
955854 CTTGAGACAGTTTCTCTCCAAACATAAACTTTGAAAACA
60 CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
955893 ATTTAACGAA
Statistics
Matches: 160, Mismatches: 17, Indels: 30
0.77 0.08 0.14
Matches are distributed among these distances:
89 10 0.06
90 63 0.39
91 4 0.03
92 1 0.01
95 2 0.01
99 1 0.01
101 48 0.30
103 1 0.01
104 30 0.19
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (98 bp):
TTTTTTAAAGATTTTATCTTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAG
ACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:955759 original size:39 final size:39
Alignment explanation
Indices: 955702--955776 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
955692 CCTTGAAATT
*
955702 AATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
1 AATTTTGTCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
* *
955741 AATTTTGTCTC-CCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCTCC-TGAGATAGTTTCCCTCGAAACA
955777 TAAACATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (39 bp):
AATTTTGTCTCTCCTGAGATAGTTTCCCTCGAAACAGAA
Found at i:955839 original size:36 final size:36
Alignment explanation
Indices: 955792--955867 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
955782 ATTGAAAACA
* *
955792 TTTCCCTTGAAATGAATTTTATCTCACTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCACTTGAGACAG
* *
955828 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCACTTGAGACAG
955864 TTTC
1 TTTC
955868 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCACTTGAGACAG
Found at i:956263 original size:105 final size:105
Alignment explanation
Indices: 956067--956697 Score: 921
Period size: 105 Copynumber: 6.0 Consensus size: 105
956057 ATATCGTGAC
* * * * * * *
956067 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
*
956132 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
956173 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
956238 ATTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
956278 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
956343 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
956383 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCACTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
956448 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
956488 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGTTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
956549 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
956588 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
* * * * *
956653 GATTCCAGACCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
956694 ACTC
1 ACTC
956698 GGAACAATGC
Statistics
Matches: 480, Mismatches: 39, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
100 81 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 303 0.63
106 83 0.17
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:957334 original size:37 final size:37
Alignment explanation
Indices: 957240--957344 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
957230 CCTTTTCGTC
*
957240 CTACTAGGATTCAAACTCATAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
957277 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
957314 CTACTATGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
957345 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:957740 original size:18 final size:17
Alignment explanation
Indices: 957701--957743 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
957691 ATTATATGGA
957701 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
957717 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
957735 TATTATTAT
1 TATTATTAT
957744 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:957807 original size:51 final size:53
Alignment explanation
Indices: 957749--957863 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 53
957739 ATTATATGTA
* * *
957749 TATATATATATTAAAT-TAT-TTTCATTTATTTTTTTAC-TATATAGT-TATTAT
1 TATATATATATTAAATATATATTTC-TTTAATATTTTACTTATA-AGTCTAATAT
*
957800 TATATATATA-TATATATATATTTCTTTAATATTTTACTTATAAGTCTAATAT
1 TATATATATATTAAATATATATTTCTTTAATATTTTACTTATAAGTCTAATAT
957852 TACTATATATAT
1 TA-TATATATAT
957864 ATTGTAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
50 4 0.07
51 27 0.50
52 15 0.28
53 8 0.15
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (53 bp):
TATATATATATTAAATATATATTTCTTTAATATTTTACTTATAAGTCTAATAT
Found at i:958263 original size:2 final size:2
Alignment explanation
Indices: 958256--958289 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
958246 TAATACTTTG
*
958256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
958290 TGTTTTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:959620 original size:20 final size:20
Alignment explanation
Indices: 959597--959648 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
959587 AACGCGATCC
959597 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
959617 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
959637 CCAAAATCGCAA
1 CCAGAATCGCAA
959649 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:959729 original size:20 final size:20
Alignment explanation
Indices: 959704--959897 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
959694 GATTTTCCAT
* *
959704 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
959724 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
959744 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
959764 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
959784 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
959804 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
959824 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
959844 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
959865 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
959885 AATCGCAACGCGA
1 AATCGCAACGCGA
959898 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:959749 original size:40 final size:39
Alignment explanation
Indices: 959700--959897 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
959690 TTGCGATTTT
* ** *
959700 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
959738 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
959779 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
959819 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
959858 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
959898 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:959787 original size:60 final size:60
Alignment explanation
Indices: 959704--959896 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
959694 GATTTTCCAT
* ** * *
959704 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
959764 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
959824 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
959885 AATCGCAACGCG
1 AATCGCAACGCG
959897 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:960317 original size:33 final size:33
Alignment explanation
Indices: 960278--960348 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
960268 TTCACTTAGA
*
960278 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
960311 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
960344 TTTCA
1 TTTCA
960349 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:960488 original size:14 final size:14
Alignment explanation
Indices: 960469--960523 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
960459 AGAATGACTG
960469 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
960483 TCGCAACGCAAAATGAAAA
1 TCGCAACG----A-GAGAA
960502 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
960516 TCGCAACG
1 TCGCAACG
960524 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 20 0.59
15 1 0.03
18 1 0.03
19 12 0.35
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:960506 original size:33 final size:33
Alignment explanation
Indices: 960469--960539 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
960459 AGAATGACTG
**
960469 TCGCAACGAGAGAATCGCAACGCAAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCAAAACCAAAA
*
960502 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCAAAACCAAAA
960535 TCGCA
1 TCGCA
960540 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.25, G:0.21, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCAAAACCAAAA
Found at i:960557 original size:19 final size:19
Alignment explanation
Indices: 960535--960599 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
960525 GAAACCAAAA
*
960535 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
960554 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
960568 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
960587 TCGCGTTGCGATT
1 TCGCGTTGCGATT
960600 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:960576 original size:14 final size:14
Alignment explanation
Indices: 960557--960611 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
960547 TTTCATTTCG
960557 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
960571 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
960590 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
960604 CGTTGCGA
1 CGTTGCGA
960612 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:960582 original size:33 final size:33
Alignment explanation
Indices: 960540--960655 Score: 162
Period size: 33 Copynumber: 3.5 Consensus size: 33
960530 CAAAATCGCA
960540 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
960573 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*** * *
960606 TTGCGACAGTCATTCTCTCGTTGCGATTTTCAT-G
1 TTGCGATTTTCATT-TCGCGTTGCGATTCTC-TCG
960640 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
960656 AACCAAAAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
33 46 0.63
34 26 0.36
35 1 0.01
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Done.