Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 367 of 425
Found at i:113100454 original size:31 final size:31
Alignment explanation
Indices: 113100419--113100487 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
113100409 CATATCTAAC
* * *
113100419 TTTAATTTAATATGTAATTATATACATCAAT
1 TTTAATTTAATATATAATTATATACATAAAA
*
113100450 TTTAATTTAATATATAATTATATATATAAAA
1 TTTAATTTAATATATAATTATATACATAAAA
113100481 TTTAATT
1 TTTAATT
113100488 GTGATTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
TTTAATTTAATATATAATTATATACATAAAA
Found at i:113101044 original size:2 final size:2
Alignment explanation
Indices: 113101037--113101061 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113101027 TAACGTACGG
113101037 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
113101062 AAAGTACTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113101620 original size:3 final size:3
Alignment explanation
Indices: 113101612--113101669 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
113101602 GCTTACTTGT
*
113101612 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
113101660 ACA ATA ATA A
1 ATA ATA ATA A
113101670 CTTCTTGAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:113106789 original size:29 final size:28
Alignment explanation
Indices: 113106735--113106815 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
113106725 ATGCACTTAA
*
113106735 CATTAAA-TTTTTTATTTATT-AGAAAAT
1 CATTAAATTTTTTTATTT-TTAAAAAAAT
**
113106762 GTTTAAATTTTTATTATTTTTAAAAAAAT
1 CATTAAATTTTT-TTATTTTTAAAAAAAT
*
113106791 CATTAAATGATTTTT-TTTTTAAAAA
1 CATTAAAT-TTTTTTATTTTTAAAAA
113106816 TGATTATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.11
28 16 0.36
29 20 0.45
30 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (28 bp):
CATTAAATTTTTTTATTTTTAAAAAAAT
Found at i:113107315 original size:12 final size:12
Alignment explanation
Indices: 113107298--113107323 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
113107288 TCCTTCTCCA
113107298 CCACCTACTCTT
1 CCACCTACTCTT
113107310 CCACCTACTCTT
1 CCACCTACTCTT
113107322 CC
1 CC
113107324 GTATATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (12 bp):
CCACCTACTCTT
Found at i:113107856 original size:14 final size:14
Alignment explanation
Indices: 113107833--113107862 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113107823 ACCTAAAAGT
*
113107833 TTTCTTTCACTTAG
1 TTTCTCTCACTTAG
113107847 TTTCTCTCACTTAG
1 TTTCTCTCACTTAG
113107861 TT
1 TT
113107863 GCACCTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTCTCTCACTTAG
Found at i:113108358 original size:12 final size:12
Alignment explanation
Indices: 113108337--113108400 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
113108327 ATAAACTTGC
113108337 AAAAAA-AAAAA
1 AAAAAAGAAAAA
113108348 AAAAAAGAAAAA
1 AAAAAAGAAAAA
*
113108360 ACAAAAACAAAAA
1 A-AAAAAGAAAAA
* *
113108373 CAAAAGGAAAAA
1 AAAAAAGAAAAA
* *
113108385 CAAAAGGAAAAGA
1 AAAAAAGAAAA-A
113108398 AAA
1 AAA
113108401 GAAAAGCAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
11 6 0.13
12 26 0.58
13 13 0.29
ACGTcount: A:0.84, C:0.06, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:113108389 original size:5 final size:6
Alignment explanation
Indices: 113108336--113108389 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
113108326 CATAAACTTG
* * * * *
113108336 CAAAAA AAAAAA AAAAAA GAAAAAA CAAAAA CAAAAA CAAAAG GAAAAA
1 CAAAAA CAAAAA CAAAAA -CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
113108385 CAAAA
1 CAAAA
113108390 GGAAAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:113108395 original size:24 final size:24
Alignment explanation
Indices: 113108338--113108389 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
113108328 TAAACTTGCA
*
113108338 AAAAAAAAAAAAAAAAGAAAAAAC
1 AAAAACAAAAAAAAAAGAAAAAAC
* *
113108362 AAAAACAAAAACAAAAGGAAAAAC
1 AAAAACAAAAAAAAAAGAAAAAAC
113108386 AAAA
1 AAAA
113108390 GGAAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.87, C:0.08, G:0.06, T:0.00
Consensus pattern (24 bp):
AAAAACAAAAAAAAAAGAAAAAAC
Found at i:113110666 original size:6 final size:6
Alignment explanation
Indices: 113110655--113110679 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
113110645 ATAAATTTAG
113110655 ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A
113110680 GAAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:113112716 original size:3 final size:3
Alignment explanation
Indices: 113112710--113112741 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
113112700 TATCATGCTG
113112710 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
113112742 CCCACTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:113115105 original size:2 final size:2
Alignment explanation
Indices: 113115098--113115124 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
113115088 TGCAAATCTT
113115098 TA 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 TA T
113115125 TGCCCCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:113119597 original size:18 final size:18
Alignment explanation
Indices: 113119576--113119611 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
113119566 TTGTTGGTTT
*
113119576 TGATGATGTTGTTGATGA
1 TGATGATGGTGTTGATGA
113119594 TGATGATGGTGTTGATGA
1 TGATGATGGTGTTGATGA
113119612 AACTGTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (18 bp):
TGATGATGGTGTTGATGA
Found at i:113124881 original size:29 final size:29
Alignment explanation
Indices: 113124845--113124903 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
113124835 ACTCGTATTT
113124845 ATATTTGATAAAAGTGATTATTTTATTAA
1 ATATTTGATAAAAGTGATTATTTTATTAA
*
113124874 ATATTTGATAAAATTGATTATTTTATTAA
1 ATATTTGATAAAAGTGATTATTTTATTAA
113124903 A
1 A
113124904 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (29 bp):
ATATTTGATAAAAGTGATTATTTTATTAA
Found at i:113134328 original size:23 final size:22
Alignment explanation
Indices: 113134279--113134342 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
113134269 CCTGATCAGT
*
113134279 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
113134301 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
113134323 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
113134343 GATCGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:113134343 original size:23 final size:23
Alignment explanation
Indices: 113134279--113134344 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
113134269 CCTGATCAGT
113134279 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
113134301 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
113134323 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
113134345 TCGATAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:113137402 original size:22 final size:20
Alignment explanation
Indices: 113137377--113137417 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
113137367 GATACTTAAT
113137377 CGAAAATTCAGAGAATTTTTCA
1 CGAAAATTCA-A-AATTTTTCA
*
113137399 CGAAATTTCAAAATTTTTC
1 CGAAAATTCAAAATTTTTC
113137418 CAATGTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (20 bp):
CGAAAATTCAAAATTTTTCA
Found at i:113139216 original size:12 final size:12
Alignment explanation
Indices: 113139201--113139241 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
113139191 TGATAATATA
*
113139201 AATAACAACGAT
1 AATAACAACAAT
*
113139213 AATAACAATAAT
1 AATAACAACAAT
*
113139225 AATAACAATAAT
1 AATAACAACAAT
113139237 AATAA
1 AATAA
113139242 TAATGAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (12 bp):
AATAACAACAAT
Found at i:113139225 original size:3 final size:3
Alignment explanation
Indices: 113139211--113139253 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
113139201 AATAACAACG
* *
113139211 ATA ATA ACA ATA ATA ATA ACA ATA ATA ATA ATA ATGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
113139254 TAAAATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:113139256 original size:18 final size:18
Alignment explanation
Indices: 113139177--113139253 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 18
113139167 TACATAATAG
113139177 AATAATAATGAA-AATGAT
1 AATAATAAT-AATAATGAT
* *
113139195 AAT-ATAAATAACAACGAT
1 AATAAT-AATAATAATGAT
* * *
113139213 AATAACAATAATAATAAC
1 AATAATAATAATAATGAT
113139231 AATAATAATAATAATGAAT
1 AATAATAATAATAATG-AT
113139250 AATA
1 AATA
113139254 TAAAATTTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
17 4 0.09
18 36 0.78
19 6 0.13
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AATAATAATAATAATGAT
Found at i:113139291 original size:4 final size:4
Alignment explanation
Indices: 113139269--113139330 Score: 54
Period size: 4 Copynumber: 15.2 Consensus size: 4
113139259 TTTTGAAATT
* * * *
113139269 ATAA AAAA ATAA GTAA ATAA ATAA AT-A ATGAA ATAA AAATA ATAA GTAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATA-A ATAA ATAA
*
113139318 ATAA ACAA ATAA A
1 ATAA ATAA ATAA A
113139331 AACTAATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
3 3 0.07
4 36 0.80
5 6 0.13
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:113139318 original size:25 final size:26
Alignment explanation
Indices: 113139284--113139340 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
113139274 AAAATAAGTA
**
113139284 AATAAATAAATAATGAAATAAAAA-T
1 AATAAATAAATAAACAAATAAAAACT
*
113139309 AATAAGTAAATAAACAAATAAAAACT
1 AATAAATAAATAAACAAATAAAAACT
113139335 AATAAA
1 AATAAA
113139341 GGTTAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (26 bp):
AATAAATAAATAAACAAATAAAAACT
Found at i:113139442 original size:3 final size:3
Alignment explanation
Indices: 113139436--113139491 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
113139426 AATAAGAATA
113139436 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
113139484 ATG ATG AT
1 ATG ATG AT
113139492 AGTTGAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:113140170 original size:2 final size:2
Alignment explanation
Indices: 113140165--113140194 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113140155 TCGATTTTTT
113140165 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
113140195 GATTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113140457 original size:13 final size:13
Alignment explanation
Indices: 113140422--113140462 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
113140412 TTTAATCTTT
113140422 GCAAGTGGCGGTG
1 GCAAGTGGCGGTG
*
113140435 GCAAG-AGCGGTG
1 GCAAGTGGCGGTG
*
113140447 GCCAGTGGCGGTG
1 GCAAGTGGCGGTG
113140460 GCA
1 GCA
113140463 GGCTTTGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.17, C:0.20, G:0.51, T:0.12
Consensus pattern (13 bp):
GCAAGTGGCGGTG
Found at i:113141806 original size:10 final size:10
Alignment explanation
Indices: 113141793--113141877 Score: 55
Period size: 10 Copynumber: 7.9 Consensus size: 10
113141783 CTAATTTCCC
113141793 CTTTCTTTTT
1 CTTTCTTTTT
113141803 CTTTCTTTTTT
1 CTTTC-TTTTT
*
113141814 CTTTCTCTCTT
1 CTTTCT-TTTT
113141825 -TTTCGTTTCACTT
1 CTTTC-TTT---TT
* *
113141838 CTCTATTCTTT
1 CTTTCTT-TTT
113141849 CTTTCTTTTT
1 CTTTCTTTTT
* *
113141859 ATTTCTTTTA
1 CTTTCTTTTT
113141869 CTTTCTTTT
1 CTTTCTTTT
113141878 ATTTACTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
10 30 0.52
11 21 0.36
13 4 0.07
14 3 0.05
ACGTcount: A:0.05, C:0.22, G:0.01, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:113141872 original size:20 final size:20
Alignment explanation
Indices: 113141849--113141886 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
113141839 TCTATTCTTT
113141849 CTTTCTTTTTATTT-CTTTTA
1 CTTTC-TTTTATTTACTTTTA
113141869 CTTTCTTTTATTTACTTT
1 CTTTCTTTTATTTACTTT
113141887 ATGTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCTTTTATTTACTTTTA
Found at i:113150772 original size:14 final size:14
Alignment explanation
Indices: 113150753--113150779 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
113150743 GTTGCTTACG
113150753 TAGTTGTTCTCCTC
1 TAGTTGTTCTCCTC
113150767 TAGTTGTTCTCCT
1 TAGTTGTTCTCCT
113150780 TTATTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.26, G:0.15, T:0.52
Consensus pattern (14 bp):
TAGTTGTTCTCCTC
Found at i:113152772 original size:41 final size:41
Alignment explanation
Indices: 113152726--113152807 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
113152716 TCGTAACAAG
113152726 ATCTACTCATTTCTACCCATATTTTGAGCTAGGGTTTGTGT
1 ATCTACTCATTTCTACCCATATTTTGAGCTAGGGTTTGTGT
113152767 ATCTACTCATTTCTACCCATATTTTGAGCTAGGGTTTGTGT
1 ATCTACTCATTTCTACCCATATTTTGAGCTAGGGTTTGTGT
113152808 TTAAAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (41 bp):
ATCTACTCATTTCTACCCATATTTTGAGCTAGGGTTTGTGT
Found at i:113153583 original size:50 final size:50
Alignment explanation
Indices: 113153464--113153759 Score: 308
Period size: 50 Copynumber: 5.9 Consensus size: 50
113153454 ATTGTGAGAG
* * *** *
113153464 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * *
113153516 CACGTATGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
113153566 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-AGGT
* * * *
113153617 CACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* ** *
113153667 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * *
113153716 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
113153760 CTTCAGTTAT
Statistics
Matches: 201, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
49 41 0.20
50 85 0.42
51 39 0.19
52 36 0.18
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:113153647 original size:101 final size:101
Alignment explanation
Indices: 113153515--113153696 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
113153505 TGGTTTTAGG
** *
113153515 TCACGTATGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTATGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
113153580 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCAA
* * * *
113153616 TCACGTGTGTAGTACTAAGTGCAGGCGACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTATGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
113153681 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
113153697 CGTGTACTGG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACGTATGTAGTACTAAGTGCAGGCGACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGATAACTTCAA
Found at i:113153753 original size:150 final size:152
Alignment explanation
Indices: 113153468--113153764 Score: 463
Period size: 150 Copynumber: 2.0 Consensus size: 152
113153458 TGAGAGCACA
* * * *
113153468 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTATGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCGACTACGTGTATAAGATGG-TTTAGGTCACGTATGTAGTACTAA
*
113153533 GTGCAGGTTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
*
113153598 CGTACCCGATAACTTCAATCACG
130 CGTACCAGATAACTTCAATCACG
* *
113153621 TGTGTAGTACTAAGTGCAGGCGACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCGACTACGTGTATAAGATGGTTTAGGTCACGTATGTAGTACTAAG
** *
113153685 TGCAGGCTACTACGTGTACTGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
66 TGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
*
113153749 GTACCAGATAGCTTCA
131 GTACCAGATAACTTCA
113153765 GTTATAAGGG
Statistics
Matches: 132, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
150 50 0.38
151 47 0.36
153 35 0.27
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAGGCGACTACGTGTATAAGATGGTTTAGGTCACGTATGTAGTACTAAG
TGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACCAGATAACTTCAATCACG
Found at i:113153978 original size:16 final size:15
Alignment explanation
Indices: 113153957--113153986 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
113153947 AAATAGAGTA
113153957 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
113153973 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
113153987 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:113156549 original size:14 final size:14
Alignment explanation
Indices: 113156530--113156559 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113156520 TATTTTCAAG
113156530 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
113156544 ATAGATTCACGCAT
1 ATAGATTAACGCAT
113156558 AT
1 AT
113156560 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:113160179 original size:7 final size:6
Alignment explanation
Indices: 113160138--113160178 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
113160128 ATAATTTAAT
*
113160138 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
113160179 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:113160179 original size:20 final size:20
Alignment explanation
Indices: 113160141--113160180 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
113160131 ATTTAATAAA
**
113160141 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
113160161 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
113160181 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:113160212 original size:9 final size:9
Alignment explanation
Indices: 113160198--113160238 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
113160188 TTTATACAAA
113160198 TAATTCGGT
1 TAATTCGGT
*
113160207 TAATTCGGG
1 TAATTCGGT
113160216 TAATTCGAG-
1 TAATTCG-GT
113160225 TAATTCGGT
1 TAATTCGGT
113160234 TAATT
1 TAATT
113160239 TTATACTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.03
9 27 0.93
10 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
TAATTCGGT
Found at i:113161030 original size:23 final size:23
Alignment explanation
Indices: 113160996--113161039 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
113160986 TGTACAGACA
113160996 TAGTACCGCTGTGAGCCTCGCAT
1 TAGTACCGCTGTGAGCCTCGCAT
*
113161019 TAGTACCTCTGTGAGCCTCGC
1 TAGTACCGCTGTGAGCCTCGC
113161040 TAGTATCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.27
Consensus pattern (23 bp):
TAGTACCGCTGTGAGCCTCGCAT
Found at i:113161863 original size:22 final size:22
Alignment explanation
Indices: 113161835--113161876 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
113161825 ACCCAAGAAT
113161835 CTTCTAACTTCAGATACATTAA
1 CTTCTAACTTCAGATACATTAA
113161857 CTTCTAACTTCAGATACATT
1 CTTCTAACTTCAGATACATT
113161877 CTTCGGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (22 bp):
CTTCTAACTTCAGATACATTAA
Found at i:113164761 original size:14 final size:14
Alignment explanation
Indices: 113164742--113164771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113164732 TATTTTCAAG
113164742 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
113164756 ATAGATTCACGCAT
1 ATAGATTAACGCAT
113164770 AT
1 AT
113164772 TTATAAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:113169802 original size:2 final size:2
Alignment explanation
Indices: 113169795--113169823 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
113169785 ATTCTATTCG
113169795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
113169824 GGGGAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113171639 original size:21 final size:20
Alignment explanation
Indices: 113171610--113171657 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
113171600 TGGGGAGACT
*
113171610 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCGACC-ACCA-TAC
113171631 ACTCCACCCGTACCACCATAC
1 ACTCCACCCG-ACCACCATAC
113171652 ACTCCA
1 ACTCCA
113171658 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.71
22 4 0.17
23 3 0.12
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (20 bp):
ACTCCACCCGACCACCATAC
Found at i:113171886 original size:25 final size:27
Alignment explanation
Indices: 113171849--113171901 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
113171839 TCAAACATGC
113171849 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
113171875 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
113171901 A
1 A
113171902 AACAGTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:113173411 original size:26 final size:26
Alignment explanation
Indices: 113173375--113173535 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
113173365 ACATGAATTC
113173375 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
113173401 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113173427 TT-TCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
113173452 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113173478 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113173504 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113173530 TTATCA
1 TTATCA
113173536 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
25 23 0.18
26 105 0.82
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:113173502 original size:77 final size:78
Alignment explanation
Indices: 113173375--113173535 Score: 306
Period size: 77 Copynumber: 2.1 Consensus size: 78
113173365 ACATGAATTC
113173375 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATT-TCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
113173439 TTTACCTAACCTA
66 TTTACCTAACCTA
*
113173452 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
113173517 TTTACCTAACCTA
66 TTTACCTAACCTA
113173530 TTATCA
1 TTATCA
113173536 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
77 53 0.65
78 29 0.35
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:113178950 original size:25 final size:27
Alignment explanation
Indices: 113178913--113178965 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
113178903 TCAAACATGC
113178913 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
113178939 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
113178965 A
1 A
113178966 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:113180483 original size:26 final size:26
Alignment explanation
Indices: 113180447--113180608 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
113180437 CATGATATTC
113180447 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
113180473 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
113180499 TTGTCAAGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
113180525 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113180551 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113180577 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113180603 TTATCA
1 TTATCA
113180609 ATTTGTATAA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 126 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:113180576 original size:78 final size:78
Alignment explanation
Indices: 113180447--113180608 Score: 297
Period size: 78 Copynumber: 2.1 Consensus size: 78
113180437 CATGATATTC
*
113180447 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTGTCAAGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
113180512 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
113180525 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
113180590 TTTACCTAACCTA
66 TTTACCTAACCTA
113180603 TTATCA
1 TTATCA
113180609 ATTTGTATAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCAAGGAACA
TTTACCTAACCTA
Found at i:113185960 original size:13 final size:13
Alignment explanation
Indices: 113185942--113185978 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
113185932 AGATAATTAG
113185942 CAAATCATACATA
1 CAAATCATACATA
113185955 CAAATCATACATA
1 CAAATCATACATA
*
113185968 TAAATTCATAC
1 CAAA-TCATAC
113185979 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:113187307 original size:21 final size:22
Alignment explanation
Indices: 113187261--113187301 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
113187251 TAGTTATCTA
*
113187261 ATCAATTCTAATCAATGATTCT
1 ATCAATTCTAATCAATAATTCT
*
113187283 ATCAATT-TAATCCATAATT
1 ATCAATTCTAATCAATAATT
113187302 TCATCATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (22 bp):
ATCAATTCTAATCAATAATTCT
Found at i:113187567 original size:16 final size:16
Alignment explanation
Indices: 113187546--113187576 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113187536 TTTCTTTTGT
*
113187546 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
113187562 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
113187577 TATTTACTTA
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:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:113188354 original size:29 final size:29
Alignment explanation
Indices: 113188320--113188378 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
113188310 TTAGATAGTG
113188320 ATATATTAGCTCTTCTGGAGCTTTCAACT
1 ATATATTAGCTCTTCTGGAGCTTTCAACT
113188349 ATATATTAGCTCTTCTGGAGCTTTCAACT
1 ATATATTAGCTCTTCTGGAGCTTTCAACT
113188378 A
1 A
113188379 ATTTTATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (29 bp):
ATATATTAGCTCTTCTGGAGCTTTCAACT
Found at i:113195807 original size:12 final size:12
Alignment explanation
Indices: 113195790--113195816 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
113195780 AATGATTGTT
113195790 CAACTCTAAAAA
1 CAACTCTAAAAA
113195802 CAACTCTAAAAA
1 CAACTCTAAAAA
113195814 CAA
1 CAA
113195817 AAAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (12 bp):
CAACTCTAAAAA
Found at i:113197539 original size:2 final size:2
Alignment explanation
Indices: 113197532--113197577 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
113197522 ATATGAAATG
113197532 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
113197573 GA GA G
1 GA GA G
113197578 TTTAGAATGG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:113200797 original size:59 final size:59
Alignment explanation
Indices: 113200716--113200827 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
113200706 TTAAGGCTTG
* * *
113200716 AATTTTTTTTGTCTAAGTTAGGT-TCTGAATTTGACAATTATTCTCACATTGGGGTTTGA
1 AATTTTTTTTGTCTAAATTAGGTCT-TGAACTTGACAAATATTCTCACATTGGGGTTTGA
* * *
113200775 AATTTTTTTTTTCTAAATTAGGTCTTGAACTTGACAAATGTTTTCACATTGGG
1 AATTTTTTTTGTCTAAATTAGGTCTTGAACTTGACAAATATTCTCACATTGGG
113200828 ATTTCTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 45 0.98
60 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (59 bp):
AATTTTTTTTGTCTAAATTAGGTCTTGAACTTGACAAATATTCTCACATTGGGGTTTGA
Found at i:113200840 original size:59 final size:59
Alignment explanation
Indices: 113200716--113200842 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
113200706 TTAAGGCTTG
* * * * *
113200716 AATTTTTTTTGTCTAAGTTAGGTTCTGAATTTGACAATTATTCTCACATTGGGGTTTGA
1 AATTTTTTTTGTCTAAATTAGGTTCTGAACTTGACAAATATTCTCACATTGGGATTTCA
* * *
113200775 AATTTTTTTTTTCTAAATTAGG-TCTTGAACTTGACAAATGTTTTCACATTGGGATTTC-
1 AATTTTTTTTGTCTAAATTAGGTTC-TGAACTTGACAAATATTCTCACATTGGGATTTCA
*
113200833 TATTTTTTTT
1 AATTTTTTTT
113200843 ATCCAAGTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 11 0.19
59 47 0.81
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (59 bp):
AATTTTTTTTGTCTAAATTAGGTTCTGAACTTGACAAATATTCTCACATTGGGATTTCA
Found at i:113201032 original size:31 final size:31
Alignment explanation
Indices: 113200966--113201032 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
113200956 TGGTTTAAGC
* *
113200966 CCTAATATGGGAAAAGTTGCCAAGTTCAGGT
1 CCTAATATGGGAAAAATTGCCAAGTTCAGGA
* * *
113200997 CCTAATAT-GGAAACAATTGTCAAGTTTATGA
1 CCTAATATGGGAAA-AATTGCCAAGTTCAGGA
113201028 CCTAA
1 CCTAA
113201033 CTTAGACAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (31 bp):
CCTAATATGGGAAAAATTGCCAAGTTCAGGA
Found at i:113202010 original size:24 final size:24
Alignment explanation
Indices: 113201961--113202012 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
113201951 GTTTATATTA
* *
113201961 AATATCTCATATTTAATTTAATTT
1 AATATCTCATATTTAATGTAAATT
*
113201985 AATATTTCATA-TTAATAGTAAATT
1 AATATCTCATATTTAAT-GTAAATT
113202009 AATA
1 AATA
113202013 AAATACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATCTCATATTTAATGTAAATT
Found at i:113202040 original size:31 final size:29
Alignment explanation
Indices: 113201998--113202102 Score: 102
Period size: 31 Copynumber: 3.4 Consensus size: 29
113201988 ATTTCATATT
*
113201998 AATAGTAAATTAATAAAATACTATACAGATA
1 AATATTAAATTAATAAAATA-TAT-CAGATA
** * * * *
113202029 AATATTAAATTAAATTCAATATTTTATATT
1 AATATTAAATT-AATAAAATATATCAGATA
113202059 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATA-TATC-AGATA
113202090 AATATTAAATTAA
1 AATATTAAATTAA
113202103 ATTCAATATA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 7 0.12
30 16 0.28
31 28 0.48
32 7 0.12
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (29 bp):
AATATTAAATTAATAAAATATATCAGATA
Found at i:113202068 original size:61 final size:61
Alignment explanation
Indices: 113201969--113202120 Score: 225
Period size: 61 Copynumber: 2.5 Consensus size: 61
113201959 TAAATATCTC
* * *
113201969 ATATTTAATTTAATTTAATATTTCATATTAATAGTAAATTAATAAAATACTATAC-AGATAA
1 ATATTAAATTAAATTCAATATTTCATATTAATAGTAAATTAATAAAATACTAT-CTAGATAA
* * *
113202030 ATATTAAATTAAATTCAATATTTTATATTAATATTAAATTAATAAAATATTATCTAGATAA
1 ATATTAAATTAAATTCAATATTTCATATTAATAGTAAATTAATAAAATACTATCTAGATAA
*
113202091 ATATTAAATTAAATTCAATATATCATATTA
1 ATATTAAATTAAATTCAATATTTCATATTA
113202121 GTACCTAAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 1 0.01
61 81 0.99
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (61 bp):
ATATTAAATTAAATTCAATATTTCATATTAATAGTAAATTAATAAAATACTATCTAGATAA
Found at i:113204412 original size:19 final size:19
Alignment explanation
Indices: 113204362--113204412 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
113204352 TTTTGTATTT
* *
113204362 TATTTTTGGGAATTTTATA
1 TATTTTTGAGATTTTTATA
**
113204381 TATTTTTCTGATTTTTA-A
1 TATTTTTGAGATTTTTATA
113204399 TAATTTTTGAGATT
1 T-ATTTTTGAGATT
113204413 CTTTGAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (19 bp):
TATTTTTGAGATTTTTATA
Found at i:113206218 original size:2 final size:2
Alignment explanation
Indices: 113206211--113206235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113206201 TGGCATAAAA
113206211 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
113206236 TCTTGACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:113209133 original size:24 final size:24
Alignment explanation
Indices: 113209101--113209146 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
113209091 TCTTCTTTTT
* *
113209101 TATTTTTTAATATTATATATAATA
1 TATTTTTTAATAATATAAATAATA
113209125 TATTTTTTAATAATATAAATAA
1 TATTTTTTAATAATATAAATAA
113209147 ATCATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTTTTAATAATATAAATAATA
Found at i:113209398 original size:20 final size:20
Alignment explanation
Indices: 113209351--113209398 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
113209341 CAAGTAACGG
*
113209351 AATGATAATTTAAATACTAA
1 AATGAAAATTTAAATACTAA
** * *
113209371 TCTAAAAATTTAAATATTAA
1 AATGAAAATTTAAATACTAA
113209391 AATGAAAA
1 AATGAAAA
113209399 ATAGATATAA
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AATGAAAATTTAAATACTAA
Found at i:113209735 original size:14 final size:14
Alignment explanation
Indices: 113209716--113209749 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
113209706 TTTAATTATG
113209716 TAAAATTAT-AAAAT
1 TAAAATT-TGAAAAT
113209730 TAAAATTTGAAAAT
1 TAAAATTTGAAAAT
113209744 TAAAAT
1 TAAAAT
113209750 AAAGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
TAAAATTTGAAAAT
Found at i:113210132 original size:22 final size:21
Alignment explanation
Indices: 113210107--113210149 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
113210097 TGAATTAATT
113210107 AATT-ATATTATAAAAATATAAA
1 AATTCATATT-TAAAAAT-TAAA
113210129 AATTCATATTTAAAAATTAAA
1 AATTCATATTTAAAAATTAAA
113210150 GTATAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTCATATTTAAAAATTAAA
Found at i:113210573 original size:13 final size:13
Alignment explanation
Indices: 113210555--113210580 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113210545 TTATAAAAAA
113210555 AAATTTACATTTT
1 AAATTTACATTTT
113210568 AAATTTACATTTT
1 AAATTTACATTTT
113210581 TTTGTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATTTACATTTT
Found at i:113215444 original size:15 final size:15
Alignment explanation
Indices: 113215424--113215456 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
113215414 GTTGTAACTT
*
113215424 TAATAATAATGATAA
1 TAATAATAAAGATAA
113215439 TAATAATAAAGATAA
1 TAATAATAAAGATAA
113215454 TAA
1 TAA
113215457 AATGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
TAATAATAAAGATAA
Found at i:113216675 original size:43 final size:43
Alignment explanation
Indices: 113216627--113216712 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
113216617 TATGTAATTG
* *
113216627 ATATTGAAATGGAAAAGATGAGAAAAGAATGTGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAAAGAATATGAGAAGAGAAA
* * *
113216670 ATATTGAAATGGAAAATATGAGAAATGATTATGAGAAGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAAAGAATATGAGAAGAGAAA
113216713 TGAGATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAAAGAATATGAGAAGAGAAA
Found at i:113216749 original size:7 final size:7
Alignment explanation
Indices: 113216685--113216751 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
113216675 GAAATGGAAA
113216685 ATATGAG
1 ATATGAG
*
113216692 AAATGA-
1 ATATGAG
*
113216698 TTATGAG
1 ATATGAG
113216705 A-A-GAG
1 ATATGAG
*
113216710 AAATGAG
1 ATATGAG
*
113216717 ATATGAA
1 ATATGAG
113216724 ATTATGAG
1 A-TATGAG
*
113216732 AAATGAG
1 ATATGAG
*
113216739 ATATGAT
1 ATATGAG
113216746 ATATGA
1 ATATGA
113216752 AATGATGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
5 4 0.09
6 6 0.13
7 30 0.65
8 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (7 bp):
ATATGAG
Found at i:113216749 original size:29 final size:27
Alignment explanation
Indices: 113216697--113216759 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 27
113216687 ATGAGAAATG
113216697 ATTATGAGAAGAGAAATGAGATATGAA
1 ATTATGAGAAGAGAAATGAGATATGAA
* *
113216724 ATTATGAGAAATGAGATATGATATATGAA
1 ATTATGAG-AA-GAGAAATGAGATATGAA
*
113216753 ATGATGA
1 ATTATGA
113216760 ATTGAGATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 8 0.26
28 2 0.06
29 21 0.68
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (27 bp):
ATTATGAGAAGAGAAATGAGATATGAA
Found at i:113218433 original size:16 final size:16
Alignment explanation
Indices: 113218414--113218447 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
113218404 ATAAATTTAA
113218414 TTAAAATAATAATAAT
1 TTAAAATAATAATAAT
**
113218430 TTAAAATTTTAATAAT
1 TTAAAATAATAATAAT
113218446 TT
1 TT
113218448 TTAAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATAATAATAAT
Found at i:113218444 original size:19 final size:19
Alignment explanation
Indices: 113218420--113218458 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
113218410 TTAATTAAAA
113218420 TAATAATAATTTAAA-ATTT
1 TAATAAT-ATTTAAATATTT
*
113218439 TAATAATTTTTAAATATTT
1 TAATAATATTTAAATATTT
113218458 T
1 T
113218459 CTAACAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATATTTAAATATTT
Found at i:113218711 original size:3 final size:3
Alignment explanation
Indices: 113218703--113218739 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
113218693 ACAAAATGTG
113218703 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
113218740 CCCTCAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:113223339 original size:10 final size:10
Alignment explanation
Indices: 113223324--113223389 Score: 80
Period size: 10 Copynumber: 6.4 Consensus size: 10
113223314 TCCTCCTATC
113223324 CAAATTCTCT
1 CAAATTCTCT
113223334 CAAATTCTCT
1 CAAATTCTCT
113223344 CAAATTCT-T
1 CAAATTCTCT
113223353 CCAAAAATTCTCT
1 -C--AAATTCTCT
*
113223366 CATATTCTCT
1 CAAATTCTCT
*
113223376 CAAATTTTCT
1 CAAATTCTCT
113223386 CAAA
1 CAAA
113223390 GCTCTCTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.02
10 39 0.80
12 8 0.16
13 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:113223362 original size:32 final size:32
Alignment explanation
Indices: 113223325--113223389 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
113223315 CCTCCTATCC
113223325 AAATTCTCTCAAATTCTCTCAAATTCTTC-CAA
1 AAATTCTCTCAAATTCTCTCAAATT-TTCTCAA
*
113223357 AAATTCTCTCATATTCTCTCAAATTTTCTCAA
1 AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
113223389 A
1 A
113223390 GCTCTCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (32 bp):
AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
Found at i:113223379 original size:22 final size:22
Alignment explanation
Indices: 113223324--113223379 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
113223314 TCCTCCTATC
113223324 CAAATTCTCTC--AAATTCTCT
1 CAAATTCTCTCAAAAATTCTCT
113223344 CAAATTCT-TCCAAAAATTCTCT
1 CAAATTCTCT-CAAAAATTCTCT
*
113223366 CATATTCTCTCAAA
1 CAAATTCTCTCAAA
113223380 TTTTCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
22 20 0.65
23 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
CAAATTCTCTCAAAAATTCTCT
Found at i:113223591 original size:48 final size:49
Alignment explanation
Indices: 113223539--113223637 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
113223529 AGTGATAATT
**
113223539 TTAATATTTCAATAGTATTTAATA-TTTTTTTAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
* *
113223587 TTAATTTTTCAATACAATTTAATATTTTTTTTCATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
113223636 TT
1 TT
113223638 TTAATTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 21 0.46
49 25 0.54
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (49 bp):
TTAATATTTCAATACAATTTAATATTTTTTTTAATTTATGCAATTTTAA
Found at i:113224593 original size:7 final size:7
Alignment explanation
Indices: 113224581--113224613 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
113224571 TAATCGTTTC
113224581 GTATTTA
1 GTATTTA
113224588 GTATTTA
1 GTATTTA
*
113224595 ATATTTA
1 GTATTTA
113224602 GTATTTA
1 GTATTTA
113224609 GTATT
1 GTATT
113224614 ATGTATACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:113225739 original size:56 final size:56
Alignment explanation
Indices: 113225678--113225866 Score: 342
Period size: 56 Copynumber: 3.4 Consensus size: 56
113225668 TTCTTTCATT
* *
113225678 TAATAAAATAAAAGTTTTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
*
113225734 TAATAAAATAAAAGTTATTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
*
113225790 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTGCTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
113225846 TAATAAAATAAAAGTTGTTTT
1 TAATAAAATAAAAGTTGTTTT
113225867 GATAAGGAAA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 129 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
Found at i:113228219 original size:12 final size:12
Alignment explanation
Indices: 113228199--113228235 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
113228189 TAATAAAGTC
113228199 ATTTTATTAT-T
1 ATTTTATTATAT
113228210 ATTGTTATTATAT
1 ATT-TTATTATAT
113228223 ATTTTA-TATAT
1 ATTTTATTATAT
113228234 AT
1 AT
113228236 AAAGTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 10 0.42
13 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (12 bp):
ATTTTATTATAT
Found at i:113230383 original size:46 final size:46
Alignment explanation
Indices: 113230331--113230604 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
113230321 AGTGTGCTCT
* *
113230331 CTGATATGAAGTGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
113230377 CTGATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113230423 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113230469 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
113230515 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
113230561 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
113230605 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:113232936 original size:126 final size:125
Alignment explanation
Indices: 113232665--113233054 Score: 399
Period size: 126 Copynumber: 3.1 Consensus size: 125
113232655 AATAGGAACT
* * *
113232665 ACTGTAGAAAAAGAGCGTCCACGTGAGAG-TTTTTCTCAGTAATTTTGCTGAAAGTGCATACTGC
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTT-TCAGTAATTTTGCTGACAGTGCATCCTGC
* * * * ** * *
113232729 ATAAAGC-ATTTTT-GACTATTTGTTCAGAAAGGTCATCTTACAATTTTTTTTTCAGATACC
65 TTAAAGCGTTTTTTACACTATTTCTTCAGAAACTTCTTC-TAAAATTTTTTTTTCAGATACC
** * * * * * *
113232789 ACTGTATCAAAAGAGTGTCCACGTGAGAGCTTTTTTTAGTACTTTTGTTGACAGTGCATCCTACT
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * *
113232854 TAAAGCGTTTTTTACACTATTTTTTCAGAAACTTCTTCTCAAAATTATTTTCTCAGATACC
66 TAAAGCGTTTTTTACACTATTTCTTCAGAAACTTCTTCT-AAAATTTTTTTTTCAGATACC
* * ** *
113232915 ACTGTAGAAAAAAAGCGTCCACATGGGAGCAATTTTCAGTAATTTTGCTGGCAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* ** * ** * *
113232980 TGAAGCGTTTTGGATACTATTTCTTCAGTCACTTCTTCTTAAATTTTTTTTTCCAGATACT
66 TAAAGCGTTTTTTACACTATTTCTTCAGAAACTTCTTCTAAAATTTTTTTTT-CAGATACC
*
113233041 ACTGAAGAAAAAAA
1 ACTGTAGAAAAAAA
113233055 AAACCAAATA
Statistics
Matches: 217, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
124 55 0.25
125 21 0.10
126 141 0.65
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (125 bp):
ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
TAAAGCGTTTTTTACACTATTTCTTCAGAAACTTCTTCTAAAATTTTTTTTTCAGATACC
Found at i:113233851 original size:20 final size:20
Alignment explanation
Indices: 113233814--113233851 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
113233804 ATGATGGGAG
*
113233814 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
113233834 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
113233852 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:113235799 original size:46 final size:46
Alignment explanation
Indices: 113235747--113235928 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
113235737 AGTGTGCTCT
*
113235747 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
113235793 CTGATATGAAATGTGTAAGACCATGGTAGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113235839 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
113235885 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
113235929 TCATGTCAAA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:113236622 original size:12 final size:12
Alignment explanation
Indices: 113236604--113236646 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
113236594 CTAAACTAAA
113236604 ATTTAATTAATT
1 ATTTAATTAATT
*
113236616 TTTTAATTAA-T
1 ATTTAATTAATT
113236627 ATTTAATTTAATT
1 ATTTAA-TTAATT
*
113236640 AATTAAT
1 ATTTAAT
113236647 CTTACACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:113236666 original size:26 final size:26
Alignment explanation
Indices: 113236630--113236697 Score: 136
Period size: 26 Copynumber: 2.6 Consensus size: 26
113236620 AATTAATATT
113236630 TAATTTAATTAATTAATCTTACACCC
1 TAATTTAATTAATTAATCTTACACCC
113236656 TAATTTAATTAATTAATCTTACACCC
1 TAATTTAATTAATTAATCTTACACCC
113236682 TAATTTAATTAATTAA
1 TAATTTAATTAATTAA
113236698 ACCCTTACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATTTAATTAATTAATCTTACACCC
Found at i:113252228 original size:5 final size:5
Alignment explanation
Indices: 113252220--113252258 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
113252210 ATAACTTTAT
*
113252220 CCAAT CCAAC CCAAC CCAAC CCAAC CCAAC CCAAC CCAA
1 CCAAC CCAAC CCAAC CCAAC CCAAC CCAAC CCAAC CCAA
113252259 TAACCTACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.41, C:0.56, G:0.00, T:0.03
Consensus pattern (5 bp):
CCAAC
Found at i:113257250 original size:113 final size:113
Alignment explanation
Indices: 113257052--113257257 Score: 351
Period size: 113 Copynumber: 1.8 Consensus size: 113
113257042 TTGGATTTTA
*
113257052 ATTTACTCTCTTTAGAGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGTT
1 ATTTACTCTCTTTAGAGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGCT
113257117 CATTGCTGTGTGTAAATTAACCAAATTGAGGTGATTCTTGGCGCAGTT
66 CATTGCTGTGTGTAAATTAACCAAATTGAGGTGATTCTTGGCGCAGTT
* * * *
113257165 ATTTACTCTCTTTAGCA-GTGATTCTTCTGCAGTTATTTTTATTTTCTGAAGTGTCAATCATTGC
1 ATTTACTCTCTTTAG-AGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGC
113257229 TCATTGCTGTGTGTAAATTAACCAAATTG
65 TCATTGCTGTGTGTAAATTAACCAAATTG
113257258 GGGAGAAGTC
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 86 0.99
114 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (113 bp):
ATTTACTCTCTTTAGAGGTGATTCTCCTGCAGTTATTGTTATTTTCTGAAGTGACAATCATCGCT
CATTGCTGTGTGTAAATTAACCAAATTGAGGTGATTCTTGGCGCAGTT
Found at i:113267145 original size:18 final size:18
Alignment explanation
Indices: 113267122--113267179 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
113267112 CCAAGTATGA
113267122 TTATAATTTCTTATATAC
1 TTATAATTTCTTATATAC
*
113267140 TTATAA----TTAAATGA-
1 TTATAATTTCTTATAT-AC
113267154 TTATAATTTCTTATATAC
1 TTATAATTTCTTATATAC
113267172 TTATAATT
1 TTATAATT
113267180 AAAACACTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
17 1 0.03
18 19 0.59
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATAATTTCTTATATAC
Found at i:113267159 original size:32 final size:32
Alignment explanation
Indices: 113267118--113267182 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
113267108 GGGTCCAAGT
113267118 ATGATTATAATTTCTTATATACTTATAATTAA
1 ATGATTATAATTTCTTATATACTTATAATTAA
113267150 ATGATTATAATTTCTTATATACTTATAATTAA
1 ATGATTATAATTTCTTATATACTTATAATTAA
113267182 A
1 A
113267183 ACACTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (32 bp):
ATGATTATAATTTCTTATATACTTATAATTAA
Found at i:113269147 original size:2 final size:2
Alignment explanation
Indices: 113269142--113269172 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
113269132 ATTTTTTATG
113269142 TA TA TA 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 TA TA TA T
113269173 GGAAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:113270492 original size:2 final size:2
Alignment explanation
Indices: 113270485--113270512 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113270475 TAGAAATCAA
113270485 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
113270513 TAGACCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113275452 original size:3 final size:3
Alignment explanation
Indices: 113275444--113275491 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
113275434 AAAAATTTAG
113275444 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
113275492 GTTGTTGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:113279249 original size:51 final size:51
Alignment explanation
Indices: 113279171--113279382 Score: 352
Period size: 51 Copynumber: 4.2 Consensus size: 51
113279161 ATTTCTGATC
*
113279171 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
113279222 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
*
113279273 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* * * *
113279324 AGTGATAAGTGATAAGTGATAGTTTTAGATACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
113279375 AGTGATAA
1 AGTGATAA
113279383 ATGTGATCAG
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 150 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
Found at i:113279333 original size:102 final size:102
Alignment explanation
Indices: 113279171--113279385 Score: 394
Period size: 102 Copynumber: 2.1 Consensus size: 102
113279161 ATTTCTGATC
* *
113279171 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
* *
113279236 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGATAGTTTTAGATACACTTATCTGATCAGTGACA
113279273 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
113279338 AGTGATAGTTTTAGATACACTTATCTGATCAGTGACA
66 AGTGATAGTTTTAGATACACTTATCTGATCAGTGACA
113279375 AGTGATAAATG
1 AGTGATAAATG
113279386 TGATCAGTGT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 109 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
AGTGATAGTTTTAGATACACTTATCTGATCAGTGACA
Found at i:113280085 original size:12 final size:12
Alignment explanation
Indices: 113280050--113280086 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
113280040 TATTGAACAA
113280050 AAAATAAATAAA-
1 AAAATAAA-AAAT
113280062 AAAATAAAAAAT
1 AAAATAAAAAAT
113280074 AAAATAAAAAAT
1 AAAATAAAAAAT
113280086 A
1 A
113280087 CTTTTGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:113282968 original size:51 final size:51
Alignment explanation
Indices: 113282892--113283011 Score: 222
Period size: 51 Copynumber: 2.4 Consensus size: 51
113282882 AACCAAGTTA
*
113282892 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
113282943 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
*
113282994 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
113283012 TAAATTTGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAACAACAAAGTAATAAT
Found at i:113283896 original size:46 final size:46
Alignment explanation
Indices: 113283844--113284056 Score: 306
Period size: 46 Copynumber: 4.6 Consensus size: 46
113283834 GCTTTCTGAA
* *
113283844 ATGAAATGTATAAGACCATGGTTGAAAGATCCCATGGCAACATGAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
113283890 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
113283936 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
113283982 ATGAAATG-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
113284028 A-GAAAATG-AGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTA-TAAGACCATGGTTGAAAGA
113284057 CACTATGACA
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 155 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:113283915 original size:21 final size:21
Alignment explanation
Indices: 113283891--113283962 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
113283881 CAACATGATA
113283891 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* * * *
113283912 TGAAA-GATACTATGGCAACATGAT
1 TGAAATG-T-GTA-AG-ACCATGGT
113283936 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
113283958 TGAAA
1 TGAAA
113283963 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 8 0.22
23 2 0.05
24 8 0.22
25 6 0.16
26 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:113293269 original size:23 final size:23
Alignment explanation
Indices: 113293235--113293278 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
113293225 TATAAGTAGA
*
113293235 TTATTTTGTATTTAAATAATACC
1 TTATTTTATATTTAAATAATACC
113293258 TTATTTTATATTTAAATAATA
1 TTATTTTATATTTAAATAATA
113293279 AATAACAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTTATATTTAAATAATACC
Found at i:113297415 original size:33 final size:33
Alignment explanation
Indices: 113297373--113297438 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
113297363 ATGGACACAT
113297373 AAATCTATTTACACAGCTTAAAAACTTTTAATG
1 AAATCTATTTACACAGCTTAAAAACTTTTAATG
*
113297406 AAATCTATTTACACAGGTTAAAAACTTTTAATG
1 AAATCTATTTACACAGCTTAAAAACTTTTAATG
113297439 TCTTATCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (33 bp):
AAATCTATTTACACAGCTTAAAAACTTTTAATG
Found at i:113298132 original size:22 final size:22
Alignment explanation
Indices: 113298107--113298151 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
113298097 GAATTTAACT
113298107 ACTATTGTATAATGTTTTGGCA
1 ACTATTGTATAATGTTTTGGCA
113298129 ACTATTGTATAATGTTTTGGCA
1 ACTATTGTATAATGTTTTGGCA
113298151 A
1 A
113298152 TTTCATTAAT
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:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (22 bp):
ACTATTGTATAATGTTTTGGCA
Found at i:113298219 original size:3 final size:3
Alignment explanation
Indices: 113298211--113298242 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
113298201 TGGAGAGTTT
113298211 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
113298243 GAAATTGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:113301104 original size:15 final size:15
Alignment explanation
Indices: 113301084--113301113 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
113301074 TATTTTTGCA
113301084 AAAATTTCTATTGGT
1 AAAATTTCTATTGGT
113301099 AAAATTTCTATTGGT
1 AAAATTTCTATTGGT
113301114 TCGGGAGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
AAAATTTCTATTGGT
Found at i:113306433 original size:39 final size:39
Alignment explanation
Indices: 113306379--113306459 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
113306369 AAATATGGTT
*
113306379 TTAATTATTAATAAAACAAAGT-G-ACCTGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCA-C-GGGGGAGTGGGA
113306418 TTAATTAATAATAAAACAAAGTAGCACGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCACGGGGGAGTGGGA
113306457 TTA
1 TTA
113306460 GCTTTTTTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 36 0.92
40 2 0.05
41 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCACGGGGGAGTGGGA
Found at i:113310535 original size:22 final size:21
Alignment explanation
Indices: 113310510--113310575 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 21
113310500 AGAAAAGGAA
113310510 AAACTAAGGCCGAAGAAGACCT
1 AAAC-AAGGCCGAAGAAGACCT
*
113310532 AAAC-A-GCTTGAAGACAGA-CT
1 AAACAAGGC-CGAAGA-AGACCT
113310552 --ACAAGGCCGAAGAAGACCT
1 AAACAAGGCCGAAGAAGACCT
113310571 AAACA
1 AAACA
113310576 GCTTGAAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
18 5 0.14
19 10 0.29
20 10 0.29
21 6 0.17
22 4 0.11
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (21 bp):
AAACAAGGCCGAAGAAGACCT
Found at i:113310569 original size:39 final size:39
Alignment explanation
Indices: 113310515--113310595 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
113310505 AGGAAAAACT
113310515 AAGGCCGAAGAAGACCTAAACAGCTTGAAGACAGACTAC
1 AAGGCCGAAGAAGACCTAAACAGCTTGAAGACAGACTAC
113310554 AAGGCCGAAGAAGACCTAAACAGCTTGAAGACAGACTAC
1 AAGGCCGAAGAAGACCTAAACAGCTTGAAGACAGACTAC
113310593 AAG
1 AAG
113310596 AAGCTGCACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (39 bp):
AAGGCCGAAGAAGACCTAAACAGCTTGAAGACAGACTAC
Found at i:113319680 original size:87 final size:88
Alignment explanation
Indices: 113319589--113319951 Score: 558
Period size: 87 Copynumber: 4.2 Consensus size: 88
113319579 AATTCAAGAT
*
113319589 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
113319653 CAGAGAGCAGATCGAAGATAACA
66 CGGAGAGCAGATCGAAGATAACA
* * *
113319676 GATTTGGCATCTCTGTAGCTGCGGAGAGCAGATCGAA-ATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
113319740 CGGAGAGCAGATCGAAGATAACA
66 CGGAGAGCAGATCGAAGATAACA
* * * * * *
113319763 GATTTGGCGTATTTGTAGTGGCAGAGAGTAGATCGAAGAT----GATTTGGCATCTCTATAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
113319824 CGAAGAGCAGATTGAAGATAACA
66 CGGAGAGCAGATCGAAGATAACA
*
113319847 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
113319912 CGGAGAGCAGATCGAAGATAACA
66 CGGAGAGCAGATCGAAGATAACA
113319935 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
113319952 ACAGATTTGG
Statistics
Matches: 245, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
84 75 0.31
86 11 0.04
87 100 0.41
88 59 0.24
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (88 bp):
GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATAACA
Found at i:113319704 original size:44 final size:44
Alignment explanation
Indices: 113319589--113319951 Score: 558
Period size: 44 Copynumber: 8.4 Consensus size: 44
113319579 AATTCAAGAT
**
113319589 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
113319633 GATTT-GCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
113319676 GATTTGGCATCTCTGTAGCTGCGGAGAGCAGATCGAA-ATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
113319719 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
113319763 GATTTGGCGTATTTGTAGTGGCAGAGAGTAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
113319803 GATTTGGCATCTCTATAGCGGCGAAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
113319847 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
113319891 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
113319935 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
113319952 ACAGATTTGG
Statistics
Matches: 289, Mismatches: 24, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
40 31 0.11
43 83 0.29
44 175 0.61
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:113319869 original size:128 final size:128
Alignment explanation
Indices: 113319589--113319931 Score: 537
Period size: 128 Copynumber: 2.7 Consensus size: 128
113319579 AATTCAAGAT
**
113319589 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * *
113319653 CAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCTGCGGAGAGCAGATCGAAATAAC
66 CAGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAAATAAC
113319718 A
128 A
* * *
113319719 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTATTTGTAGTGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
113319784 CAGAGAGTAGATCGAAGAT-GATTTGGCATCTCTATAGCGGCGAAGAGCAGATTGAAGATAACA
66 CAGAGAGCAGATCGAAGATAGATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAA-ATAACA
113319847 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
113319912 CGGAGAGCAGATCGAAGATA
66 CAGAGAGCAGATCGAAGATA
113319932 ACAGATTTGG
Statistics
Matches: 195, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
127 33 0.17
128 85 0.44
130 47 0.24
131 30 0.15
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (128 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CAGAGAGCAGATCGAAGATAGATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAAATAACA
Found at i:113319955 original size:20 final size:20
Alignment explanation
Indices: 113319930--113319971 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
113319920 AGATCGAAGA
113319930 TAACAGATTTGGCGTCTCTG
1 TAACAGATTTGGCGTCTCTG
113319950 TAACAGATTTGGCGTCTCTG
1 TAACAGATTTGGCGTCTCTG
113319970 TA
1 TA
113319972 GCGGGAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
TAACAGATTTGGCGTCTCTG
Found at i:113319987 original size:64 final size:64
Alignment explanation
Indices: 113319886--113320017 Score: 239
Period size: 64 Copynumber: 2.1 Consensus size: 64
113319876 AGATCGAAGA
113319886 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
1 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
*
113319950 TAACAGATTTGGCGTCTCTGTAGCGG-GAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG
1 TAACAGATTTGGCGTCTCTGTAGCGGCG-GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
113320014 TAAC
1 TAAC
113320018 GGCGGAGAGC
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 1 0.02
64 65 0.98
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (64 bp):
TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
Found at i:113320026 original size:44 final size:44
Alignment explanation
Indices: 113319950--113320133 Score: 298
Period size: 44 Copynumber: 4.2 Consensus size: 44
113319940 GGCGTCTCTG
113319950 TAACAGATTTGGCGTCTCTGTAGCGG-GAGAGAGCAGATCGAAGA
1 TAACAGATTTGGCGTCTCTGTAGCGGCG-GAGAGCAGATCGAAGA
* *
113319994 TAGCAGATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCGAAGA
1 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
113320038 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
1 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
** * *
113320082 TAACAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAAA
1 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
113320126 TAACAGAT
1 TAACAGAT
113320134 CGGTGTTCCT
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 130 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
Found at i:113320031 original size:108 final size:108
Alignment explanation
Indices: 113319842--113320059 Score: 402
Period size: 108 Copynumber: 2.0 Consensus size: 108
113319832 AGATTGAAGA
113319842 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
1 TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
*
113319907 AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
66 AACGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
*
113319950 TAACAGATTTGGCGTCTCTGTAGCGG-GAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG
1 TAACAGATTTGGCGTCTCTGTAGCGGCG-GAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
113320014 TAACGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
65 TAACGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
113320058 TA
1 TA
113320060 GCGGCGGAGA
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 1 0.01
108 106 0.99
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (108 bp):
TAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGT
AACGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTG
Found at i:113320079 original size:152 final size:152
Alignment explanation
Indices: 113319803--113320103 Score: 541
Period size: 152 Copynumber: 2.0 Consensus size: 152
113319793 GATCGAAGAT
* *
113319803 GATTTGGCATCTCTATAGCGGCGAAGAGCAGATTGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
113319868 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
66 CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
113319933 CAGATTTGGCGTCTCTGTAACA
131 CAGATTTGGCGTCTCTGTAACA
* * *
113319955 GATTTGGCGTCTCTGTAGCGG-GAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAACG
1 GATTTGGCATCTCTATAGCGGCGA-AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACG
113320019 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
65 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
113320084 ACAGATTTGGCGTCTCTGTA
130 ACAGATTTGGCGTCTCTGTA
113320104 TTGGCAGAGA
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
151 2 0.01
152 141 0.99
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (152 bp):
GATTTGGCATCTCTATAGCGGCGAAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGG
CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA
CAGATTTGGCGTCTCTGTAACA
Found at i:113321603 original size:38 final size:38
Alignment explanation
Indices: 113321526--113321604 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
113321516 AAATATGGTT
*
113321526 TTAATTAATAATAAAACAAAGTGACATGAGGGTGTGGA
1 TTAATTAATAATAAAACAAAGTGACATGAGGGAGTGGA
*
113321564 TTAATTAATAATAAAAC-AAGT-AGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTGA-CATGAGGGAGT-GGA
113321602 TTA
1 TTA
113321605 GCTTTTTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 1 0.03
37 13 0.35
38 23 0.62
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (38 bp):
TTAATTAATAATAAAACAAAGTGACATGAGGGAGTGGA
Found at i:113328059 original size:14 final size:15
Alignment explanation
Indices: 113328032--113328063 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
113328022 TCTTTCTCTT
113328032 TTTCTTTCTATTTTA
1 TTTCTTTCTATTTTA
113328047 TTTCTTT-TATTTTA
1 TTTCTTTCTATTTTA
113328061 TTT
1 TTT
113328064 ATTCATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTCTATTTTA
Found at i:113328108 original size:5 final size:5
Alignment explanation
Indices: 113328094--113328152 Score: 84
Period size: 5 Copynumber: 11.8 Consensus size: 5
113328084 ATGTATTATA
* *
113328094 ATAA- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT TTACTT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT
113328144 ATAAT ATAA
1 ATAAT ATAA
113328153 GCAAACACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
4 4 0.08
5 42 0.86
6 3 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:113328342 original size:20 final size:21
Alignment explanation
Indices: 113328317--113328366 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
113328307 GTCTTTTCTC
*
113328317 CTAATTAATCTTAATTAAA-A
1 CTAATTAATCTAAATTAAACA
* *
113328337 CTAATTCA-CTAAATTAAACT
1 CTAATTAATCTAAATTAAACA
113328357 CTAATTAATC
1 CTAATTAATC
113328367 ACTCAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.38
20 14 0.58
21 1 0.04
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (21 bp):
CTAATTAATCTAAATTAAACA
Done.