Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 33
Found at i:6225419 original size:27 final size:28
Alignment explanation
Indices: 6225380--6225449 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
6225370 AACCGAAAAC
*
6225380 AAAAATAAGCAAAGCAA-CTGAAAG-AAA
1 AAAAATAAACAAAGCAATC-GAAAGCAAA
6225407 AAAAATAAACAAAGCAATCGAAAGCAAA
1 AAAAATAAACAAAGCAATCGAAAGCAAA
* *
6225435 ATAAATAAATAAAGC
1 AAAAATAAACAAAGC
6225450 TTGGGGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.10
Consensus pattern (28 bp):
AAAAATAAACAAAGCAATCGAAAGCAAA
Found at i:6226487 original size:39 final size:39
Alignment explanation
Indices: 6226444--6226528 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 39
6226434 AAGAAAGAAT
6226444 AATAAAAAAAAGAATGAAGAAAAT-TT-ATATTTT-AAAAGA
1 AATAAAAAAAAG--TGAAGAAAATGTTAAT-TTTTAAAAAGA
6226483 AATAAATAAAAAGTGAAGAAAATGTTAATTTTTAAAAAGA
1 AATAAA-AAAAAGTGAAGAAAATGTTAATTTTTAAAAAGA
6226523 AA-AAAA
1 AATAAAA
6226529 GAAACAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
38 11 0.26
39 15 0.36
40 16 0.38
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (39 bp):
AATAAAAAAAAGTGAAGAAAATGTTAATTTTTAAAAAGA
Found at i:6226514 original size:38 final size:40
Alignment explanation
Indices: 6226444--6226528 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
6226434 AAGAAAGAAT
6226444 AATAAAAAAAAGAATGAAGAAAATTTATA-TTTT-AAAAGA
1 AATAAAAAAAAG-ATGAAGAAAATTTATATTTTTAAAAAGA
6226483 AATAAATAAAAAG-TGAAGAAAATGTTA-ATTTTTAAAAAGA
1 AATAAA-AAAAAGATGAAGAAAAT-TTATATTTTTAAAAAGA
6226523 AA-AAAA
1 AATAAAA
6226529 GAAACAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
38 12 0.29
39 16 0.38
40 14 0.33
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (40 bp):
AATAAAAAAAAGATGAAGAAAATTTATATTTTTAAAAAGA
Found at i:6227234 original size:23 final size:23
Alignment explanation
Indices: 6227187--6227236 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
6227177 AATAACATAT
**
6227187 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
6227210 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
6227233 TAGG
1 TAGG
6227237 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:6227296 original size:87 final size:87
Alignment explanation
Indices: 6227150--6227312 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
6227140 TATGTTATAT
*
6227150 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGGT
6227215 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
6227237 CATTTAACCGTAAATATTATCAAGTACAATAACATATTATGTAGCACTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGGT
6227302 AGCGCTTATAT
66 AGCGCTTATAT
6227313 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:6227703 original size:200 final size:198
Alignment explanation
Indices: 6227328--6227820 Score: 654
Period size: 200 Copynumber: 2.5 Consensus size: 198
6227318 TATTTTCTAA
* * *
6227328 ATATCG-GTAACATTGCAAATTTACCTATTACATTATATTTATCGGTTTCGATGTTTTTTGGATC
1 ATATCGAGT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TTTTGGGATC
* * * * *
6227392 GATATA-ATTT--TAAATCTATCGACACTTTATGCATGGACCTAGTTGGGCATTCATTCTGGAAA
64 -A-ATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCAGTTGGGCATTCATTATGGAAA
*
6227454 AAAGTATCGCCACAAACTTAAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGG
127 AAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGG
6227519 TATATTT
192 TATATTT
* * *
6227526 CTATCGAGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGATGTTTGTGGGATCA
1 ATATCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT-TGGGATCA
* * *
6227591 ATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGACAAAA
65 ATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCAGTTGGGCATTCATTATGGA-AAAA
* * * * *
6227656 AGTATCGACACAAATTTAAATAGTGTCGATACTTTATGTT-GACCTATTTTCTTATAAAACTGGT
129 AGTATCGACACAAACTTAAAAAGTGTCGATACATTAT-TTAGACCTATTTTCTCATAAAACCGGT
6227720 ATATTT
193 ATATTT
* * * * *
6227726 ATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGGTGTTATTGGGATCG
1 ATATCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT-TTGGGATCA
6227791 ATACTTTTAATAAATGTATCGACACTTTAT
65 ATACTTTTAATAAATGTATCGACACTTTAT
6227821 ATTCTGGACA
Statistics
Matches: 259, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
196 3 0.01
197 7 0.03
198 51 0.20
199 45 0.17
200 150 0.58
201 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
ATATCGAGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTGGGATCAA
TACTTTTAATAAATGTATCGACACTTTATGCATGCACCCAGTTGGGCATTCATTATGGAAAAAAG
TATCGACACAAACTTAAAAAGTGTCGATACATTATTTAGACCTATTTTCTCATAAAACCGGTATA
TTT
Found at i:6227971 original size:177 final size:178
Alignment explanation
Indices: 6227647--6227992 Score: 466
Period size: 177 Copynumber: 1.9 Consensus size: 178
6227637 GCATTCATTA
* * * * *
6227647 TGGACAAAAAGTATCGACACAAATTTAAATAGTGTCGATACTTTATGTTGACCTATTTTCTTATA
1 TGGACAAAAAGTATCGACACAAATTCAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATA
* * *
6227712 AAACTGGTATATTTATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGG
66 AAACCGGTACATTTATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
6227777 TGTTATTGGGATCGATACTTTTA-ATAAATGTATCGACACTTTATATTC
131 TGTTATTGGGATCGATACTTTTAGA-AAATGTATCGACACTTTATATTC
* * * *
6227825 TGGACAATAAGTATTGACACAAATTCAAAAATTATCGATACATTATGTTGACCTGTTTTCTAAT-
1 TGGACAAAAAGTATCGACACAAATTCAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATA
* * * * *
6227889 TAACCGGTACATTTATACCAGTTACA-TGTTTAATTTACCTATTACATTATAATTATTGGTTTTG
66 AAACCGGTACATTTATACCAATTACATTG-TAAATTTACCTATTACATTATAATTATCGGTTTCG
* *
6227953 ATGTTTTTTGGG-TCGATACTTTTAGAAAATGTTTCGACAC
130 ATG-TTATTGGGATCGATACTTTTAGAAAATGTATCGACAC
6227993 CTATTTAGCT
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
176 2 0.01
177 81 0.55
178 63 0.43
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (178 bp):
TGGACAAAAAGTATCGACACAAATTCAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATA
AAACCGGTACATTTATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTATTGGGATCGATACTTTTAGAAAATGTATCGACACTTTATATTC
Found at i:6231388 original size:199 final size:200
Alignment explanation
Indices: 6231014--6231441 Score: 666
Period size: 199 Copynumber: 2.1 Consensus size: 200
6231004 ACGTAATTTA
* *
6231014 AAAACGTATCGACAT-AATTTTAAAAGTGTCGATACACTATGTTAACCTATTTTCTCATAAAATC
1 AAAATGTATCGACATAAATTTAAAAAGTGTCGATACACTATGTTAACCTATTTTCTCATAAAATC
* *
6231078 GGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
66 GGTATACTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
6231143 TTTGGATCAATACTTTTTATAAATGTATCGACAATTTATGCGTGCACCCCGTTTTGCAATCATTA
131 TTTGGATCAATACTTTTTAAAAATGTATCGACAATTTATGCGTGCACCCCGTTTGGCAATCATTA
6231208 TGGAC
196 TGGAC
* * *
6231213 AAAATGTATCGACATAAATCTAAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACT
1 AAAATGTATCGACATAAATTTAAAAAGTGTCGATACACTATGTTAACCTATTTTCTCATAAAA-T
* *
6231278 C-GTATACTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC-GTTTTGATG-T
65 CGGTATACTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
6231340 TTTTGAGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCAT
130 TTTTG-GATCAATACTTTTTAAAAATGTATCGACAATTTATGCGTGCACCCCGTTTGGCAATCAT
6231405 TATGGAC
194 TATGGAC
* *
6231412 AAAATGTATCGACACAAATTTAAACAGTGT
1 AAAATGTATCGACATAAATTTAAAAAGTGT
6231442 TTCATAAAAC
Statistics
Matches: 209, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
198 6 0.03
199 110 0.53
200 91 0.44
201 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (200 bp):
AAAATGTATCGACATAAATTTAAAAAGTGTCGATACACTATGTTAACCTATTTTCTCATAAAATC
GGTATACTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTTGGATCAATACTTTTTAAAAATGTATCGACAATTTATGCGTGCACCCCGTTTGGCAATCATTA
TGGAC
Found at i:6232015 original size:18 final size:18
Alignment explanation
Indices: 6231992--6232028 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6231982 CAAAATTTAT
6231992 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
6232010 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
6232028 A
1 A
6232029 CTGCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:6233046 original size:3 final size:3
Alignment explanation
Indices: 6233038--6233076 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
6233028 ACTTGTTTGG
* **
6233038 ATC ATC ATC ATC ATA ATC ATC GCC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6233077 TTCTTCATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:6234259 original size:15 final size:15
Alignment explanation
Indices: 6234239--6234291 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
6234229 ATGAGGTTGT
6234239 GGTTGAGAAGACCTG
1 GGTTGAGAAGACCTG
*
6234254 GGTTGAGAAGAGCT-
1 GGTTGAGAAGACCTG
*
6234268 --TTGAGAATACCTG
1 GGTTGAGAAGACCTG
*
6234281 GGTTGATAAGA
1 GGTTGAGAAGA
6234292 GCTTTGAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
12 10 0.33
15 20 0.67
ACGTcount: A:0.30, C:0.09, G:0.36, T:0.25
Consensus pattern (15 bp):
GGTTGAGAAGACCTG
Found at i:6234271 original size:27 final size:27
Alignment explanation
Indices: 6234241--6234306 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
6234231 GAGGTTGTGG
6234241 TTGAGAAGACCTGGGTTGAGAAGAGCT
1 TTGAGAAGACCTGGGTTGAGAAGAGCT
* *
6234268 TTGAGAATACCTGGGTTGATAAGAGCT
1 TTGAGAAGACCTGGGTTGAGAAGAGCT
6234295 TTGAGAAAGACC
1 TTGAG-AAGACC
6234307 GCGCTTCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (27 bp):
TTGAGAAGACCTGGGTTGAGAAGAGCT
Found at i:6234928 original size:187 final size:191
Alignment explanation
Indices: 6234596--6235139 Score: 543
Period size: 187 Copynumber: 2.8 Consensus size: 191
6234586 AATGGAATCA
* * * * * *
6234596 ACACAAATTTAACAATTGTCGATAC-TTTATGCT-GACCTATTTTCTCATAAAA-TCGATATATT
1 ACACAAAATTAACAAGTGTCGATACATTT-T-CTAGACCTATTCTCACACAAAACT-GGTATATT
* * * * * *
6234658 TATACAGGTTACATTAGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATT
63 TATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
* *
6234723 GACACTTTTT-TAAAATGTATCAATACTTAATGGGTGCACC-C-T-TT-TGGACAAAAAGTATCG
128 GACACTTTTTAT-AAATGTATCAACACTTAATGCGTGCACCTCATATTCTGGACAAAAAGTATCG
* * *
6234783 ACA-AAAATTCCATAAGTGTCGATACATTTTCTAGACCTATTCTCGCACAAAACTGGTATATTTA
1 ACACAAAATT-AACAAGTGTCGATACATTTTCTAGACCTATTCTCACACAAAACTGGTATATTTA
* * *
6234847 TACCGGTTACATTGA-AAAAATACCTATTACATTATAATCATGGGTTTTGATGTTTCTGGGATCG
65 TACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCG
* * *
6234911 ATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTTTTGTGCATTCATTCTGGACA
129 ACACTTTTTATAAATGTATCAACACTTAATGCGTGCACC---------T-CA-T-ATTCTGGACA
* *
6234976 AAATGTATTG
182 AAAAGTATCG
* *
6234986 ACACAAAATTAACAAGTGTCGATACATTTTGTAGACCTATTCTCACATAAAACTGGTATATTTAT
1 ACACAAAATTAACAAGTGTCGATACATTTTCTAGACCTATTCTCACACAAAACTGGTATATTTAT
* * * * *
6235051 ACCTGTTACATTACAAAATTTCTTATTACATTATAATTATGGG-TTCGATGTCTCTGAGATCGAC
66 ACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGAC
* *
6235115 ACTTTTTAAAAATGTATCGACACTT
131 ACTTTTTATAAATGTATCAACACTT
6235140 TATACGTTCA
Statistics
Matches: 295, Mismatches: 38, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
186 7 0.02
187 127 0.43
188 6 0.02
198 1 0.00
200 1 0.00
202 44 0.15
203 103 0.35
204 6 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (191 bp):
ACACAAAATTAACAAGTGTCGATACATTTTCTAGACCTATTCTCACACAAAACTGGTATATTTAT
ACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGAC
ACTTTTTATAAATGTATCAACACTTAATGCGTGCACCTCATATTCTGGACAAAAAGTATCG
Found at i:6236019 original size:48 final size:48
Alignment explanation
Indices: 6235948--6236044 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
6235938 ATTATGCGAC
6235948 AATCATTATTAATTTACCGTCTATAACACTAATTTTCAACATTTATTA
1 AATCATTATTAATTTACCGTCTATAACACTAATTTTCAACATTTATTA
6235996 AATCATTATTAATTTACCGTCTATAACACTAATTTTCAACATTTATTA
1 AATCATTATTAATTTACCGTCTATAACACTAATTTTCAACATTTATTA
6236044 A
1 A
6236045 TTTAATTCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.43
Consensus pattern (48 bp):
AATCATTATTAATTTACCGTCTATAACACTAATTTTCAACATTTATTA
Found at i:6236873 original size:21 final size:21
Alignment explanation
Indices: 6236848--6236891 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
6236838 CCCCTTATGC
6236848 CTCTCAAGTGTCTCTTCAACT
1 CTCTCAAGTGTCTCTTCAACT
* *
6236869 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCAACT
6236890 CT
1 CT
6236892 TGATTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.34, G:0.09, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCAACT
Found at i:6237790 original size:40 final size:40
Alignment explanation
Indices: 6237745--6237825 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
6237735 CACATGGGAT
6237745 CCCCAGACGATCCAAACCACATTTCTCCCAGCACATTCAA
1 CCCCAGACGATCCAAACCACATTTCTCCCAGCACATTCAA
6237785 CCCCAGACGATCCAAACCACATTTCTCCCAGCACATTCAA
1 CCCCAGACGATCCAAACCACATTTCTCCCAGCACATTCAA
6237825 C
1 C
6237826 TGACCCTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.43, G:0.07, T:0.17
Consensus pattern (40 bp):
CCCCAGACGATCCAAACCACATTTCTCCCAGCACATTCAA
Found at i:6238638 original size:19 final size:19
Alignment explanation
Indices: 6238565--6238638 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
6238555 CATTTATACA
* *
6238565 ACCTAAAATATCATTTTCT
1 ACCTATAATATTATTTTCT
* *
6238584 ACCTATAATATTATATAC-
1 ACCTATAATATTATTTTCT
** *
6238602 AAGTATCCATATTTATTTTCT
1 ACCTAT-AATA-TTATTTTCT
6238623 ACCTATAATATTATTT
1 ACCTATAATATTATTT
6238639 AATCGATCCC
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
18 4 0.10
19 23 0.57
20 9 0.22
21 4 0.10
ACGTcount: A:0.36, C:0.16, G:0.01, T:0.46
Consensus pattern (19 bp):
ACCTATAATATTATTTTCT
Found at i:6239266 original size:18 final size:17
Alignment explanation
Indices: 6239243--6239276 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6239233 TTGTTCTTAA
6239243 ATGTAGTATAAAGTTTTC
1 ATGTAGT-TAAAGTTTTC
*
6239261 ATGTAGTTAAGGTTTT
1 ATGTAGTTAAAGTTTT
6239277 GGTTTGAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (17 bp):
ATGTAGTTAAAGTTTTC
Found at i:6240049 original size:48 final size:48
Alignment explanation
Indices: 6239997--6240090 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
6239987 TATATTTTTA
* *
6239997 AATAATTTTCATAATTATCATATTTATTTATATAAAGTATAATATATT
1 AATAATTTTCATAAGTATCATATTTATTTATATAAAATATAATATATT
6240045 AATAATTTTCATAAGTATCATATTTATTTATATAAAATATAATATA
1 AATAATTTTCATAAGTATCATATTTATTTATATAAAATATAATATA
6240091 CAAATAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (48 bp):
AATAATTTTCATAAGTATCATATTTATTTATATAAAATATAATATATT
Found at i:6240968 original size:24 final size:24
Alignment explanation
Indices: 6240936--6240985 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6240926 GTTAGACCAC
* *
6240936 TAATTTTTTTTAGTATACAAAATA
1 TAATTTTTTTTAGTACAAAAAATA
6240960 TAATTTTTTTTAGTACAAAAAATA
1 TAATTTTTTTTAGTACAAAAAATA
6240984 TA
1 TA
6240986 TCTATATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
TAATTTTTTTTAGTACAAAAAATA
Found at i:6243753 original size:2 final size:2
Alignment explanation
Indices: 6243748--6243920 Score: 94
Period size: 2 Copynumber: 93.5 Consensus size: 2
6243738 ATATAGGTTT
*
6243748 TA TA TA TA GTA TA TT TA TA TA -A TA TA GTA TA TA TA T- TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
6243789 TA T- TA T- TT TT TA T- TA TA TA T- TA TA TT 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 TA TA TA
* * *
6243826 T- TA TA GTA TA TT TA TA TT TA TA TT TA TA T- TA TA -A TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6243866 TA TA -A TA TG T- TA TA GTG TA TT TA TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
6243905 TA T- TA TA T- TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA T
6243921 TTATTTTATA
Statistics
Matches: 133, Mismatches: 16, Indels: 44
0.69 0.08 0.23
Matches are distributed among these distances:
1 18 0.14
2 108 0.81
3 7 0.05
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (2 bp):
TA
Found at i:6243806 original size:23 final size:23
Alignment explanation
Indices: 6243775--6243935 Score: 91
Period size: 21 Copynumber: 7.4 Consensus size: 23
6243765 TATAATATAG
6243775 TATA-TATATTATAATATTATTT
1 TATATTATATTATAATATTATTT
*
6243797 TTTATTATA-TAT--TA-TATTT
1 TATATTATATTATAATATTATTT
6243816 ATATATTATATTATAGTATATTTATATT
1 -TATATTATATTATA--ATA-TTAT-TT
*
6243844 TATATTTATATTATAATA-TA-TA
1 TATA-TTATATTATAATATTATTT
* * * *
6243866 TATAATATGTTATAGT-GTA-TT
1 TATATTATATTATAATATTATTT
* *
6243887 TATATTATA-TATTATA-TATAT
1 TATATTATATTATAATATTATTT
6243908 TATA-T-TATTAT-AT-TTATTT
1 TATATTATATTATAATATTATTT
6243927 TATATTATA
1 TATATTATA
6243936 GAGATTCAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 37
0.68 0.08 0.23
Matches are distributed among these distances:
19 17 0.16
20 21 0.19
21 29 0.27
22 11 0.10
23 4 0.04
24 2 0.02
25 2 0.02
26 3 0.03
27 7 0.06
28 12 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTATATTATAATATTATTT
Found at i:6243811 original size:25 final size:23
Alignment explanation
Indices: 6243719--6243929 Score: 89
Period size: 23 Copynumber: 9.1 Consensus size: 23
6243709 TTTTCGTTCG
*
6243719 ATTTTTTATTAT-TATATATATAT
1 ATTTTTTATTATATAT-TATATTT
** *
6243742 AGGTTTTA-TATATAGTATATTT
1 ATTTTTTATTATATATTATATTT
* *
6243764 ATATAATATAGTATATATATTATAATATT
1 AT-T-TTTTA-T-TATATATTAT-AT-TT
6243793 ATTTTTTATTATATATTATATTT
1 ATTTTTTATTATATATTATATTT
* * *
6243816 ATATATTA-TATTATAGTATATTT
1 ATTTTTTATTA-TATATTATATTT
* *
6243839 ATATTTATATT-TATATTATA-AT
1 AT-TTTTTATTATATATTATATTT
* * * * *
6243861 A-TATATATAATATGTTATAGTGT
1 ATTTTTTATTATATATTATA-TTT
* *
6243884 A-TTTATATTATATATTATATAT
1 ATTTTTTATTATATATTATATTT
*
6243906 ATTATATTATTATAT-TTAT-TTT
1 ATT-TTTTATTATATATTATATTT
6243928 AT
1 AT
6243930 ATTATAGAGA
Statistics
Matches: 142, Mismatches: 30, Indels: 33
0.69 0.15 0.16
Matches are distributed among these distances:
20 6 0.04
21 8 0.06
22 21 0.15
23 59 0.42
24 17 0.12
25 11 0.08
26 1 0.01
27 12 0.08
28 3 0.02
29 4 0.03
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTTTTTATTATATATTATATTT
Found at i:6243814 original size:5 final size:5
Alignment explanation
Indices: 6243747--6243935 Score: 105
Period size: 5 Copynumber: 38.0 Consensus size: 5
6243737 TATATAGGTT
* * *
6243747 TTATA -TATA GTATA TT-TA -TATA ATATA GTATA -TATA TTATA --ATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
* * *
6243791 TTATT TTTTA TTATATA TTATA TT-TA -TATA TTATA TTATA GTATA TTTATA
1 TTATA TTATA -T-TATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA
* * *
6243842 TTTATA TTTATA TTATA ATATA TATATA ATATG TTATA GTGTAT- TTATA
1 -TTATA -TTATA TTATA TTATA T-TATA TTATA TTATA -T-TATA TTATA
*
6243891 TTATA -TATTA TATATA TTATA -T-TA TTATA TTTATT TTATA TTATA
1 TTATA TTA-TA T-TATA TTATA TTATA TTATA -TTATA TTATA TTATA
6243936 GAGATTCAGA
Statistics
Matches: 147, Mismatches: 16, Indels: 42
0.72 0.08 0.20
Matches are distributed among these distances:
3 7 0.05
4 23 0.16
5 79 0.54
6 30 0.20
7 8 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:6243892 original size:37 final size:39
Alignment explanation
Indices: 6243778--6243935 Score: 121
Period size: 40 Copynumber: 3.9 Consensus size: 39
6243768 AATATAGTAT
*
6243778 ATATATTATAATATTATT-T-TTTATTATATATTATAT-TT
1 ATATA-TATAATATTATTATATGTATT-TATATTATATATT
*
6243816 ATATAT-T-ATATTATAGTATATTTATATTTATATT-TATATT
1 ATATATATAATATTAT--TATA--TGTATTTATATTATATATT
*
6243856 ATAATATATATATAATATGTTATAGTGTATTTATATTATATATT
1 AT-ATATATA-AT-AT-TATTATA-TGTATTTATATTATATATT
* *
6243900 ATATATATTATATTATTATATTTATTTTATATTATA
1 ATATATATAATATTATTATATGTA-TTTATATTATA
6243936 GAGATTCAGA
Statistics
Matches: 98, Mismatches: 7, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
35 7 0.07
36 1 0.01
37 2 0.02
38 6 0.06
39 6 0.06
40 27 0.28
41 11 0.11
42 3 0.03
43 17 0.17
44 14 0.14
45 2 0.02
46 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (39 bp):
ATATATATAATATTATTATATGTATTTATATTATATATT
Found at i:6248670 original size:27 final size:28
Alignment explanation
Indices: 6248631--6248699 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
6248621 AACTGAAAGG
*
6248631 AAAAATAAGCAAAGCAACCGAAAG-AAA
1 AAAAATAAACAAAGCAACCGAAAGTAAA
* *
6248658 AAAAATAAACAAAACAATCGAAAGTAAA
1 AAAAATAAACAAAGCAACCGAAAGTAAA
**
6248686 ATGAATAAACAAAG
1 AAAAATAAACAAAG
6248700 ATTGGGGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.09
Consensus pattern (28 bp):
AAAAATAAACAAAGCAACCGAAAGTAAA
Found at i:6249744 original size:49 final size:48
Alignment explanation
Indices: 6249687--6249837 Score: 155
Period size: 49 Copynumber: 3.0 Consensus size: 48
6249677 AAAATCAAGA
*
6249687 TAAAAGAAAGAATAAAAAAATAAAAAAAGAATGAAGAAAAT-TTAAATTT
1 TAAAAGAAA-AAAAAAAAAATAAAAAAA-AATGAAGAAAATGTTAAATTT
* * *
6249736 TAAAAGAAATAAATAAAAAATAAATAAAAAGTGAAGAAAATGTTAATTTT
1 TAAAAGAAA-AAAAAAAAAATAAA-AAAAAATGAAGAAAATGTTAAATTT
*
6249786 TAAAAAGAAAAAAGAAACAAAACAAAATAAAAAT-AA-ATAAATGTTAAATTT
1 T-AAAAGAAAAAA-AAA-AAAATAAAA-AAAAATGAAGA-AAATGTTAAATTT
6249837 T
1 T
6249838 GGAAGTAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
49 32 0.37
50 16 0.19
51 26 0.30
52 12 0.14
ACGTcount: A:0.68, C:0.01, G:0.09, T:0.23
Consensus pattern (48 bp):
TAAAAGAAAAAAAAAAAAATAAAAAAAAATGAAGAAAATGTTAAATTT
Found at i:6249867 original size:101 final size:99
Alignment explanation
Indices: 6249724--6249908 Score: 221
Period size: 100 Copynumber: 1.8 Consensus size: 99
6249714 AGAATGAAGA
* *
6249724 AAATTTAAATTTTAAAAGAAATAAATAAAAAATAAATAAAAAGTGAAGAAAATGTTAATTTTTAA
1 AAATTTAAATTTTAAAAGAAATAAATAAAAAACAAATAAAAAG-AAAGAAAAT-TTAATTTTTAA
* *
6249789 AAAGAA-AAAAGAAACAAAACAAAATAAAAATAAAT
64 AAAAAACAAAAGAAAAAAAACAAAATAAAAATAAAT
** * * **
6249824 AAATGTTAAATTTTGGAAGTAATAAA-AAATAACAGAATAAAAAGAAAGATTATTTAATTTTTAA
1 AAAT-TTAAATTTTAAAAGAAATAAATAAAAAACA-AATAAAAAGAAAGAAAATTTAATTTTTAA
*
6249888 AAAAAACAAAATAAAAAAAAC
64 AAAAAACAAAAGAAAAAAAAC
6249909 TGAAAGGATT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
99 16 0.23
100 28 0.39
101 27 0.38
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (99 bp):
AAATTTAAATTTTAAAAGAAATAAATAAAAAACAAATAAAAAGAAAGAAAATTTAATTTTTAAAA
AAAACAAAAGAAAAAAAACAAAATAAAAATAAAT
Found at i:6250339 original size:31 final size:31
Alignment explanation
Indices: 6250304--6250370 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
6250294 TACAATACAA
* *
6250304 TCCCCCAATATTTAG-TCTGTTTTCAATATGG
1 TCCCCCAACATTTAGTTC-GTTTACAATATGG
*
6250335 TCCCCCAACATTTAGTTCGTTTACAGTATGG
1 TCCCCCAACATTTAGTTCGTTTACAATATGG
6250366 TCCCC
1 TCCCC
6250371 GACGAAACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (31 bp):
TCCCCCAACATTTAGTTCGTTTACAATATGG
Found at i:6255478 original size:21 final size:21
Alignment explanation
Indices: 6255440--6255480 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6255430 CCGAAGTACC
* *
6255440 ACATATATGTTCCAAAGGATT
1 ACATATATATCCCAAAGGATT
*
6255461 ACATATATATCCCGAAGGAT
1 ACATATATATCCCAAAGGAT
6255481 CACGTAGAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (21 bp):
ACATATATATCCCAAAGGATT
Found at i:6256260 original size:22 final size:22
Alignment explanation
Indices: 6256210--6256263 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
6256200 CGATGATCCC
*
6256210 TGGTATTGATACCCTCCACATA
1 TGGTATTGATACCATCCACATA
*
6256232 -GGTATTGATACTCATCC-CTTA
1 TGGTATTGATAC-CATCCACATA
6256253 TGGTATTGATA
1 TGGTATTGATA
6256264 TTGTTCATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
TGGTATTGATACCATCCACATA
Found at i:6257804 original size:17 final size:17
Alignment explanation
Indices: 6257782--6257825 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
6257772 TTCATATATC
6257782 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
6257799 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
6257816 -AAATATCCAA
1 CAAA-ATCCAA
6257826 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:6259844 original size:20 final size:20
Alignment explanation
Indices: 6259796--6259858 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 20
6259786 TTCCCCTGTG
6259796 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGGAATC-GTT-CCC-TC-AA
6259820 GGGGGGAATCAGTTCCCTC-A
1 GGGGGGAATC-GTTCCCTCAA
*
6259840 GGGGGGGATCGATTCCCTC
1 GGGGGGAATCG-TTCCCTC
6259859 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
20 17 0.47
22 2 0.06
23 3 0.08
24 13 0.36
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.21
Consensus pattern (20 bp):
GGGGGGAATCGTTCCCTCAA
Found at i:6263836 original size:19 final size:21
Alignment explanation
Indices: 6263802--6263841 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6263792 TAAATTCTTC
*
6263802 TTCAAAATTTCATTTT-GTTT
1 TTCAAAATTCCATTTTAGTTT
6263822 TTCAAAA-TCCATTTTAGTTT
1 TTCAAAATTCCATTTTAGTTT
6263842 CTAGAAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (21 bp):
TTCAAAATTCCATTTTAGTTT
Found at i:6264981 original size:22 final size:22
Alignment explanation
Indices: 6264953--6264997 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6264943 ATTACAAATG
6264953 AGCACAATAAGTGTTCTTTGAA
1 AGCACAATAAGTGTTCTTTGAA
6264975 AGCACAATAAGTGTTCTTTGAA
1 AGCACAATAAGTGTTCTTTGAA
6264997 A
1 A
6264998 TCAAAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (22 bp):
AGCACAATAAGTGTTCTTTGAA
Found at i:6265746 original size:2 final size:2
Alignment explanation
Indices: 6265741--6265789 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6265731 TTTTTATTAT
6265741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6265783 TA TA TA T
1 TA TA TA T
6265790 GTAATATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6266062 original size:15 final size:15
Alignment explanation
Indices: 6266042--6266071 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6266032 TGGAAGTTCA
*
6266042 GGGTACCCAGAAATC
1 GGGTACCCAAAAATC
6266057 GGGTACCCAAAAATC
1 GGGTACCCAAAAATC
6266072 TGAGTACTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (15 bp):
GGGTACCCAAAAATC
Found at i:6269026 original size:60 final size:60
Alignment explanation
Indices: 6268901--6269050 Score: 146
Period size: 60 Copynumber: 2.5 Consensus size: 60
6268891 TTTGGGGACC
* * *
6268901 AATTTAGAA-AGAGAG-ACATAATTTAGGGATGAAATTATAATGTTAAAAATTTTAATAATT
1 AATTTAGAATA-AGAGTA-ATAGTTTAGGGATGAAATTATAATGTTAAAAATTTTAAAAACT
*
6268961 AATTTAGAATAAGAGTAATAGTTTAGGGATGAAATTGA-AATATTTAAAAA-TTTAAAAACT
1 AATTTAGAATAAGAGTAATAGTTTAGGGATGAAATT-ATAAT-GTTAAAAATTTTAAAAACT
* * * * * *
6269021 GATTTATAGTGAGAGTTATAGTTTAAGGAT
1 AATTTAGAATAAGAGTAATAGTTTAGGGAT
6269051 ATATGATGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
60 66 0.87
61 10 0.13
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.35
Consensus pattern (60 bp):
AATTTAGAATAAGAGTAATAGTTTAGGGATGAAATTATAATGTTAAAAATTTTAAAAACT
Found at i:6270332 original size:17 final size:16
Alignment explanation
Indices: 6270310--6270343 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6270300 TATAATCAAA
*
6270310 TTTATTCGTATCTATTT
1 TTTATTCGAATCT-TTT
6270327 TTTATTCGAATCTTTT
1 TTTATTCGAATCTTTT
6270343 T
1 T
6270344 GTTGAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTATTCGAATCTTTT
Found at i:6270678 original size:21 final size:21
Alignment explanation
Indices: 6270649--6270763 Score: 117
Period size: 21 Copynumber: 5.6 Consensus size: 21
6270639 GACTTGCATT
6270649 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
6270670 TCACGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
6270690 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
6270711 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
6270731 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
6270752 TCGCGTTGCGAT
1 TCGCGTTGCGAT
6270764 TTTCCATTTC
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 29 0.41
21 41 0.59
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:6270692 original size:41 final size:41
Alignment explanation
Indices: 6270645--6270786 Score: 275
Period size: 41 Copynumber: 3.5 Consensus size: 41
6270635 ATTCGACTTG
*
6270645 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
6270686 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
6270727 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
6270768 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
6270787 CTACAGTTGT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:6270698 original size:20 final size:20
Alignment explanation
Indices: 6270673--6270783 Score: 114
Period size: 20 Copynumber: 5.5 Consensus size: 20
6270663 TTGAAAATCA
6270673 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
6270693 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
6270714 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
6270734 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
6270755 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
6270775 CGTTGCGAT
1 CGTTGCGAT
6270784 AGTCTACAGT
Statistics
Matches: 69, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 39 0.57
21 30 0.43
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:6270803 original size:22 final size:22
Alignment explanation
Indices: 6270775--6270824 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
6270765 TTCCATTTCG
6270775 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
6270797 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
6270819 CGTTGC
1 CGTTGC
6270825 AATTTTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:6271522 original size:20 final size:20
Alignment explanation
Indices: 6271497--6271709 Score: 177
Period size: 20 Copynumber: 10.8 Consensus size: 20
6271487 CGCGGATACT
6271497 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
6271517 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
6271537 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
6271558 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
6271578 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
6271599 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
6271619 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
* *
6271640 ATCACAACGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
*
6271660 ATCGCAACGCG--AT----T
1 ATCGCAACGCGAAATGGAAA
*
6271674 ATCGCAACGTGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
6271694 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
6271710 CAACGCGAAT
Statistics
Matches: 145, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
14 10 0.07
16 2 0.01
18 1 0.01
20 89 0.61
21 43 0.30
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:6271563 original size:21 final size:21
Alignment explanation
Indices: 6271537--6271651 Score: 108
Period size: 21 Copynumber: 5.6 Consensus size: 21
6271527 GAAATGGAAA
6271537 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
6271558 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
6271578 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
6271599 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
6271619 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
6271640 ATCACAACGCGA
1 ATCGCAACGCGA
6271652 ACTGGAAAAT
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 29 0.42
21 40 0.58
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:6271569 original size:41 final size:41
Alignment explanation
Indices: 6271517--6271705 Score: 293
Period size: 41 Copynumber: 4.8 Consensus size: 41
6271507 GAAATGGAAA
6271517 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
6271558 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
6271599 ATCGCAACGCGAAATGGAAAATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* *
6271640 ATCACAACGCGAACTGGAAAATCGCAACGCGA---T----T
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
6271674 ATCGCAACGTGAAATGGAAAATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGA
6271706 AATGCAACGC
Statistics
Matches: 141, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
34 30 0.21
38 1 0.01
41 110 0.78
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:6271628 original size:61 final size:61
Alignment explanation
Indices: 6271497--6271712 Score: 169
Period size: 61 Copynumber: 3.6 Consensus size: 61
6271487 CGCGGATACT
* ** * *
6271497 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
** * * *
6271558 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAA-AATCGCAACGCGAAATGCAACA
* ** ** * * * * *
6271619 ATCGTAACGCGATTTTCAACTATCACAACGCGAACTGGAAAATCGCAACGCG--AT-----T
1 ATCGCAACGCGAAATGGAA-AATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
*
6271674 ATCGCAACGTGAAATGGAAAATCGCAACGCGAAATGCAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAA
6271713 CGCGAATTTG
Statistics
Matches: 120, Mismatches: 33, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
54 16 0.13
55 13 0.11
59 2 0.02
61 60 0.50
62 29 0.24
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAAAATCGCAACGCGAAATGCAACA
Found at i:6271692 original size:34 final size:34
Alignment explanation
Indices: 6271639--6271705 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
6271629 GATTTTCAAC
*
6271639 TATCACAACGCGAACTGGAAAATCGCAACGCGAT
1 TATCACAACGCGAAATGGAAAATCGCAACGCGAT
* *
6271673 TATCGCAACGTGAAATGGAAAATCGCAACGCGA
1 TATCACAACGCGAAATGGAAAATCGCAACGCGA
6271706 AATGCAACGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (34 bp):
TATCACAACGCGAAATGGAAAATCGCAACGCGAT
Found at i:6271756 original size:19 final size:19
Alignment explanation
Indices: 6271732--6271774 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
6271722 GCGATAGTGG
6271732 AGATCGCAATACGAATTAT
1 AGATCGCAATACGAATTAT
*
6271751 AGATCGCAATGCGAATTAT
1 AGATCGCAATACGAATTAT
6271770 AGATC
1 AGATC
6271775 ACATTGCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (19 bp):
AGATCGCAATACGAATTAT
Found at i:6271782 original size:19 final size:19
Alignment explanation
Indices: 6271732--6271783 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
6271722 GCGATAGTGG
* *
6271732 AGATCGCAATACGAATTAT
1 AGATCACAATGCGAATTAT
*
6271751 AGATCGCAATGCGAATTAT
1 AGATCACAATGCGAATTAT
*
6271770 AGATCACATTGCGA
1 AGATCACAATGCGA
6271784 TTTTGTTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (19 bp):
AGATCACAATGCGAATTAT
Found at i:6278586 original size:12 final size:13
Alignment explanation
Indices: 6278556--6278594 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
6278546 CAATTGTGCA
6278556 AAAAATATATTAT
1 AAAAATATATTAT
*
6278569 AAAAAATGTATTAT
1 -AAAAATATATTAT
6278583 AAAAATAT-TTAT
1 AAAAATATATTAT
6278595 TAAATGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 4 0.17
13 7 0.30
14 12 0.52
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
AAAAATATATTAT
Found at i:6278596 original size:15 final size:14
Alignment explanation
Indices: 6278555--6278587 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6278545 ACAATTGTGC
*
6278555 AAAAAATATATTAT
1 AAAAAATGTATTAT
6278569 AAAAAATGTATTAT
1 AAAAAATGTATTAT
6278583 AAAAA
1 AAAAA
6278588 TATTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAAAAATGTATTAT
Found at i:6287120 original size:19 final size:16
Alignment explanation
Indices: 6287097--6287139 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
6287087 TATAATGTAA
6287097 AATTATTTTTATTATATT
1 AATTATTTTTA-TAT-TT
*
6287115 ATATTAATTTTATATTT
1 A-ATTATTTTTATATTT
6287132 AATTATTT
1 AATTATTT
6287140 AAGCAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 4 0.18
19 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTATTTTTATATTT
Found at i:6287500 original size:18 final size:18
Alignment explanation
Indices: 6287479--6287517 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6287469 CAGATATTTG
*
6287479 AATTAAAAAAACCGTTAA
1 AATTAAAAAAACCATTAA
* *
6287497 AATTTAAAAACCCATTAA
1 AATTAAAAAAACCATTAA
6287515 AAT
1 AAT
6287518 AATTAGCTCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.26
Consensus pattern (18 bp):
AATTAAAAAAACCATTAA
Found at i:6288133 original size:29 final size:29
Alignment explanation
Indices: 6288095--6288189 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
6288085 TATTTTATTG
* * *
6288095 AGTCCATCAACTATTAAAAATTATAAAAT
1 AGTCCCTCAATTATTAAAAGTTATAAAAT
* *
6288124 AGTCTCTCAATTATTAAAAGTTACAAAAT
1 AGTCCCTCAATTATTAAAAGTTATAAAAT
*
6288153 AGTCCCTCGATTATTAAAAGTTATAAAAT
1 AGTCCCTCAATTATTAAAAGTTATAAAAT
6288182 CA-TCCCTC
1 -AGTCCCTC
6288190 GACTATAGGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 56 0.98
30 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (29 bp):
AGTCCCTCAATTATTAAAAGTTATAAAAT
Found at i:6292360 original size:8 final size:8
Alignment explanation
Indices: 6292347--6292374 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6292337 TTTTTAGGAA
6292347 AAAAAAAG
1 AAAAAAAG
6292355 AAAAAAAG
1 AAAAAAAG
6292363 AAAAAAAG
1 AAAAAAAG
6292371 AAAA
1 AAAA
6292375 GGAAATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:6294340 original size:42 final size:42
Alignment explanation
Indices: 6294276--6294548 Score: 177
Period size: 42 Copynumber: 6.6 Consensus size: 42
6294266 TAAAGTGACA
* *
6294276 TTTTTGTAATAAACA-CGACAATAGTCATGCACCTTAGCGGCG
1 TTTTTGTAATAAACACCG-CAATAATCATGCACCTTAGTGGCG
* ** * *
6294318 TTTTTGTAATAAACACCGCAATAATCATGTATTTTAGTGACA
1 TTTTTGTAATAAACACCGCAATAATCATGCACCTTAGTGGCG
* * * * * **
6294360 TTTTTGAAATAAACGCCGCAACAGTCATGCACCTTAAT-GAT
1 TTTTTGTAATAAACACCGCAATAATCATGCACCTTAGTGGCG
* * * *
6294401 TTTTTGT-A-AAACATGCTGCAATAGTCATGCACTTTAGTGGTG
1 TTTTTGTAATAAACA--CCGCAATAATCATGCACCTTAGTGGCG
** ** * *
6294443 -TTTTACAATAAATGCCGCAACAATCATGCACCTTAGCGGCG
1 TTTTTGTAATAAACACCGCAATAATCATGCACCTTAGTGGCG
* * * *
6294484 TTTTTG--ATAAACATCGTAATAATCATACA-CTTCAATGGTC-
1 TTTTTGTAATAAACACCGCAATAATCATGCACCTT-AGTGG-CG
*
6294524 TTTTTGTAATAAACTCCGCAATAAT
1 TTTTTGTAATAAACACCGCAATAAT
6294549 TATACACTTT
Statistics
Matches: 172, Mismatches: 48, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
39 7 0.04
40 27 0.16
41 51 0.30
42 82 0.48
43 5 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (42 bp):
TTTTTGTAATAAACACCGCAATAATCATGCACCTTAGTGGCG
Found at i:6294470 original size:41 final size:41
Alignment explanation
Indices: 6294367--6294487 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 41
6294357 ACATTTTTGA
* * * * **
6294367 AATAAACGCCGCAACAGTCATGCACCTTAATGATTTTTTGT
1 AATAAATGCCGCAACAGTCATGCACCTTAGTGGTGTTTTAC
* * *
6294408 AA-AACATGCTGCAATAGTCATGCACTTTAGTGGTGTTTTAC
1 AATAA-ATGCCGCAACAGTCATGCACCTTAGTGGTGTTTTAC
* * *
6294449 AATAAATGCCGCAACAATCATGCACCTTAGCGGCGTTTT
1 AATAAATGCCGCAACAGTCATGCACCTTAGTGGTGTTTT
6294488 TGATAAACAT
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
40 2 0.03
41 59 0.94
42 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
AATAAATGCCGCAACAGTCATGCACCTTAGTGGTGTTTTAC
Found at i:6294496 original size:83 final size:82
Alignment explanation
Indices: 6294269--6294515 Score: 211
Period size: 83 Copynumber: 3.0 Consensus size: 82
6294259 ACTCTTATAA
* * * *
6294269 AGTGACATTTTTGTAATAAAC-ACGACAATAGTCATGCACCTTAGCGGCGTTTTTGTAATAAACA
1 AGTGA-ATTTTTGAAATAAACGCCG-CAACAATCATGCACCTTAGCGGCGTTTTTG--ATAAACA
* *
6294333 -CCGCAATAATCATGTATTTT
62 TCCGCAATAATCATGCACTTT
* ** **
6294353 AGTGACATTTTTGAAATAAACGCCGCAACAGTCATGCACCTTA-ATGATTTTTTG-TAAAACATG
1 AGTGA-ATTTTTGAAATAAACGCCGCAACAATCATGCACCTTAGCGGCGTTTTTGAT-AAACAT-
* *
6294416 CTGCAATAGTCATGCACTTT
63 CCGCAATAATCATGCACTTT
* *
6294436 AGTG-GTGTTTT-ACAATAAATGCCGCAACAATCATGCACCTTAGCGGCGTTTTTGATAAACAT-
1 AGTGAAT-TTTTGA-AATAAACGCCGCAACAATCATGCACCTTAGCGGCGTTTTTGATAAACATC
* *
6294498 CGTAATAATCATACACTT
64 CGCAATAATCATGCACTT
6294516 CAATGGTCTT
Statistics
Matches: 133, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
80 1 0.01
81 21 0.16
82 31 0.23
83 40 0.30
84 38 0.29
85 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (82 bp):
AGTGAATTTTTGAAATAAACGCCGCAACAATCATGCACCTTAGCGGCGTTTTTGATAAACATCCG
CAATAATCATGCACTTT
Found at i:6294535 original size:82 final size:82
Alignment explanation
Indices: 6294300--6294544 Score: 223
Period size: 82 Copynumber: 3.0 Consensus size: 82
6294290 ACGACAATAG
* * * *
6294300 TCATGCACCTTAGCGGCGTTTTTGTAATAAACACCGCAATAATCATGTATTTTAGT-GACATTTT
1 TCATGCACCTTAGCGGCGTTTTTG--ATAAACATCGCAATAATCATGCACTTTAGTGGTC-TTTT
* *
6294364 TGAAATAAACGCCGCAACAG
63 TGAAATAAATGCCGCAACAA
** ** * *
6294384 TCATGCACCTTA-ATGATTTTTTG-TAAAACATGCTGCAATAGTCATGCACTTTAGTGGT-GTTT
1 TCATGCACCTTAGCGGCGTTTTTGAT-AAACAT-C-GCAATAATCATGCACTTTAGTGGTCTTTT
6294446 T-ACAATAAATGCCGCAACAA
63 TGA-AATAAATGCCGCAACAA
* * * * *
6294466 TCATGCACCTTAGCGGCGTTTTTGATAAACATCGTAATAATCATACACTTCAATGGTCTTTTTGT
1 TCATGCACCTTAGCGGCGTTTTTGATAAACATCGCAATAATCATGCACTTTAGTGGTCTTTTTGA
6294531 AATAAACT-CCGCAA
66 AATAAA-TGCCGCAA
6294545 TAATTATACA
Statistics
Matches: 128, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
80 1 0.01
81 25 0.20
82 49 0.38
83 39 0.30
84 14 0.11
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (82 bp):
TCATGCACCTTAGCGGCGTTTTTGATAAACATCGCAATAATCATGCACTTTAGTGGTCTTTTTGA
AATAAATGCCGCAACAA
Found at i:6297099 original size:21 final size:21
Alignment explanation
Indices: 6297069--6297114 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6297059 AGCGACACTT
* *
6297069 AAAAAGACCGCTATGTAACTA
1 AAAAACACCGCTATATAACTA
*
6297090 AAAAACACCGCTATATGACTA
1 AAAAACACCGCTATATAACTA
6297111 AAAA
1 AAAA
6297115 TGTCGCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.17
Consensus pattern (21 bp):
AAAAACACCGCTATATAACTA
Found at i:6300434 original size:22 final size:22
Alignment explanation
Indices: 6300406--6300453 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
6300396 TGTTTTACTA
6300406 CTTTCGAATAGAAAAATAATAG
1 CTTTCGAATAGAAAAATAATAG
* *
6300428 CTTTCGAATAGGAAAGTAATAG
1 CTTTCGAATAGAAAAATAATAG
6300450 CTTT
1 CTTT
6300454 TGAAAACGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (22 bp):
CTTTCGAATAGAAAAATAATAG
Found at i:6302028 original size:18 final size:17
Alignment explanation
Indices: 6301982--6302029 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
6301972 ATCCTAATTA
* *
6301982 AAAAATAAAATAAAAAT
1 AAAATTAAAATAAAAAG
6301999 AAAATTACAAATAATAAAG
1 AAAATTA-AAATAA-AAAG
*
6302018 GAAATTAAAATA
1 AAAATTAAAATA
6302030 TTCAAGGATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (17 bp):
AAAATTAAAATAAAAAG
Found at i:6303645 original size:44 final size:44
Alignment explanation
Indices: 6303576--6303909 Score: 163
Period size: 44 Copynumber: 7.6 Consensus size: 44
6303566 TGAAAATGTC
* * * *
6303576 GATCCACCTCCTTCTGAGATGGAATCGAACGAGATGTTGGTGCT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT
* * *
6303620 GATCTACCTCCTTTTGTGATAGAATCG-A-GTAAAAGATTGATGCT
1 GATCTACCTCCTTCTGTGATGGAATCGAACG-AAATG-TTGATGCT
* * * * * **** **
6303664 GAT-TCAACTCCTTATGCGATGGATTTGAACGAAATAAAAATATT
1 GATCT-ACCTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT
* * * ** *
6303708 GATCCATCTCCTTCTGTGATGGAATCGAATGAGGTGTTGGTGCT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT
* * *
6303752 GATCTACCTCCTTCTGTGATAGAATCGAGC-AAAAGATTGATGCT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAAATG-TTGATGCT
* * * * * * **** **
6303796 GATCCAACTCCTTATGTGATGGATTTGAATGAAATAAAAATATT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT
* * ** * * *
6303840 GATCCACTTCCTTCTGTGATGGAATCGAACGAGGTGTCGGTGTT
1 GATCTACCTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT
* * *
6303884 GATCAACCTTCTTCTGTGATAGAATC
1 GATCTACCTCCTTCTGTGATGGAATC
6303910 AAGCAAAAGT
Statistics
Matches: 204, Mismatches: 78, Indels: 16
0.68 0.26 0.05
Matches are distributed among these distances:
42 1 0.00
43 7 0.03
44 188 0.92
45 7 0.03
46 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
GATCTACCTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT
Found at i:6303805 original size:132 final size:131
Alignment explanation
Indices: 6303576--6303922 Score: 543
Period size: 132 Copynumber: 2.6 Consensus size: 131
6303566 TGAAAATGTC
* * *
6303576 GATCCACCTCCTTCTGAGATGGAATCGAACGAGATGTTGGTGCTGATCTACCTCCTTTTGTGATA
1 GATCCA-CTCCTTCTGTGATGGAATCGAACGAGGTGTTGGTGCTGATCTACCTCCTTCTGTGATA
* *
6303641 GAATCGAGTAAAAGATTGATGCTGATTCAACTCCTTATGCGATGGATTTGAACGAAATAAAAATA
65 GAATCGAGCAAAAGATTGATGCTGATCCAACTCCTTATGCGATGGATTTGAACGAAATAAAAATA
6303706 TT
130 TT
*
6303708 GATCCATCTCCTTCTGTGATGGAATCGAATGAGGTGTTGGTGCTGATCTACCTCCTTCTGTGATA
1 GATCCA-CTCCTTCTGTGATGGAATCGAACGAGGTGTTGGTGCTGATCTACCTCCTTCTGTGATA
* *
6303773 GAATCGAGCAAAAGATTGATGCTGATCCAACTCCTTATGTGATGGATTTGAATGAAATAAAAATA
65 GAATCGAGCAAAAGATTGATGCTGATCCAACTCCTTATGCGATGGATTTGAACGAAATAAAAATA
6303838 TT
130 TT
* * * *
6303840 GATCCACTTCCTTCTGTGATGGAATCGAACGAGGTGTCGGTGTTGATCAACCTTCTTCTGTGATA
1 GATCCAC-TCCTTCTGTGATGGAATCGAACGAGGTGTTGGTGCTGATCTACCTCCTTCTGTGATA
*
6303905 GAATCAAGCAAAAG-TTGA
65 GAATCGAGCAAAAGATTGA
6303923 ACAATCTCTT
Statistics
Matches: 199, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
131 5 0.03
132 194 0.97
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (131 bp):
GATCCACTCCTTCTGTGATGGAATCGAACGAGGTGTTGGTGCTGATCTACCTCCTTCTGTGATAG
AATCGAGCAAAAGATTGATGCTGATCCAACTCCTTATGCGATGGATTTGAACGAAATAAAAATAT
T
Found at i:6304137 original size:118 final size:115
Alignment explanation
Indices: 6303932--6304196 Score: 388
Period size: 118 Copynumber: 2.3 Consensus size: 115
6303922 AACAATCTCT
* * * *
6303932 TCATTATGAATTCTCTACTGGAAATGTTGATTCACCTCCTTCTGTGATGGATGAACCAAGATTGA
1 TCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGATGAACCAAGATTGA
* * *
6303997 ACAAGTTCTTCTCATTATGAACTTCTTCTCTCTAATC-GAATGAGTTCTTC
66 ACAAGTTCTTCTCATTATGAACTTATTCTCCCTAATCAG-ATGAATTCTTC
*
6304047 TCATTATGAACCCTCCACTGGAAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACCAAGAT
1 TCATTATGAACTCTCCACTGG-AAATGTTGATCCACCTCCTTATGTGATGG-AT-GAACCAAGAT
* *
6304112 TGAACAAGTTCTTTTCATTATGAACTTATTCTCCCTCATCAGATGAATTCTTC
63 TGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTAATCAGATGAATTCTTC
*
6304165 TCATTATGAACTCTCCATTGGAAATGTTGATC
1 TCATTATGAACTCTCCACTGGAAATGTTGATC
6304197 GGTTTATCTT
Statistics
Matches: 134, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
115 18 0.13
116 27 0.20
117 13 0.10
118 75 0.56
119 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (115 bp):
TCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGATGAACCAAGATTGA
ACAAGTTCTTCTCATTATGAACTTATTCTCCCTAATCAGATGAATTCTTC
Found at i:6304689 original size:39 final size:39
Alignment explanation
Indices: 6304629--6304941 Score: 382
Period size: 39 Copynumber: 8.0 Consensus size: 39
6304619 TCAAAGATTT
* * * *
6304629 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA-CTTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATC-TTC
* *
6304668 TGTTTCGAGGGAAACTATCTCAAGCA-AGATAAAATTTTT
1 TGTTTCGAGGGAAACTATCTCAAG-AGAGATAAAATCTTC
* *
6304707 TGTTTTGAGGGAAACTATCTCAAGAGAGACAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
* * * * *
6304746 TTTTTCGAGGAAAACTATCTCGAA-CGAGACAAAATCTTA
1 TGTTTCGAGGGAAACTATCTC-AAGAGAGATAAAATCTTC
*
6304785 TGTTTCGAGGGAAACTATCTCAAGCA-AGATAAAATCTCC
1 TGTTTCGAGGGAAACTATCTCAAG-AGAGATAAAATCTTC
* * *
6304824 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATATTT
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
* *
6304863 TGTTTCGAGGGAAACTATCTGAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
*
6304902 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
6304941 T
1 T
6304942 TTAAAAACAA
Statistics
Matches: 238, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
38 3 0.01
39 232 0.97
40 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (39 bp):
TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
Found at i:6304718 original size:78 final size:78
Alignment explanation
Indices: 6304625--6304936 Score: 432
Period size: 78 Copynumber: 4.0 Consensus size: 78
6304615 ATATTCAAAG
* * *
6304625 ATTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA-CTTTCTGTTTCGAGGGAAACTATCTC
1 ATTTTGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATC-TTCTGTTTCGAGGGAAACTATCTC
*
6304689 AAGCAAGATAAAAT
65 AAGCGAGATAAAAT
* * * *
6304703 TTTTTGTTTTGAGGGAAACTATCTCAAGAGAGACAAAATCTTCTTTTTCGAGGAAAACTATCTCG
1 ATTTTGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTC-
*
6304768 AA-CGAGACAAAAT
65 AAGCGAGATAAAAT
* * * *
6304781 CTTATGTTTCGAGGGAAACTATCTCAAGCA-AGATAAAATCTCCTGTTTCGAGGGAAACTATCTC
1 ATTTTGTTTCGAGGGAAACTATCTCAAG-AGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTC
6304845 AAGCGAGATAAAAT
65 AAGCGAGATAAAAT
* * *
6304859 ATTTTGTTTCGAGGGAAACTATCTGAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCA
1 ATTTTGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCA
6304924 AGCGAGATAAAAT
66 AGCGAGATAAAAT
6304937 CTTCTTTAAA
Statistics
Matches: 207, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
77 2 0.01
78 201 0.97
79 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (78 bp):
ATTTTGTTTCGAGGGAAACTATCTCAAGAGAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCA
AGCGAGATAAAAT
Found at i:6304869 original size:117 final size:117
Alignment explanation
Indices: 6304654--6304938 Score: 423
Period size: 117 Copynumber: 2.4 Consensus size: 117
6304644 TGTCTCAAGA
* ** *
6304654 GAGACAAAA-CTTTCTGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATTTTTTGTTTTGAGGG
1 GAGACAAAATC-TTCTGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATCTCCTGTTTCGAGGG
*
6304718 AAACTATCTCAAGAGAGACAAAATCTTCTTTTTCGAGGAAAACTATCTCGAA-C
65 AAACTATCTCAAGAGAGACAAAATATTCTTTTTCGAGGAAAACTATCT-GAAGC
*
6304771 GAGACAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATCTCCTGTTTCGAGGGA
1 GAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATCTCCTGTTTCGAGGGA
* * *
6304836 AACTATCTCAAGCGAGATAAAATATT-TTGTTTCGAGGGAAACTATCTGAAGC
66 AACTATCTCAAGAGAGACAAAATATTCTT-TTTCGAGGAAAACTATCTGAAGC
* *
6304888 GAGATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCT
1 GAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATCT
6304939 TCTTTAAAAA
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
116 5 0.03
117 147 0.96
118 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (117 bp):
GAGACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATCTCCTGTTTCGAGGGA
AACTATCTCAAGAGAGACAAAATATTCTTTTTCGAGGAAAACTATCTGAAGC
Found at i:6305077 original size:40 final size:39
Alignment explanation
Indices: 6304943--6305151 Score: 121
Period size: 40 Copynumber: 5.5 Consensus size: 39
6304933 AAATCTTCTT
* ** * *
6304943 TAAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAG
1 TAAAAACAGTCTCAAGTGAAAT-AAATTTCTTGTTTCGAG
* * * * **
6304983 TAAAAACCGTCTCAAGCGAGACAAA--TCTTGTTTTAAG
1 TAAAAACAGTCTCAAGTGAAATAAATTTCTTGTTTCGAG
* **
6305020 -AAAAACAATCTTGAGTGAAATAAATCTTCTTGTTTCGAG
1 TAAAAACAGTCTCAAGTGAAATAAAT-TTCTTGTTTCGAG
* **
6305059 TAAAAACTGTCTCAAGTGAGAA-AAA--TCTTGTTTTAAG
1 TAAAAACAGTCTCAAGTGA-AATAAATTTCTTGTTTCGAG
* ** * *
6305096 -AAAAACAATCTTGAGTCAAATGAAATTT-TTATTTCGAG
1 TAAAAACAGTCTCAAGTGAAAT-AAATTTCTTGTTTCGAG
6305134 T-AAAACAGTCTCAAGTGA
1 TAAAAACAGTCTCAAGTGA
6305152 GACAAAGTCT
Statistics
Matches: 122, Mismatches: 37, Indels: 22
0.67 0.20 0.12
Matches are distributed among these distances:
35 2 0.02
36 30 0.25
37 22 0.18
38 20 0.16
39 14 0.11
40 32 0.26
41 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (39 bp):
TAAAAACAGTCTCAAGTGAAATAAATTTCTTGTTTCGAG
Found at i:6305165 original size:150 final size:148
Alignment explanation
Indices: 6304894--6305199 Score: 399
Period size: 150 Copynumber: 2.1 Consensus size: 148
6304884 AAGCGAGATA
**
6304894 AAATCTTC-TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTTTAAAAACAATCTTGA
1 AAATCTTCTTGTTTCGAGAAAAACTATCTCAAGCGAGATAAAATCTTCTTTAAAAACAATCTTGA
* * *
6304958 GTGAAATGAAATGTCTTCTTTCGAGTAAAAACCGTCTCAAGCGAGACAAATCTTGTTTTAAGAAA
66 GTCAAATGAAATGTCTTATTTCGAGTAAAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAA
6305023 AACAATCT-TGAGTGAAAT
131 AACAATCTCT-AGTGAAAT
* * *
6305041 AAATCTTCTTGTTTCGAGTAAAAACTGTCTCAAGTGAGA-AAAATCTTGTTTTAAGAAAAACAAT
1 AAATCTTCTTGTTTCGAG-AAAAACTATCTCAAGCGAGATAAAATCTT-CTTT---AAAAACAAT
* *
6305105 CTTGAGTCAAATGAAAT-TTTTATTTCGAGT-AAAACAGTCTCAAGTGAGACAAAGTC-TGTTTT
61 CTTGAGTCAAATGAAATGTCTTATTTCGAGTAAAAACAGTCTCAAGCGAGACAAA-TCTTGTTTT
* *
6305167 AAGAAAAATAATCTCTAGTGAGAT
125 AAGAAAAACAATCTCTAGTGAAAT
6305191 AAATCTTCT
1 AAATCTTCT
6305200 GTATTAAATG
Statistics
Matches: 139, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
147 8 0.06
148 17 0.12
149 19 0.14
150 56 0.40
151 14 0.10
152 25 0.18
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (148 bp):
AAATCTTCTTGTTTCGAGAAAAACTATCTCAAGCGAGATAAAATCTTCTTTAAAAACAATCTTGA
GTCAAATGAAATGTCTTATTTCGAGTAAAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAA
AACAATCTCTAGTGAAAT
Found at i:6305173 original size:74 final size:76
Alignment explanation
Indices: 6304944--6305197 Score: 340
Period size: 76 Copynumber: 3.4 Consensus size: 76
6304934 AATCTTCTTT
* * * * *
6304944 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAACCGTCTCAAGCGAGACAAAT
1 AAAAACAATCTTGAGTGAAATGAAATCTTTTATTTCGAGTAAAAACAGTCTCAAGTGAGACAAAT
6305009 CTTGTTTTAAG
66 CTTGTTTTAAG
* * *
6305020 AAAAACAATCTTGAGTGAAAT-AAATCTTCTTGTTTCGAGTAAAAACTGTCTCAAGTGAGAAAAA
1 AAAAACAATCTTGAGTGAAATGAAATCTT-TTATTTCGAGTAAAAACAGTCTCAAGTGAGACAAA
6305084 TCTTGTTTTAAG
65 TCTTGTTTTAAG
*
6305096 AAAAACAATCTTGAGTCAAATGAAAT-TTTTATTTCGAGT-AAAACAGTCTCAAGTGAGACAAAG
1 AAAAACAATCTTGAGTGAAATGAAATCTTTTATTTCGAGTAAAAACAGTCTCAAGTGAGACAAA-
6305159 TC-TGTTTTAAG
65 TCTTGTTTTAAG
* *
6305170 AAAAATAATCTCT-AGTGAGAT-AAATCTT
1 AAAAACAATCT-TGAGTGAAATGAAATCTT
6305198 CTGTATTAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
73 4 0.03
74 48 0.30
75 18 0.11
76 86 0.54
77 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (76 bp):
AAAAACAATCTTGAGTGAAATGAAATCTTTTATTTCGAGTAAAAACAGTCTCAAGTGAGACAAAT
CTTGTTTTAAG
Found at i:6305219 original size:74 final size:75
Alignment explanation
Indices: 6304894--6305231 Score: 319
Period size: 76 Copynumber: 4.6 Consensus size: 75
6304884 AAGCGAGATA
** * * *
6304894 AAATCTTCTGT-TTCGAGGGAAACTATCTCAAGCGAGATAAAATCTT-CTTT---AAAAACAATC
1 AAATCTTCTGTATTCGAGTAAAACTGTCTCAAGCGAGA-CAAATCTTGTTTTAAGAAAAACAATC
6304954 TTGAGTGAAAT
65 TTGAGTGAAAT
*
6304965 GAAATGTCTTC--T-TTCGAGTAAAAACCGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACA
1 -AAA--TCTTCTGTATTCGAGT-AAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACA
6305027 ATCTTGAGTGAAAT
62 ATCTTGAGTGAAAT
* *
6305041 AAATCTTCTTGT-TTCGAGTAAAAACTGTCTCAAGTGAGAAAAATCTTGTTTTAAGAAAAACAAT
1 AAATCTTC-TGTATTCGAGT-AAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAAT
*
6305105 CTTGAGTCAAAT
64 CTTGAGTGAAAT
* * *
6305117 GAAAT-TT-T-TATTTCGAGTAAAACAGTCTCAAGTGAGACAAAGTC-TGTTTTAAGAAAAATAA
1 -AAATCTTCTGTA-TTCGAGTAAAACTGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAA
*
6305178 TCTCT-AGTGAGAT
63 TCT-TGAGTGAAAT
* * * *
6305191 AAATCTTCTGTATT-AAATGAGACTGTCTCAAGCGAGACAAA
1 AAATCTTCTGTATTCGAGTAAAACTGTCTCAAGCGAGACAAA
6305232 ATTTATATTG
Statistics
Matches: 227, Mismatches: 21, Indels: 34
0.80 0.07 0.12
Matches are distributed among these distances:
72 17 0.07
73 29 0.13
74 75 0.33
75 16 0.07
76 86 0.38
77 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (75 bp):
AAATCTTCTGTATTCGAGTAAAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCT
TGAGTGAAAT
Found at i:6323567 original size:16 final size:16
Alignment explanation
Indices: 6323546--6323576 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6323536 TTGTTATCAT
6323546 TATTTTAATGAATGAA
1 TATTTTAATGAATGAA
*
6323562 TATTTTAATGCATGA
1 TATTTTAATGAATGA
6323577 CTCCAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (16 bp):
TATTTTAATGAATGAA
Found at i:6325629 original size:51 final size:48
Alignment explanation
Indices: 6325574--6325695 Score: 124
Period size: 51 Copynumber: 2.5 Consensus size: 48
6325564 CTTTAAATGT
6325574 AAGGACTAAATTACAAGAA-AATAAA-AGCTAATAGCTAAATAAGAAATAAA
1 AAGGACTAAATTA-AA-AATAA-AAATAGC-AATAGCTAAATAAGAAATAAA
* * *
6325624 CAAGGATCAAAATGTAAAAATAAAAATATCAATAGCTAAATAATAAATAAA
1 -AAGGA-CTAAAT-TAAAAATAAAAATAGCAATAGCTAAATAAGAAATAAA
*
6325675 AGGGACTAAATT-AAAATAAAA
1 AAGGACTAAATTAAAAATAAAA
6325696 GAAAACTGTG
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
47 9 0.15
48 1 0.02
49 5 0.08
50 4 0.06
51 30 0.48
52 11 0.18
53 2 0.03
ACGTcount: A:0.62, C:0.07, G:0.11, T:0.20
Consensus pattern (48 bp):
AAGGACTAAATTAAAAATAAAAATAGCAATAGCTAAATAAGAAATAAA
Found at i:6327724 original size:41 final size:41
Alignment explanation
Indices: 6327679--6327815 Score: 127
Period size: 41 Copynumber: 3.3 Consensus size: 41
6327669 AATAGTACGT
*
6327679 TAGTGGCGTTTTTATATAAACGCCGCAATAGATGTAATCTA
1 TAGTGGCGTTTTTATACAAACGCCGCAATAGATGTAATCTA
* * * * *
6327720 TAGTGGCATTTTTTTCAACAAACGCCGAAACACAGTTGT-A-CGT-
1 TAGTGGCGTTTTTAT--ACAAACGCCG-CA-ATAGATGTAATC-TA
* * *
6327763 TAGCGGTGTTTTTATACAAATGCCGCAATAGATGTAATCTA
1 TAGTGGCGTTTTTATACAAACGCCGCAATAGATGTAATCTA
6327804 TAGTGGCGTTTT
1 TAGTGGCGTTTT
6327816 CATATAAAAG
Statistics
Matches: 72, Mismatches: 16, Indels: 16
0.69 0.15 0.15
Matches are distributed among these distances:
39 6 0.08
40 3 0.04
41 33 0.46
43 21 0.29
44 3 0.04
45 6 0.08
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCAATAGATGTAATCTA
Found at i:6346080 original size:71 final size:71
Alignment explanation
Indices: 6345964--6346106 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
6345954 GTAAATATCC
6345964 TGGAAGGACAATGAATTGATCAGTAAACAAGCATTAGTTCTGGGAGTTATTCATCTGGAGTTATT
1 TGGAAGGACAATGAATTGATCAGTAAACAAGCATTAGTTCTGGGAGTTATTCATCTGGAGTTATT
6346029 TAATAA
66 TAATAA
6346035 TGGAAGGACAATGAATTGATCAGTAAACAAGCATTAGTTCTGGGAGTTATTCATCTGGAGTTATT
1 TGGAAGGACAATGAATTGATCAGTAAACAAGCATTAGTTCTGGGAGTTATTCATCTGGAGTTATT
6346100 TAATAA
66 TAATAA
6346106 T
1 T
6346107 CTAATCAATC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (71 bp):
TGGAAGGACAATGAATTGATCAGTAAACAAGCATTAGTTCTGGGAGTTATTCATCTGGAGTTATT
TAATAA
Found at i:6346450 original size:12 final size:12
Alignment explanation
Indices: 6346413--6346451 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6346403 ATATGATACT
6346413 TGACATGGATTC
1 TGACATGGATTC
*
6346425 TGATAT-GATATC
1 TGACATGGAT-TC
6346437 TGACATGGATTC
1 TGACATGGATTC
6346449 TGA
1 TGA
6346452 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:6346515 original size:24 final size:24
Alignment explanation
Indices: 6346397--6346512 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
6346387 TTCGATTTGA
6346397 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
6346421 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* * *
6346445 ATTCTGATCTGATACTTAACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
6346469 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
6346493 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
6346513 CTGATTTATG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:6351605 original size:24 final size:24
Alignment explanation
Indices: 6351487--6351602 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
6351477 TTCGATTTGA
6351487 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
6351511 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
6351535 ATTCTGATCTGATACTTGACTTTG
1 ATTCTGATCTGATACTTGACATGG
* *
6351559 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
6351583 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
6351603 CTGATTTATG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:6356944 original size:24 final size:24
Alignment explanation
Indices: 6356916--6357031 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
6356906 TTCGATTTGA
* *
6356916 ATTCTGATATGATATTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
6356940 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
6356964 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
6356988 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
6357012 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
6357032 GTGATTTACG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:6358422 original size:45 final size:45
Alignment explanation
Indices: 6358353--6358477 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
6358343 ATTCAAGATT
6358353 TTACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTA-T-ACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * **
6358400 TTACCATTTATCCCATAAGCTCGTAAGCTTATCTTACCATTATAC
1 TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
6358445 TTTCCA-TTATTCTATAAGCTCGTAAGCTTATTT
1 TTACCATTTATACCATAAGCTCGTAAGCTTATTT
6358478 GCGTGGTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 24 0.34
45 35 0.50
46 1 0.01
47 10 0.14
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (45 bp):
TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:6362808 original size:90 final size:91
Alignment explanation
Indices: 6362623--6362796 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 91
6362613 AAGATGATGA
* * * * * *
6362623 ATAAGAATGATTAAAATTGAACGAATCGTACCGTAAGAGATCAAAATCATTCTTTTTGTAAATCG
1 ATAAGAATAACTAAAATCGAACGAATCGTACCGAAAAAGATCAAAATCATTCTTTTTGTAAATAG
*
6362688 ATAACCAAATCAGTCATATAAAAAAT
66 ATAACAAAATCAGTCATATAAAAAAT
6362714 ATAAGAATAACTAAAATCGAACGAATCGATA-C-AAAAAGATCAAAATCATTCTTTTTGTAAATA
1 ATAAGAATAACTAAAATCGAACGAATCG-TACCGAAAAAGATCAAAATCATTCTTTTTGTAAATA
*
6362777 GGTAATCAAAATCAGTCATA
65 GATAA-CAAAATCAGTCATA
6362797 CCAAAATATA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 32 0.44
91 39 0.53
92 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (91 bp):
ATAAGAATAACTAAAATCGAACGAATCGTACCGAAAAAGATCAAAATCATTCTTTTTGTAAATAG
ATAACAAAATCAGTCATATAAAAAAT
Found at i:6362891 original size:3 final size:3
Alignment explanation
Indices: 6362883--6362907 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6362873 ATAATACAAT
6362883 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
6362908 ACCCTATTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:6374314 original size:11 final size:11
Alignment explanation
Indices: 6374274--6374340 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
6374264 TGAACTCTTC
6374274 TTTTATTATTTA
1 TTTT-TTATTTA
*
6374286 TTTATTATTTA
1 TTTTTTATTTA
6374297 TTATTTTATTTA
1 TT-TTTTATTTA
*
6374309 TTTTTTTTTTCA
1 TTTTTTATTT-A
*
6374321 TTTTTT-TTCA
1 TTTTTTATTTA
*
6374331 TTTTTCATTT
1 TTTTTTATTT
6374341 TTCATTTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 6 0.13
11 20 0.43
12 20 0.43
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:6374323 original size:16 final size:15
Alignment explanation
Indices: 6374300--6374372 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 15
6374290 TTATTTATTA
6374300 TTTT-ATTTATTTTTT
1 TTTTCATTT-TTTTTT
6374315 TTTTCATTTTTTTTCAT
1 TTTTCATTTTTTTT--T
**
6374332 TTTTCA-TTTTTCAT
1 TTTTCATTTTTTTTT
*
6374346 TTTTCATTTTTTCATT
1 TTTTCATTTTTT-TTT
6374362 TTTTCATTTTT
1 TTTTCATTTTT
6374373 CTTTCATCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.14
15 14 0.29
16 21 0.43
17 7 0.14
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCATTTTTTTTT
Found at i:6374324 original size:8 final size:8
Alignment explanation
Indices: 6374313--6374372 Score: 81
Period size: 7 Copynumber: 7.6 Consensus size: 8
6374303 TATTTATTTT
6374313 TTTTTTCA
1 TTTTTTCA
6374321 TTTTTTTTCA
1 --TTTTTTCA
6374331 -TTTTTCA
1 TTTTTTCA
6374338 -TTTTTCA
1 TTTTTTCA
6374345 -TTTTTCA
1 TTTTTTCA
6374352 TTTTTTCA
1 TTTTTTCA
6374360 TTTTTTCA
1 TTTTTTCA
6374368 TTTTT
1 TTTTT
6374373 CTTTCATCTC
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 21 0.43
8 20 0.41
10 8 0.16
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:6374334 original size:7 final size:7
Alignment explanation
Indices: 6374324--6374373 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
6374314 TTTTTCATTT
6374324 TTTTTCA
1 TTTTTCA
6374331 TTTTTCA
1 TTTTTCA
6374338 TTTTTCA
1 TTTTTCA
6374345 TTTTTCA
1 TTTTTCA
6374352 TTTTTTCA
1 -TTTTTCA
6374360 TTTTTTCA
1 -TTTTTCA
6374368 TTTTTC
1 TTTTTC
6374374 TTTCATCTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 27 0.64
8 15 0.36
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:6374365 original size:30 final size:30
Alignment explanation
Indices: 6374314--6374373 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
6374304 ATTTATTTTT
6374314 TTTTTCATTTTTTTTCATTTTTCATTTTTCA
1 TTTTTCA-TTTTTTTCATTTTTCATTTTTCA
6374345 TTTTTCA-TTTTTTCATTTTTTCATTTTTC
1 TTTTTCATTTTTTTCA-TTTTTCATTTTTC
6374374 TTTCATCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.29
30 13 0.46
31 7 0.25
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTTTCATTTTTTTCATTTTTCATTTTTCA
Found at i:6377656 original size:24 final size:24
Alignment explanation
Indices: 6377590--6377658 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
6377580 ACATGACCTG
*
6377590 GATTCTGTTCTGATTTCTAATCTA
1 GATTCTGTTCTGATTTCTGATCTA
* * *
6377614 GATTTTGTTCTGATATCTGAT-TT
1 GATTCTGTTCTGATTTCTGATCTA
*
6377637 GAATTCTGTTTTGATTTCTGAT
1 G-ATTCTGTTCTGATTTCTGAT
6377659 ATCTTTGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 2 0.05
24 35 0.95
ACGTcount: A:0.19, C:0.12, G:0.16, T:0.54
Consensus pattern (24 bp):
GATTCTGTTCTGATTTCTGATCTA
Found at i:6382168 original size:48 final size:48
Alignment explanation
Indices: 6382092--6382183 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
6382082 TCCGACTTGA
*
6382092 ATTCTATTCTGATACATGACTTGGATTCTATTCTGATTTCTGATCTGG
1 ATTCTATTCTGATACATGACTTGAATTCTATTCTGATTTCTGATCTGG
* * * * *
6382140 ATTCTGTTCTGATATC-TGATTTGAATTCTGTTTTGATTTTTGAT
1 ATTCTATTCTGATA-CATGACTTGAATTCTATTCTGATTTCTGAT
6382184 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 36 0.97
49 1 0.03
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (48 bp):
ATTCTATTCTGATACATGACTTGAATTCTATTCTGATTTCTGATCTGG
Found at i:6382176 original size:24 final size:24
Alignment explanation
Indices: 6382088--6382168 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
6382078 AATTTCCGAC
*
6382088 TTGAATTCTATTCTGATA-CATGAC
1 TTGAATTCTATTCTGATATC-TGAT
* *
6382112 TTGGATTCTATTCTGATTTCTGAT
1 TTGAATTCTATTCTGATATCTGAT
* * *
6382136 CTGGATTCTGTTCTGATATCTGAT
1 TTGAATTCTATTCTGATATCTGAT
6382160 TTGAATTCT
1 TTGAATTCT
6382169 GTTTTGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.48
Consensus pattern (24 bp):
TTGAATTCTATTCTGATATCTGAT
Found at i:6382183 original size:24 final size:24
Alignment explanation
Indices: 6382116--6382183 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
6382106 CATGACTTGG
* *
6382116 ATTCTATTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATTTCTGATCTGA
* *
6382140 ATTCTGTTCTGATATCTGATTTGA
1 ATTCTGTTCTGATTTCTGATCTGA
* *
6382164 ATTCTGTTTTGATTTTTGAT
1 ATTCTGTTCTGATTTCTGAT
6382184 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.54
Consensus pattern (24 bp):
ATTCTGTTCTGATTTCTGATCTGA
Found at i:6382350 original size:2 final size:2
Alignment explanation
Indices: 6382343--6382409 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
6382333 CGGATGAAGG
6382343 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6382385 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6382410 GTTTTAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6389988 original size:19 final size:20
Alignment explanation
Indices: 6389966--6390003 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6389956 AATGCGATAT
6389966 ATAAAATGCA-ATGCAAAAA
1 ATAAAATGCAGATGCAAAAA
*
6389985 ATAAAATGTAGATGCAAAA
1 ATAAAATGCAGATGCAAAA
6390004 TACACAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.13, T:0.18
Consensus pattern (20 bp):
ATAAAATGCAGATGCAAAAA
Found at i:6402121 original size:15 final size:15
Alignment explanation
Indices: 6402101--6402132 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6402091 ATTAATACTA
*
6402101 ATAATTAGTAATTAT
1 ATAATTAGTAATAAT
6402116 ATAATTAGTAATAAT
1 ATAATTAGTAATAAT
6402131 AT
1 AT
6402133 CATATATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
ATAATTAGTAATAAT
Found at i:6406378 original size:21 final size:21
Alignment explanation
Indices: 6406337--6406378 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6406327 TTACGTTTAA
* *
6406337 TAAATTATTTAATAAATACAT
1 TAAATTATTAAATAAAAACAT
6406358 TAAATT-TTAAATAGAAAACAT
1 TAAATTATTAAATA-AAAACAT
6406379 CAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATTATTAAATAAAAACAT
Found at i:6409953 original size:14 final size:14
Alignment explanation
Indices: 6409936--6409966 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6409926 GGGTATTTTG
*
6409936 TAATGATAATAATA
1 TAATAATAATAATA
6409950 TAATAATAATAATA
1 TAATAATAATAATA
6409964 TAA
1 TAA
6409967 GGCAATAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:6410233 original size:40 final size:41
Alignment explanation
Indices: 6410189--6410290 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 41
6410179 TGTTGGCCCC
* *
6410189 ACTCCTTCTGCTATGGTTGAACAGAGATGAT-TT-TGATCCA
1 ACTCCTTCTGCTATGGATGAACA-AAATGATATTCTGATCCA
*
6410229 ACTCCTTCTG-TGATGGATGAGCAAAATGATAATTCTGATCCA
1 ACTCCTTCTGCT-ATGGATGAACAAAATGAT-ATTCTGATCCA
* *
6410271 ACTCCTTATGCGATGGATGA
1 ACTCCTTCTGCTATGGATGA
6410291 TCCAAGTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 7 0.13
40 19 0.37
41 2 0.04
42 24 0.46
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (41 bp):
ACTCCTTCTGCTATGGATGAACAAAATGATATTCTGATCCA
Found at i:6410575 original size:17 final size:17
Alignment explanation
Indices: 6410553--6410612 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 17
6410543 ATTTAATAAG
6410553 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
6410570 TTCTTCTCCCCATTGGATG-AG
1 TTCTTCT---CATT--ATGAAC
6410591 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
6410608 TTCTT
1 TTCTT
6410613 ATCCCTCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 3 0.09
17 13 0.37
18 4 0.11
20 4 0.11
21 8 0.23
22 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.10, T:0.47
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:6410593 original size:38 final size:39
Alignment explanation
Indices: 6410551--6410647 Score: 160
Period size: 38 Copynumber: 2.5 Consensus size: 39
6410541 AGATTTAATA
* * *
6410551 AGTTCTTCTCATTATGAACTTCTTCTCCC-CATTGGATG
1 AGTTCTTCTCATTATGAACTTCTTATCCCTCATCGAATG
6410589 AGTTCTTCTCATTATGAACTTCTTATCCCTCATCGAATG
1 AGTTCTTCTCATTATGAACTTCTTATCCCTCATCGAATG
6410628 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
6410648 GTCCATTGGA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 28 0.51
39 27 0.49
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTATCCCTCATCGAATG
Found at i:6411848 original size:14 final size:15
Alignment explanation
Indices: 6411808--6411855 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
6411798 CTCTTTTTTA
*
6411808 TTTTCATTTTTATTTT
1 TTTTCATTTTT-TTCT
*
6411824 GTTTTC-CTTTTTTCT
1 -TTTTCATTTTTTTCT
6411839 TTTTCATTTTTTTCT
1 TTTTCATTTTTTTCT
6411854 TT
1 TT
6411856 AAGCATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 13 0.48
16 4 0.15
17 5 0.19
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTCATTTTTTTCT
Found at i:6420341 original size:30 final size:30
Alignment explanation
Indices: 6420273--6420358 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 30
6420263 AGAGTCGAGG
* * * *
6420273 GTTACCTATGTCTTTCGAGATATATTGACA
1 GTTACCTATGTCCTTCGGGACATATGGACA
6420303 GTTTACCTATGTCCTTCGGGACATATGGACA
1 G-TTACCTATGTCCTTCGGGACATATGGACA
* *
6420334 GTTACCTATGTTCTTCGGAACATAT
1 GTTACCTATGTCCTTCGGGACATAT
6420359 AGATAGGTCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 23 0.47
31 26 0.53
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGGACATATGGACA
Found at i:6420828 original size:19 final size:18
Alignment explanation
Indices: 6420782--6420835 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
6420772 CACATCATGT
6420782 TTTGGTATGTAATAGATA
1 TTTGGTATGTAATAGATA
6420800 TTTGGTATGTAATAGATA
1 TTTGGTATGTAATAGATA
*
6420818 TGTTGGCATGTAAATAGA
1 T-TTGGTATGT-AATAGA
6420836 GTCGTGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 19 0.58
19 8 0.24
20 6 0.18
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (18 bp):
TTTGGTATGTAATAGATA
Found at i:6428152 original size:3 final size:3
Alignment explanation
Indices: 6428144--6428178 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6428134 GGCTATTTTG
6428144 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6428179 TAAGGCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6428346 original size:18 final size:18
Alignment explanation
Indices: 6428323--6428364 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6428313 TTCTTTTCCC
6428323 AATTTTTATTATTTCTTT
1 AATTTTTATTATTTCTTT
*
6428341 AATTTTTTTTATTTCTTT
1 AATTTTTATTATTTCTTT
6428359 ATATTT
1 A-ATTT
6428365 ATAATTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
AATTTTTATTATTTCTTT
Found at i:6432439 original size:3 final size:3
Alignment explanation
Indices: 6432431--6432471 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
6432421 GGTCTACAAA
6432431 ATT ATT ATT AATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6432472 ACATTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:6438537 original size:151 final size:152
Alignment explanation
Indices: 6438271--6438572 Score: 524
Period size: 151 Copynumber: 2.0 Consensus size: 152
6438261 AACAATAATT
6438271 CTTACTCTAACACTTATAATGCTGGATGGCGTCAACATCCAAATTTCTCATGGGGAAATCAAGGA
1 CTTACTCTAACACTTATAATGCTGGATGGCGTCAACATCCAAATTTCTCATGGGGAAATCAAGGA
*
6438336 GCAGAATGCTAATCAACCCACTCGGTAGCAAAATCACAATAAGCCTCAAGGTT-ACAAAATGTTA
66 GCAGAATGCTAATCAACCCACTCGGCAGCAAAATCACAATAAGCCTCAAGGTTAAC-AAATG-TA
6438400 TGCCATGGCATAATAACAACAAAC
129 TGCCATGGCATAATAACAACAAAC
6438424 CTTACTCTAACACTTATAATGCTGGATGGCGTCAACATCCAAA-TT-TCAT-GGGAAATC-AGGA
1 CTTACTCTAACACTTATAATGCTGGATGGCGTCAACATCCAAATTTCTCATGGGGAAATCAAGGA
6438485 GCCCAGAATGCTAATCAACCCACTCGGCAGCAAAATCACAATAAGCCTCAAGGTTAACAAATGTA
66 G--CAGAATGCTAATCAACCCACTCGGCAGCAAAATCACAATAAGCCTCAAGGTTAACAAATGTA
6438550 TGCCATGGCATAATAACAACAAA
129 TGCCATGGCATAATAACAACAAA
6438573 TGAGCTTTAA
Statistics
Matches: 145, Mismatches: 1, Indels: 9
0.94 0.01 0.06
Matches are distributed among these distances:
149 5 0.03
150 33 0.23
151 60 0.41
152 4 0.03
153 43 0.30
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (152 bp):
CTTACTCTAACACTTATAATGCTGGATGGCGTCAACATCCAAATTTCTCATGGGGAAATCAAGGA
GCAGAATGCTAATCAACCCACTCGGCAGCAAAATCACAATAAGCCTCAAGGTTAACAAATGTATG
CCATGGCATAATAACAACAAAC
Found at i:6446649 original size:36 final size:36
Alignment explanation
Indices: 6446587--6446709 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
6446577 GTTGTCACCT
* * *
6446587 TTGAGACAATTTCTTTTAAAAACAAATTTTATCTCGC
1 TTGAGACAATTT-TCTTAAAAACAAATTTTGTCTCAC
*
6446624 TTGAGACAATTTTCTTAAAAACAAATTGTGTCTCAC
1 TTGAGACAATTTTCTTAAAAACAAATTTTGTCTCAC
* * *
6446660 TTGAGACAA-TTTCTCTCAAAACAAATATTGTATCAC
1 TTGAGACAATTTTCT-TAAAAACAAATTTTGTCTCAC
6446696 TTGAGAC-ATTTTCT
1 TTGAGACAATTTTCT
6446710 CTCATAATAC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
35 6 0.08
36 58 0.76
37 12 0.16
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (36 bp):
TTGAGACAATTTTCTTAAAAACAAATTTTGTCTCAC
Found at i:6446710 original size:36 final size:35
Alignment explanation
Indices: 6446587--6446725 Score: 145
Period size: 36 Copynumber: 3.8 Consensus size: 35
6446577 GTTGTCACCT
* * *
6446587 TTGAGACAATTTCTTTTAAAAACAAATTTTATCTCGC
1 TTGAGACAATTTC-TCTAAAAACAAA-TTTGTCTCAC
6446624 TTGAGACAATTT-TCTTAAAAACAAATTGTGTCTCAC
1 TTGAGACAATTTCTC-TAAAAACAAATT-TGTCTCAC
* *
6446660 TTGAGACAATTTCTCTCAAAACAAATATTGTATCAC
1 TTGAGACAATTTCTCTAAAAACAAAT-TTGTCTCAC
* *
6446696 TTGAGACATTTTCTCTCATAATACAAATTT
1 TTGAGACAATTTCTCT-A-AAAACAAATTT
6446726 CAAAGTTGTT
Statistics
Matches: 88, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
35 3 0.03
36 60 0.68
37 17 0.19
38 8 0.09
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (35 bp):
TTGAGACAATTTCTCTAAAAACAAATTTGTCTCAC
Found at i:6447037 original size:36 final size:35
Alignment explanation
Indices: 6446997--6447103 Score: 89
Period size: 36 Copynumber: 3.1 Consensus size: 35
6446987 CTTTGAGTTT
*
6446997 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCT-CCTTGAGACA
* ** *
6447033 GTTTCCCTTAAAACAAAATCAT-T-T--TTGAGTC-
1 GTTTCCCTTGAAAC-AAATTTTGTCTCCTTGAGACA
**
6447064 GTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTC-CTTGAGACA
6447100 GTTT
1 GTTT
6447104 TTCTTGAAGC
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
30 4 0.08
31 13 0.25
32 7 0.13
35 7 0.13
36 17 0.32
37 5 0.09
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (35 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCTTGAGACA
Found at i:6447049 original size:64 final size:64
Alignment explanation
Indices: 6446854--6447143 Score: 235
Period size: 64 Copynumber: 4.4 Consensus size: 64
6446844 CAAAGTTTAT
* * * * * * * *
6446854 AATCTTTGAGTCTGTTTCTTTTGAAACATATCTTGTCTCCCTTTAGACAGATTCTCATAAAATAC
1 AATCTTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTC-CCTTAAA-AC
*
6446919 C
64 A
* * * ** * *
6446920 AATCTTTGAGTTTATTTCTCTTAAAACAAACTTTGTCTTACTTGAGACAGTCTT-CTTTAAGACA
1 AATCTTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGT-TTCCCTTAAAACA
6446984 AATCTTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACAA
1 AATCTTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAAC-A
* * ** * ** * *
6447049 AATCATTTTTGAG-TCGTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACAGTTTTTCTTGAAG
1 AATC---TTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAA
6447113 CA
63 CA
* *
6447115 TCATCTTTGA-TTCTGTTTCCCTTGAAACA
1 -AATCTTTGAGTT-TGTTTCTCTTGAAACA
6447144 TAATCCCTAA
Statistics
Matches: 180, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
63 2 0.01
64 61 0.34
65 22 0.12
66 41 0.23
67 48 0.27
68 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (64 bp):
AATCTTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTAAAACA
Found at i:6447383 original size:131 final size:131
Alignment explanation
Indices: 6447146--6447399 Score: 375
Period size: 131 Copynumber: 1.9 Consensus size: 131
6447136 TTGAAACATA
* * * * *
6447146 ATCCCTAAATATGGCCTGCCATCCTCATTACATAGGAACTGTGTCATCCTCCGACCAGACCTCCT
1 ATCCCTAAAGATGGCCTACCATCCTCATCACATAGGAACTATGTCATCCACCGACCAGACCTCCT
** *
6447211 CATCACGTAGGAGTTGTGTCAACCCTAGATAACAAGCCGTCCTCATCACATAGGAACCATGTTAT
66 CATCACGTAGGAGCCGTGTCAACCCTAGATAACAAGACGTCCTCATCACATAGGAACCATGTTAT
6447276 C
131 C
* *
6447277 ATCCCTAAAGATGGCCTACCATCCTCATCACGTAGGAACTATGTCATCCACCGACTAGACCTCC-
1 ATCCCTAAAGATGGCCTACCATCCTCATCACATAGGAACTATGTCATCCACCGACCAGACCTCCT
* * *
6447341 CGATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACC
66 C-ATCACGTAGGAGCCGTGTCAACCCTAGATAACAAGACGTCCTCATCACATAGGAACC
6447400 GTGTCATCCC
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 1 0.01
131 108 0.99
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (131 bp):
ATCCCTAAAGATGGCCTACCATCCTCATCACATAGGAACTATGTCATCCACCGACCAGACCTCCT
CATCACGTAGGAGCCGTGTCAACCCTAGATAACAAGACGTCCTCATCACATAGGAACCATGTTAT
C
Found at i:6449276 original size:2 final size:2
Alignment explanation
Indices: 6449212--6449265 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
6449202 TTATAATTTC
6449212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6449254 AT AT AT AT AT AT
1 AT AT AT AT AT AT
6449266 GCATGTATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6450385 original size:18 final size:18
Alignment explanation
Indices: 6450364--6450420 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
6450354 TGCATGCACC
6450364 ATTATCTACATTAATGAA
1 ATTATCTACATTAATGAA
6450382 ATTAAT-TA-ATTAAT-AA
1 ATT-ATCTACATTAATGAA
**
6450398 AAAATACTACATTAATGAA
1 ATTAT-CTACATTAATGAA
6450417 ATTA
1 ATTA
6450421 AGATTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.07
16 3 0.10
17 8 0.27
18 11 0.37
19 6 0.20
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.37
Consensus pattern (18 bp):
ATTATCTACATTAATGAA
Found at i:6450395 original size:17 final size:19
Alignment explanation
Indices: 6450370--6450421 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
6450360 CACCATTATC
6450370 TACATTAATGAAATTAAT-
1 TACATTAATGAAATTAATA
*
6450388 TA-ATTAAT-AAA-AAATA
1 TACATTAATGAAATTAATA
6450404 CTACATTAATGAAATTAA
1 -TACATTAATGAAATTAA
6450422 GATTTAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 8 0.30
18 8 0.30
19 3 0.11
20 2 0.07
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
TACATTAATGAAATTAATA
Found at i:6451475 original size:20 final size:20
Alignment explanation
Indices: 6451450--6451493 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
6451440 ACCATGCATT
6451450 TTCCTGGAAAAATCAAATCA
1 TTCCTGGAAAAATCAAATCA
6451470 TTCCTGGAAAAATCAAATCA
1 TTCCTGGAAAAATCAAATCA
6451490 TTCC
1 TTCC
6451494 CAGCTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (20 bp):
TTCCTGGAAAAATCAAATCA
Found at i:6456637 original size:30 final size:28
Alignment explanation
Indices: 6456603--6456665 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
6456593 ATTTAATTTA
*
6456603 TATAATTTTTAGTAAATTGTATATTGTAAT
1 TATAATTTATA-TAAATT-TATATTGTAAT
*
6456633 TATAATTTATATAAATTTATATTTTAAT
1 TATAATTTATATAAATTTATATTGTAAT
6456661 T-TAAT
1 TATAAT
6456666 GAAGACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 4 0.13
28 11 0.35
29 6 0.19
30 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (28 bp):
TATAATTTATATAAATTTATATTGTAAT
Found at i:6470531 original size:8 final size:8
Alignment explanation
Indices: 6470518--6470560 Score: 68
Period size: 8 Copynumber: 5.2 Consensus size: 8
6470508 AAAATGAGTG
6470518 AAAATAAA
1 AAAATAAA
6470526 AAAATAAA
1 AAAATAAA
*
6470534 AAAATTAA
1 AAAATAAA
6470542 AAAATAAA
1 AAAATAAA
6470550 AAAATGAAA
1 AAAAT-AAA
6470559 AA
1 AA
6470561 TGGAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 27 0.84
9 5 0.16
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:6470534 original size:24 final size:26
Alignment explanation
Indices: 6470507--6470570 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 26
6470497 AAGAAGAAGA
*
6470507 AAAAATGAGT-GAAAATAAAAAAAT-
1 AAAAATGAGTAAAAAATAAAAAAATG
* *
6470531 AAAAA-AATTAAAAAATAAAAAAATG
1 AAAAATGAGTAAAAAATAAAAAAATG
*
6470556 AAAAATG-GAAAAAAA
1 AAAAATGAGTAAAAAA
6470571 GAAGGGTTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.06
24 18 0.58
25 11 0.35
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAAATGAGTAAAAAATAAAAAAATG
Done.