Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 73 of 210
Found at i:21870011 original size:14 final size:14
Alignment explanation
Indices: 21869992--21870029 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
21869982 TAAATAAAGT
21869992 TTAGGGGTTAGTA-G
1 TTAGGGGTTAG-AGG
21870006 TTAGGGGTTAGAGG
1 TTAGGGGTTAGAGG
*
21870020 TTAGAGGTTA
1 TTAGGGGTTA
21870030 AGAGTTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:21870154 original size:7 final size:7
Alignment explanation
Indices: 21870142--21870183 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
21870132 ATTGTAAAAG
21870142 AGGGGTT
1 AGGGGTT
21870149 AGGGGTT
1 AGGGGTT
*
21870156 AAGGGTT
1 AGGGGTT
21870163 AGGGGTT
1 AGGGGTT
*
21870170 AGTGGTT
1 AGGGGTT
*
21870177 ATGGGTT
1 AGGGGTT
21870184 TACGGTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
AGGGGTT
Found at i:21870168 original size:21 final size:21
Alignment explanation
Indices: 21870142--21870183 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21870132 ATTGTAAAAG
21870142 AGGGGTTAGGGGTTAAGGGTT
1 AGGGGTTAGGGGTTAAGGGTT
* *
21870163 AGGGGTTAGTGGTTATGGGTT
1 AGGGGTTAGGGGTTAAGGGTT
21870184 TACGGTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (21 bp):
AGGGGTTAGGGGTTAAGGGTT
Found at i:21870318 original size:27 final size:29
Alignment explanation
Indices: 21870273--21870327 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
21870263 TTTATATATT
21870273 AAATAATTTATTATATAAT-TG-TAAAAG
1 AAATAATTTATTATATAATATGTTAAAAG
*
21870300 AAATAATATTATT-TTTAATATGTTAAAA
1 AAATAAT-TTATTATATAATATGTTAAAA
21870328 TTATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATAATTTATTATATAATATGTTAAAAG
Found at i:21872821 original size:14 final size:14
Alignment explanation
Indices: 21872802--21872830 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21872792 TTTTTGTAAG
21872802 TCTTATACATAATT
1 TCTTATACATAATT
21872816 TCTTATACATAATT
1 TCTTATACATAATT
21872830 T
1 T
21872831 TTTTCTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
TCTTATACATAATT
Found at i:21873999 original size:43 final size:43
Alignment explanation
Indices: 21873938--21874159 Score: 331
Period size: 43 Copynumber: 5.2 Consensus size: 43
21873928 GACCTATAGT
* * *
21873938 GGCGTTTGTGGTAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGT
1 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* *
21873981 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCCTGATCTTTAGC
1 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* * *
21874024 GGCGTTGGTCGTAGAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
*
21874067 GGCGTTTGTGAG-AAAAGCGCCGTTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTG-GTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
21874110 GGCGTTTGTGAGT-AAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTG-GTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
21874153 GGCGTTT
1 GGCGTTT
21874160 ATTTTTGAAA
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 163 0.99
44 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
Found at i:21889720 original size:41 final size:41
Alignment explanation
Indices: 21889675--21889845 Score: 193
Period size: 41 Copynumber: 4.2 Consensus size: 41
21889665 TTATACTCTG
*
21889675 AATTGCACATATGTGCCCTTGTTTGTTA-TTCGGTACCCCTA
1 AATTGCACATATGTGCCCCTGTTTG-TACTTCGGTACCCCTA
* *
21889716 AATTGTACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * * *
21889757 AATTCCACATAAGTGCCCCTATTTGTACTTCAGTACCCTTG
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * *
21889798 AACTGCACATATGTGCCCCTATTTGTACTACGATACCCC-A
1 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
*
21889838 AATAGCAC
1 AATTGCAC
21889846 TTACATTCCC
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.07
41 101 0.93
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (41 bp):
AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:21890593 original size:43 final size:43
Alignment explanation
Indices: 21890532--21890633 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
21890522 CATGGCCTAA
*
21890532 GACACGGGCGTGTGTCTTAGCTGTGTGTGACACACGACCATTC
1 GACACGGGCGTGTGTCTTAGCCGTGTGTGACACACGACCATTC
*
21890575 GACACGGGCGTGTGTCTTAGCCGTGTGTGACACATGACCATTC
1 GACACGGGCGTGTGTCTTAGCCGTGTGTGACACACGACCATTC
*
21890618 GACACGGTCGTGTGTC
1 GACACGGGCGTGTGTC
21890634 CCCTTTAGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.25
Consensus pattern (43 bp):
GACACGGGCGTGTGTCTTAGCCGTGTGTGACACACGACCATTC
Found at i:21893194 original size:22 final size:22
Alignment explanation
Indices: 21893169--21893239 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
21893159 TGGCTCGGCA
* *
21893169 CCATAGACAGAATGGCTAAAAG
1 CCATAGACAGAAAGGCTACAAG
*
21893191 CCATA-AGCAAAAAGGCTACAAG
1 CCATAGA-CAGAAAGGCTACAAG
* *
21893213 CC-TTGAACAGAACGGCTACAAG
1 CCATAG-ACAGAAAGGCTACAAG
21893235 CCATA
1 CCATA
21893240 CACTTCCTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.13
Consensus pattern (22 bp):
CCATAGACAGAAAGGCTACAAG
Found at i:21897373 original size:211 final size:211
Alignment explanation
Indices: 21897009--21897426 Score: 755
Period size: 211 Copynumber: 2.0 Consensus size: 211
21896999 GTCTATTGAA
*
21897009 TCTTCCAATAAGCAACATTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
1 TCTTCCAATAAGAAACATTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
21897074 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
66 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
* *
21897139 ATAAGTCTTTTGGCTACTTGGTTCTCTTTCTTTCCTATTTTCGTGGCCCAGAGAACTTAGCCTTT
131 ATAAGTCTTTTAGCTACTTGGTTCTCTTTCTTTCCTATTTTAGTGGCCCAGAGAACTTAGCCTTT
*
21897204 GTTTCTGTTAACTATT
196 GTTTATGTTAACTATT
*
21897220 TCTTCCAATAAGAAACCTTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
1 TCTTCCAATAAGAAACATTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
21897285 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
66 CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
* * * *
21897350 ATAAGTCTTTTAGCTTCTTGGTTCTCTTTCTTTCCTGTTTTATTGGCCTAGAGAACTTAGCCTTT
131 ATAAGTCTTTTAGCTACTTGGTTCTCTTTCTTTCCTATTTTAGTGGCCCAGAGAACTTAGCCTTT
21897415 GTTTATGTTAAC
196 GTTTATGTTAAC
21897427 ATGCTTTCCC
Statistics
Matches: 198, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
211 198 1.00
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.41
Consensus pattern (211 bp):
TCTTCCAATAAGAAACATTTTATCATATAAAGTTCCATACCTTTTCCCTTAGTGGCCAGGTAATC
CTTCCACTTTTTGCAGTTTGCCTTAAAGTACCCTTTCTTGTTGCAGGAGAAATAGTTAGACTTAG
ATAAGTCTTTTAGCTACTTGGTTCTCTTTCTTTCCTATTTTAGTGGCCCAGAGAACTTAGCCTTT
GTTTATGTTAACTATT
Found at i:21913374 original size:14 final size:15
Alignment explanation
Indices: 21913354--21913388 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21913344 CCTTTAATTA
21913354 GAAAATTAA-TTAAT
1 GAAAATTAATTTAAT
*
21913368 TAAAATTAATTTAAT
1 GAAAATTAATTTAAT
21913383 GAAAAT
1 GAAAAT
21913389 GTCTATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (15 bp):
GAAAATTAATTTAAT
Found at i:21919987 original size:27 final size:27
Alignment explanation
Indices: 21919958--21920289 Score: 335
Period size: 27 Copynumber: 12.5 Consensus size: 27
21919948 GGGTATAATA
*
21919958 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
21919985 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
21920012 GTCATTCTATCCTATG-GGGTTATTTCG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* * *
21920039 ATCATTCTATCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
21920066 ATCA-TTTACCGTAT-AGAGGTATTTCG
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
21920092 GTCA-TTTACCCTATTG-GGCTATTTCG
1 GTCATTTTACCCTA-TGAGGGTATTTCG
* *
21920118 GTCA-TTTACCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
21920144 GTCATTTTACACTATAAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
21920171 ATCA-TTTACCTTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
21920197 ATCA-TTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
**
21920223 GTCATTTTACCCTATG-GGAGTATTTTA
1 GTCATTTTACCCTATGAGG-GTATTTCG
* *
21920250 GTCATTTTATCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
21920277 GTCA-TTTACCCTA
1 GTCATTTTACCCTA
21920290 CATAGATATA
Statistics
Matches: 263, Mismatches: 31, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.01
26 118 0.45
27 138 0.52
28 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:21920153 original size:79 final size:78
Alignment explanation
Indices: 21919958--21920289 Score: 337
Period size: 79 Copynumber: 4.2 Consensus size: 78
21919948 GGGTATAATA
* * *
21919958 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTATC
1 GTCA-TTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATT-TACC
*
21920023 CTATGGGGTTATTTCG
64 CTATTGGG-TATTTCG
* * * * *
21920039 ATCATTCTATCCTATAGGGGTATTTCGATCA-TTTACCGTAT-AGAGGTATTTCGGTCATTTACC
1 GTCATT-TACCCTATAAGGGTATTTCGGTCATTTTACCCTATGAG-GGTATTTCGGTCATTTACC
21920102 CTATTGGGCTATTTCG
64 CTATTGGG-TATTTCG
* * * * * *
21920118 GTCATTTACCTTATAAGGGTATTTCGGTCATTTTACACTATAAGGGTATTTTGATCATTTACCTT
1 GTCATTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTACCCT
*
21920183 ATGAGGGTATTTCG
66 AT-TGGGTATTTCG
* ** * ** *
21920197 ATCATTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATG-GGAGTATTTTAGTCATTTTATC
1 GTCATTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGAGG-GTATTTCGGTCA-TTTACC
*
21920261 CTATAAGGGTATTTCG
64 CTAT-TGGGTATTTCG
21920277 GTCATTTACCCTA
1 GTCATTTACCCTA
21920290 CATAGATATA
Statistics
Matches: 210, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
78 22 0.10
79 104 0.50
80 62 0.30
81 22 0.10
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (78 bp):
GTCATTTACCCTATAAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGGTCATTTACCCT
ATTGGGTATTTCG
Found at i:21920818 original size:24 final size:23
Alignment explanation
Indices: 21920786--21920832 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
21920776 CAACCTCATC
*
21920786 ATATCCC-AATATTCTCTCCTCAA
1 ATATCCCAAATA-TCCCTCCTCAA
21920809 ATATCTCCAAATATCCCTCCTCAA
1 ATATC-CCAAATATCCCTCCTCAA
21920833 TTCTCTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (23 bp):
ATATCCCAAATATCCCTCCTCAA
Found at i:21928679 original size:2 final size:2
Alignment explanation
Indices: 21928672--21928701 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21928662 AAGCCAAGGC
*
21928672 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21928702 GATCCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21928987 original size:13 final size:13
Alignment explanation
Indices: 21928969--21928996 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21928959 ATTTTCGGCT
21928969 CGACTCTTAGGCC
1 CGACTCTTAGGCC
21928982 CGACTCTTAGGCC
1 CGACTCTTAGGCC
21928995 CG
1 CG
21928997 GGCCCAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.39, G:0.25, T:0.21
Consensus pattern (13 bp):
CGACTCTTAGGCC
Found at i:21941265 original size:16 final size:17
Alignment explanation
Indices: 21941246--21941278 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21941236 CCAAAAAAAG
*
21941246 AATCT-GCCAAACCACA
1 AATCTCGCCAAAACACA
21941262 AATCTCGCCAAAACACA
1 AATCTCGCCAAAACACA
21941279 GATTTTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.36, G:0.06, T:0.12
Consensus pattern (17 bp):
AATCTCGCCAAAACACA
Found at i:21947580 original size:16 final size:15
Alignment explanation
Indices: 21947553--21947586 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21947543 ATAACTAGTA
*
21947553 TATAATTATATTTAT
1 TATAATTATATTAAT
21947568 TATAATATATATTAAT
1 TATAAT-TATATTAAT
21947584 TAT
1 TAT
21947587 TATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:21960126 original size:14 final size:14
Alignment explanation
Indices: 21960107--21960133 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21960097 AAGATAGGGT
21960107 TTTCTAAAATTTAA
1 TTTCTAAAATTTAA
21960121 TTTCTAAAATTTA
1 TTTCTAAAATTTA
21960134 GGTTACGCAA
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTCTAAAATTTAA
Found at i:21961827 original size:18 final size:19
Alignment explanation
Indices: 21961804--21961852 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
21961794 GCAAACATAT
*
21961804 AATAAAAAG-AAATCAATA
1 AATAAAAAGTAAATCAACA
*
21961822 AAT-AAAAGTAAATGAACA
1 AATAAAAAGTAAATCAACA
*
21961840 AATAAAAATTAAA
1 AATAAAAAGTAAA
21961853 GCACCTAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 5 0.19
18 13 0.50
19 8 0.31
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (19 bp):
AATAAAAAGTAAATCAACA
Found at i:21962372 original size:14 final size:14
Alignment explanation
Indices: 21962354--21962394 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
21962344 ATATATACGC
21962354 ATATATATAAACAATT
1 ATATA-ATAAA-AATT
*
21962370 ATATAATAAAAATA
1 ATATAATAAAAATT
21962384 ATATAATAAAA
1 ATATAATAAAA
21962395 CATATATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 14 0.58
15 5 0.21
16 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATAATAAAAATT
Found at i:21962401 original size:14 final size:13
Alignment explanation
Indices: 21962354--21962493 Score: 57
Period size: 12 Copynumber: 11.0 Consensus size: 13
21962344 ATATATACGC
21962354 ATATAT-ATAAACA
1 ATATATAATAAA-A
21962367 ATTATATAATAAAA
1 A-TATATAATAAAA
21962381 ATAATATAATAAAA
1 AT-ATATAATAAAA
*
21962395 CATATATATCTAAAA
1 -ATATATA-ATAAAA
* * *
21962410 CTTTCATAA-GAAA
1 ATAT-ATAATAAAA
*
21962423 ATAGA-AATAAAA
1 ATATATAATAAAA
* *
21962435 A-A-ATAACAATA
1 ATATATAATAAAA
21962446 ATAT-TAAT--AA
1 ATATATAATAAAA
*
21962456 ATATACTAATAACA
1 ATATA-TAATAAAA
* *
21962470 ACA-ATAATAATA
1 ATATATAATAAAA
21962482 ATA-ATAATAAAA
1 ATATATAATAAAA
21962494 TTGCTAAATA
Statistics
Matches: 95, Mismatches: 18, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
10 6 0.06
11 9 0.09
12 30 0.32
13 7 0.07
14 28 0.29
15 15 0.16
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (13 bp):
ATATATAATAAAA
Found at i:21962448 original size:3 final size:3
Alignment explanation
Indices: 21962436--21962491 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
21962426 GAAATAAAAA
* * * * *
21962436 AAT AAC AAT AAT ATT AAT AA- ATAT ACT AAT AAC AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
21962481 AAT AAT AAT AA
1 AAT AAT AAT AA
21962492 AATTGCTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:21962457 original size:27 final size:27
Alignment explanation
Indices: 21962427--21962482 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
21962417 AAGAAAATAG
* *
21962427 AAATAAAAAAATAACAATAATATTAAT
1 AAATAAAAAAATAACAACAATAATAAT
* **
21962454 AAATATACTAATAACAACAATAATAAT
1 AAATAAAAAAATAACAACAATAATAAT
21962481 AA
1 AA
21962483 TAATAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (27 bp):
AAATAAAAAAATAACAACAATAATAAT
Found at i:21969448 original size:16 final size:16
Alignment explanation
Indices: 21969427--21969459 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21969417 ATCGCACACC
*
21969427 ACATGTATTTTTGCTG
1 ACATGTATTCTTGCTG
21969443 ACATGTATTCTTGCTG
1 ACATGTATTCTTGCTG
21969459 A
1 A
21969460 TGTGGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.45
Consensus pattern (16 bp):
ACATGTATTCTTGCTG
Found at i:21971936 original size:13 final size:12
Alignment explanation
Indices: 21971916--21971941 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21971906 AATCTTTCAG
21971916 AATTTTTTTTAA
1 AATTTTTTTTAA
21971928 AATTTTTTTTAA
1 AATTTTTTTTAA
21971940 AA
1 AA
21971942 CTATTGGCTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTTTTTTAA
Found at i:21987746 original size:23 final size:22
Alignment explanation
Indices: 21987703--21987746 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
21987693 TTCTAAGTCG
21987703 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
21987726 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
21987747 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:21987859 original size:45 final size:45
Alignment explanation
Indices: 21987791--21987884 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
21987781 AACAGATACT
* * * *
21987791 CGGTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAACAACCACCTTAATAATCAATGATGTC
*
21987836 CGGTGGAATCAGCACATAACAACCACCTTAATAATCAATGATGTT
1 CGGTGGAATCAGCACATAACAACCACCTTAATAATCAATGATGTC
21987881 CGGT
1 CGGT
21987885 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTAATAATCAATGATGTC
Found at i:21989920 original size:4 final size:4
Alignment explanation
Indices: 21989911--21989936 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21989901 TATTATTTAG
21989911 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
21989937 TCACGAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:21996212 original size:31 final size:31
Alignment explanation
Indices: 21996110--21996213 Score: 79
Period size: 31 Copynumber: 3.4 Consensus size: 31
21996100 TCTTCAAATG
* * *
21996110 TTTTGAAAA-TTTTATTTAGA-CCTCTTAAATT
1 TTTTGAAAATTTTTAATTAAATCCT-TTAAA-A
* * * ** *
21996141 TTTTTAAAAATTTTAATTAAGTTATATAATAA
1 TTTTGAAAATTTTTAATTAAATCCTTTAA-AA
21996173 TTTT-AAAATTTTTAATTAAATCCTTTAAAA
1 TTTTGAAAATTTTTAATTAAATCCTTTAAAA
21996203 TTTTGAAAATT
1 TTTTGAAAATT
21996214 CTCTTTAATT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
30 6 0.11
31 33 0.59
32 15 0.27
33 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (31 bp):
TTTTGAAAATTTTTAATTAAATCCTTTAAAA
Found at i:22004178 original size:17 final size:17
Alignment explanation
Indices: 22004156--22004191 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22004146 AAATAATTAA
22004156 TATTTTAATTTGATTTT
1 TATTTTAATTTGATTTT
22004173 TATTTTAATTTGATTTT
1 TATTTTAATTTGATTTT
22004190 TA
1 TA
22004192 AATAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TATTTTAATTTGATTTT
Found at i:22006575 original size:29 final size:30
Alignment explanation
Indices: 22006518--22006575 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22006508 ATTTTACGAG
* *
22006518 TCTAGGGGAAAAATCGTAATTTTGTCAAAC
1 TCTAGGGAAAAAATCGTAATTTTGCCAAAC
22006548 TCTAGGGAAAAAAT-GTAAATTTT-CCAAA
1 TCTAGGGAAAAAATCGT-AATTTTGCCAAA
22006576 GTGTGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (30 bp):
TCTAGGGAAAAAATCGTAATTTTGCCAAAC
Found at i:22006925 original size:101 final size:102
Alignment explanation
Indices: 22006809--22006993 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
22006799 AAACTGATGG
* *
22006809 TCACGTGTGTAGTACTATGTGCAGGCTCCTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
22006872 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
22006910 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
22006975 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
22006994 TGAACCGATA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:22006935 original size:51 final size:49
Alignment explanation
Indices: 22006806--22007000 Score: 221
Period size: 51 Copynumber: 3.9 Consensus size: 49
22006796 GTGAAACTGA
* * *
22006806 TGGTCACGTGTGTAGTACTATGTGCAGGCTCCTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-T
* * * *
22006856 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * *
22006906 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
* *
22006956 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
22007001 ATATCTTTGA
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
50 41 0.34
51 79 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:22006995 original size:26 final size:26
Alignment explanation
Indices: 22006915--22006995 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
22006905 TTCGATCACG
22006915 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
22006941 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
22006966 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
22006992 TGTG
1 TGTG
22006996 AACCGATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:22007053 original size:26 final size:26
Alignment explanation
Indices: 22007019--22007068 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
22007009 GAATATAAAG
22007019 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
*
22007045 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
22007069 GATTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:22007084 original size:33 final size:33
Alignment explanation
Indices: 22007047--22007171 Score: 117
Period size: 33 Copynumber: 3.5 Consensus size: 33
22007037 TTCCCCAAGG
*
22007047 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
22007080 GGTTGCTAAGTGCTGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
* *
22007117 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
22007156 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
22007172 ATCGACCGAT
Statistics
Matches: 77, Mismatches: 3, Indels: 24
0.74 0.03 0.23
Matches are distributed among these distances:
33 36 0.47
34 9 0.12
37 2 0.03
39 2 0.03
42 8 0.10
43 20 0.26
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:22014457 original size:31 final size:31
Alignment explanation
Indices: 22014419--22014479 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
22014409 ACCAAGCAAG
*
22014419 ATAGTTACTCCTATCAAGCTTTATGAGACTA
1 ATAGTTACTCCTATCAAGCTTTACGAGACTA
22014450 ATAGTTACTCCTATCAAGCTTTACGAGACT
1 ATAGTTACTCCTATCAAGCTTTACGAGACT
22014480 GACTTGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (31 bp):
ATAGTTACTCCTATCAAGCTTTACGAGACTA
Found at i:22019906 original size:33 final size:35
Alignment explanation
Indices: 22019864--22019932 Score: 115
Period size: 33 Copynumber: 2.0 Consensus size: 35
22019854 TGTTAATGTT
*
22019864 AAAATTTAAATTAAATTCATAAT-AAAAAACTAAC
1 AAAATTTAAATTAAATTAATAATAAAAAAACTAAC
22019898 AAAA-TTAAATTAAATTAATAATAAAAAAACTAAC
1 AAAATTTAAATTAAATTAATAATAAAAAAACTAAC
22019932 A
1 A
22019933 TTTAAAAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (35 bp):
AAAATTTAAATTAAATTAATAATAAAAAAACTAAC
Found at i:22027138 original size:17 final size:17
Alignment explanation
Indices: 22027116--22027168 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
22027106 TTTATTTGGG
22027116 TTTTATTTTATAAATTA
1 TTTTATTTTATAAATTA
*
22027133 TTTTA-TTTATGAATTA
1 TTTTATTTTATAAATTA
*
22027149 TTTTCATTTTA-AAAATA
1 TTTT-ATTTTATAAATTA
22027166 TTT
1 TTT
22027169 GAATTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 14 0.45
17 13 0.42
18 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTATTTTATAAATTA
Found at i:22030212 original size:13 final size:13
Alignment explanation
Indices: 22030189--22030219 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22030179 CATTTATTGC
22030189 GAAAA-CGTCTTT
1 GAAAACCGTCTTT
22030201 GAAAACCGTCTTT
1 GAAAACCGTCTTT
22030214 GAAAAC
1 GAAAAC
22030220 GGTTACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (13 bp):
GAAAACCGTCTTT
Found at i:22034343 original size:51 final size:49
Alignment explanation
Indices: 22034213--22034392 Score: 191
Period size: 51 Copynumber: 3.6 Consensus size: 49
22034203 AAAGTGATAG
* * * *
22034213 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-TTGA
* * * *
22034263 TCGCATTTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TT-GA
* *
22034314 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TGA
* *
22034365 CCACATGTTTAGTACTATGTGCAGGCTA
1 TCACATGTGTAGTACTATGTGCAGGCTA
22034393 TTATGTGAAC
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 39 0.36
51 68 0.63
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTGA
Found at i:22034474 original size:46 final size:43
Alignment explanation
Indices: 22034401--22034485 Score: 107
Period size: 46 Copynumber: 1.9 Consensus size: 43
22034391 TATTATGTGA
* *
22034401 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCCATGTGCTGATCCC
* *
22034444 ACCGGATATCATTGATTACAAAGGGTGGTTGCCGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCCATGTGCTGA
22034486 ATCCATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 17 0.49
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCCATGTGCTGATCCC
Found at i:22034644 original size:16 final size:16
Alignment explanation
Indices: 22034623--22034654 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22034613 TGATTGAAAG
*
22034623 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
22034639 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
22034655 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:22037028 original size:33 final size:32
Alignment explanation
Indices: 22036991--22037063 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
22036981 TCTAATTTTC
22036991 TTTTTTACATAATTAAATATTTCTTATTTTGAA
1 TTTTTTACATAATTAAATATTT-TTATTTTGAA
** *
22037024 TTTTTTAGTTAATTAAATATTTTTATTTTTAA
1 TTTTTTACATAATTAAATATTTTTATTTTGAA
22037056 TATTTTTA
1 T-TTTTTA
22037064 TTTACCTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 10 0.28
33 26 0.72
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (32 bp):
TTTTTTACATAATTAAATATTTTTATTTTGAA
Found at i:22037059 original size:15 final size:15
Alignment explanation
Indices: 22037003--22037066 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
22036993 TTTTACATAA
22037003 TTAAATATTTCTTATT
1 TTAAATATTT-TTATT
*
22037019 TTGAAT-TTTTTAGTT
1 TTAAATATTTTTA-TT
22037034 AATTAAATATTTTTATT
1 --TTAAATATTTTTATT
*
22037051 TTTAATATTTTTATT
1 TTAAATATTTTTATT
22037066 T
1 T
22037067 ACCTTGTCGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.07
15 20 0.49
16 5 0.12
17 7 0.17
18 6 0.15
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (15 bp):
TTAAATATTTTTATT
Found at i:22037726 original size:12 final size:12
Alignment explanation
Indices: 22037705--22037749 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
22037695 TCCAATTAAC
*
22037705 ATAGATGTAGAT
1 ATAGAAGTAGAT
22037717 ATAGAAGTAGAT
1 ATAGAAGTAGAT
* *
22037729 GTAGTAGTAGAT
1 ATAGAAGTAGAT
*
22037741 GTAGAAGTA
1 ATAGAAGTA
22037750 AAATTAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (12 bp):
ATAGAAGTAGAT
Found at i:22037729 original size:18 final size:18
Alignment explanation
Indices: 22037706--22037745 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22037696 CCAATTAACA
22037706 TAGATGTAGATA-TAGAAG
1 TAGATGTAG-TAGTAGAAG
*
22037724 TAGATGTAGTAGTAGATG
1 TAGATGTAGTAGTAGAAG
22037742 TAGA
1 TAGA
22037746 AGTAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (18 bp):
TAGATGTAGTAGTAGAAG
Found at i:22045508 original size:4 final size:4
Alignment explanation
Indices: 22045499--22045555 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
22045489 TAATAGAACT
*
22045499 AGTA AGTA AGTT AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA AGTA
22045547 AGTA AGTA A
1 AGTA AGTA A
22045556 TAATAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.26
Consensus pattern (4 bp):
AGTA
Found at i:22045608 original size:3 final size:3
Alignment explanation
Indices: 22045553--22045594 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22045543 AGTAAGTAAG
22045553 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22045595 AAGGCTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22045642 original size:23 final size:23
Alignment explanation
Indices: 22045553--22045642 Score: 55
Period size: 21 Copynumber: 3.9 Consensus size: 23
22045543 AGTAAGTAAG
*
22045553 TAATAATAATAATAAT-AAT-AA-
1 TAATAATAAAAAT-ATCAATAAAC
*
22045574 TAATAATAATAATAAT-AATAAAAGGC
1 TAATAATAAAAAT-ATCAAT-AAA--C
*
22045600 TAATAATAAAAATATTAATAAAC
1 TAATAATAAAAATATCAATAAAC
*
22045623 TAATATTAAACAA-ATCAATA
1 TAATAATAAA-AATATCAATA
22045643 GAAAACAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
21 19 0.32
23 18 0.31
24 2 0.03
25 5 0.08
26 15 0.25
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (23 bp):
TAATAATAAAAATATCAATAAAC
Found at i:22051105 original size:48 final size:48
Alignment explanation
Indices: 22051051--22051144 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
22051041 TTCCTAGGCT
22051051 TTTTGACCTAGTAATGTAAACCCACCTGATTCGAGTTTTCTATTTCCC
1 TTTTGACCTAGTAATGTAAACCCACCTGATTCGAGTTTTCTATTTCCC
*
22051099 TTTTGACCTAGTAATGTAAGCCCACCTGATTCGAGTTTTCTATTTC
1 TTTTGACCTAGTAATGTAAACCCACCTGATTCGAGTTTTCTATTTC
22051145 TCAAAATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (48 bp):
TTTTGACCTAGTAATGTAAACCCACCTGATTCGAGTTTTCTATTTCCC
Found at i:22051227 original size:26 final size:26
Alignment explanation
Indices: 22051198--22051262 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
22051188 CTTACCCACA
*
22051198 GTAAAATTTTGATGATTTTA-CCATCG
1 GTAAAATTTTGACGATTTTATCCAT-G
* *
22051224 GTAAATTTTTTGACGATTTTATGCATG
1 GTAAA-ATTTTGACGATTTTATCCATG
22051251 GTAAAATTTTGA
1 GTAAAATTTTGA
22051263 GAAAATATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.33
27 19 0.58
28 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.45
Consensus pattern (26 bp):
GTAAAATTTTGACGATTTTATCCATG
Found at i:22052802 original size:27 final size:27
Alignment explanation
Indices: 22052769--22052993 Score: 308
Period size: 27 Copynumber: 8.3 Consensus size: 27
22052759 TACCCTCGAT
*
22052769 GGGTAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* * *
22052796 GGATAAAATGACCGTAA-CCCCCTTATA
1 GGGTAAAATGACCGTAATGCCCC-TGTA
* * *
22052823 GGGTAAAATGACTGTAATGCTCCTATA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* **
22052850 GAGTAAAATGAAAGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
22052877 GGGTAAAATGACTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
* *
22052904 GGGTAAAATAATCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
*
22052931 GGGTAAAATGACCGTAATGCCCATGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
22052958 GGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTGTA
22052985 GGGTAAAAT
1 GGGTAAAAT
22052994 AACTATTTTT
Statistics
Matches: 175, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.02
27 168 0.96
28 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTGTA
Found at i:22053090 original size:24 final size:24
Alignment explanation
Indices: 22053013--22053123 Score: 107
Period size: 24 Copynumber: 4.6 Consensus size: 24
22053003 TCCCCTCGGG
* *
22053013 TTTAAATGATTGATTT-TCCTATGA
1 TTTAAATGACTGATTTGT-CTGTGA
* * **
22053037 TGTAAATGAATGATTTGTCTCAGA
1 TTTAAATGACTGATTTGTCTGTGA
*
22053061 TGTAAATGACTGATTTGTCTGTGA
1 TTTAAATGACTGATTTGTCTGTGA
* *
22053085 TTTAAATAACTGATTTATCTGTGA
1 TTTAAATGACTGATTTGTCTGTGA
**
22053109 TTTGTATGACTGATT
1 TTTAAATGACTGATT
22053124 CTGTGCATGG
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
24 72 0.99
25 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (24 bp):
TTTAAATGACTGATTTGTCTGTGA
Found at i:22053336 original size:32 final size:32
Alignment explanation
Indices: 22053295--22053466 Score: 166
Period size: 32 Copynumber: 5.4 Consensus size: 32
22053285 ACAACGGTGC
* * *
22053295 TACTAATGGCTTTGTATCGATCATAGTACTGT
1 TACTGATGGCTTTGTACCGATCATATTACTGT
* *
22053327 TACTAATGGCTTTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTACCGATCATATTACTGT
* * * *
22053359 TACCGATGGCTGTGTGCCGATCATTTTACTGT
1 TACTGATGGCTTTGTACCGATCATATTACTGT
* * * **
22053391 TACTGATGGCTGTGTACTGATCATATCACTAC
1 TACTGATGGCTTTGTACCGATCATATTACTGT
* * * *
22053423 TACTGATGGCTTTGTTCCAATTACATTACTG-
1 TACTGATGGCTTTGTACCGATCATATTACTGT
*
22053454 TACTTATGGCTTT
1 TACTGATGGCTTT
22053467 TGGCCGTTCT
Statistics
Matches: 115, Mismatches: 25, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
31 12 0.10
32 103 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTACCGATCATATTACTGT
Found at i:22057518 original size:39 final size:39
Alignment explanation
Indices: 22057475--22057577 Score: 118
Period size: 39 Copynumber: 2.7 Consensus size: 39
22057465 CATCCTTTTT
** *
22057475 AGTATTGTGATATATGCTTGAACGTTATGCGATTATATG
1 AGTATTGTGATATATGCTTGAAAATTATGCAATTATATG
* * * *
22057514 AGTATTGCGATATGTGCTTGAAAATTATGTAATTATATT
1 AGTATTGTGATATATGCTTGAAAATTATGCAATTATATG
* *
22057553 TGTAATGTGATATATGCTT-AAAATT
1 AGTATTGTGATATATGCTTGAAAATT
22057578 TAATATGTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
38 6 0.11
39 47 0.89
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTGAAAATTATGCAATTATATG
Found at i:22060381 original size:57 final size:58
Alignment explanation
Indices: 22060282--22060390 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
22060272 AATAGAAATG
*
22060282 GTGAAAATGGAGAAATGAGAAACATTTGGAAATGATTATGGTTTTCTCTAAATTGGAA
1 GTGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCTAAATTGGAA
* * * *
22060340 GTGAAAATTGAGAAATG-GGATCATTTGGAAATGAATGTGGTTTTCTCTAAA
1 GTGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCTAAA
22060391 ATGAAAATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 30 0.65
58 16 0.35
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (58 bp):
GTGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCTAAATTGGAA
Found at i:22060402 original size:57 final size:58
Alignment explanation
Indices: 22060283--22060403 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 58
22060273 ATAGAAATGG
* * * *
22060283 TGAAAATGGAGAAATGAGAAACATTTGGAAATGATTATGGTTTTCTCTAAATTGGAAG
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCTAAAATGAAAA
* * * *
22060341 TGAAAATTGAGAAATG-GGATCATTTGGAAATGAATGTGGTTTTCTCTAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCTAAAATGAAAA
22060398 TGAAAA
1 TGAAAA
22060404 AGAAAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 40 0.73
58 15 0.27
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCTAAAATGAAAA
Found at i:22061665 original size:17 final size:17
Alignment explanation
Indices: 22061639--22061686 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
22061629 TCAGATTTTG
22061639 ATACCCATATCTTTCTA
1 ATACCCATATCTTTCTA
* *
22061656 ATACCTATATCTTTCTG
1 ATACCCATATCTTTCTA
22061673 ATACCCATATCTTT
1 ATACCCATATCTTT
22061687 GACTTTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (17 bp):
ATACCCATATCTTTCTA
Found at i:22066251 original size:17 final size:17
Alignment explanation
Indices: 22066229--22066261 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22066219 TCTCAGATTT
22066229 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
22066246 TGATACCCATATCTTT
1 TGATACCCATATCTTT
22066262 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:22075189 original size:20 final size:19
Alignment explanation
Indices: 22075143--22075180 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22075133 TTTATTTTTC
*
22075143 ATATCTAATTTGACCCAAA
1 ATATTTAATTTGACCCAAA
22075162 ATATTTAATTT-ACCCAAA
1 ATATTTAATTTGACCCAAA
22075180 A
1 A
22075181 ATTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATTTAATTTGACCCAAA
Found at i:22085192 original size:12 final size:12
Alignment explanation
Indices: 22085170--22085198 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22085160 TTATTAATGG
22085170 TGAAT-AATATT
1 TGAATGAATATT
22085181 TGAATGAATATT
1 TGAATGAATATT
22085193 TGAATG
1 TGAATG
22085199 TGCTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Found at i:22087453 original size:81 final size:80
Alignment explanation
Indices: 22087351--22087556 Score: 268
Period size: 72 Copynumber: 2.6 Consensus size: 80
22087341 TTTGAGTACT
* * *
22087351 TCTGATCAAGAGATAAAGTGATAAGTGGTAGATTTAGCTACACTTATCTGATCAACTG-AAACGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG--TTAGCTACACTTATCTGATCAACTGAAAAAGT
22087415 GATAAGTGTTATACTTA
64 GATAAGTGTTATACTTA
* *
22087432 TCTGATCAAGTGAAAAAGTGATAA---GT-GTTA--T--ACTTATTTGATCAAGTGAAAAAGTGA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGTTAGCTACACTTATCTGATCAACTGAAAAAGTGA
22087489 TAAGTGTTATACTTA
66 TAAGTGTTATACTTA
*
22087504 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-TTAGCTACACTTATCTGATCA
22087557 GGGACAAATG
Statistics
Matches: 108, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
71 15 0.14
72 45 0.42
73 1 0.01
75 5 0.05
76 1 0.01
77 4 0.04
78 2 0.02
79 1 0.01
81 34 0.31
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (80 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGTTAGCTACACTTATCTGATCAACTGAAAAAGTGA
TAAGTGTTATACTTA
Found at i:22087460 original size:36 final size:36
Alignment explanation
Indices: 22087392--22087530 Score: 235
Period size: 36 Copynumber: 3.9 Consensus size: 36
22087382 ATTTAGCTAC
* *
22087392 ACTTATCTGATCAACTG-AAACGTGATAAGTGTTAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
22087427 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
*
22087463 ACTTATTTGATCAAGTGAAAAAGTGATAAGTGTTAT
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
*
22087499 ACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 ACTTATCTGATCAAGTGAAAAAGTGATAAGTG
22087531 GTAGCTTAGC
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
35 16 0.16
36 82 0.84
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (36 bp):
ACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTAT
Found at i:22105075 original size:11 final size:11
Alignment explanation
Indices: 22105059--22105083 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22105049 AGTTTATGAG
22105059 ATTCGTTGATT
1 ATTCGTTGATT
22105070 ATTCGTTGATT
1 ATTCGTTGATT
22105081 ATT
1 ATT
22105084 GCTCAGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTCGTTGATT
Found at i:22107534 original size:30 final size:31
Alignment explanation
Indices: 22107498--22107555 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
22107488 ATGAATGGAA
22107498 CAAGATTTTTAAAT-AAAAAAGTAAAATTTC
1 CAAGATTTTTAAATAAAAAAAGTAAAATTTC
22107528 CAAGATTTTTAAATAAAAAAAGTAAAAT
1 CAAGATTTTTAAATAAAAAAAGTAAAAT
22107556 GACTCAGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (31 bp):
CAAGATTTTTAAATAAAAAAAGTAAAATTTC
Found at i:22126349 original size:44 final size:44
Alignment explanation
Indices: 22126295--22126532 Score: 230
Period size: 44 Copynumber: 5.2 Consensus size: 44
22126285 AGTGTAAGGA
*
22126295 AGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGG
* *
22126339 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGG
* ** *
22126383 AGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G--G
* *
22126432 ATCACGTCAGATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGTGG
1 ---A-G-CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGG
* *
22126481 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGG
*
22126525 AGCGGATT
1 AGCAGATT
22126533 AAAATAAAGG
Statistics
Matches: 158, Mismatches: 20, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 113 0.72
45 1 0.01
46 1 0.01
47 1 0.01
49 2 0.01
51 1 0.01
52 1 0.01
53 1 0.01
54 25 0.16
55 4 0.03
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGG
Found at i:22126520 original size:98 final size:97
Alignment explanation
Indices: 22126341--22126522 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 97
22126331 TACAGTGGAG
* * * * * *
22126341 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCAGAGATTACAGTGGAGCAGATTAAAAT-AAGAATCCT
*
22126406 ATCTCTCTGAAGTTACAGTAGAGTAGATCACGT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCACGT
* **
22126439 CAGATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCAGAGATTACAGTGGAGCAGATT-AAAATAAG-AATCC
22126503 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
22126523 GGAGCGGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
97 4 0.06
98 64 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCAGAGATTACAGTGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCACGT
Found at i:22126551 original size:44 final size:42
Alignment explanation
Indices: 22126455--22126610 Score: 129
Period size: 44 Copynumber: 3.6 Consensus size: 42
22126445 GAAGCCAGAA
* ** *
22126455 ATCTTATCTCCCAGAGATTACAGTGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAG-G
* *
22126499 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT--AGG
* * * * *
22126543 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCACATCAGG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AGG
*
22126585 -TCTTATCTCCCTGATATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
22126611 ATAGATCGAA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 22 0.24
42 4 0.04
43 8 0.09
44 56 0.61
45 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (42 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAGG
Found at i:22126553 original size:142 final size:142
Alignment explanation
Indices: 22126297--22126583 Score: 556
Period size: 142 Copynumber: 2.0 Consensus size: 142
22126287 TGTAAGGAAG
*
22126297 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
22126362 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
22126427 AGTAGATCACGT
131 AGTAGATCACAT
22126439 CAGATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
22126504 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
22126569 AGTAGATCACAT
131 AGTAGATCACAT
22126581 CAG
1 CAG
22126584 GTCTTATCTC
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 143 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCAGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCACAT
Found at i:22140987 original size:17 final size:16
Alignment explanation
Indices: 22140967--22140998 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
22140957 CTGTTTTCAT
22140967 TTTCTTTTACTTTTATG
1 TTTCTTTT-CTTTTATG
22140984 TTTCTTTTCTTTTAT
1 TTTCTTTTCTTTTAT
22140999 TCATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTCTTTTCTTTTATG
Found at i:22142877 original size:6 final size:6
Alignment explanation
Indices: 22142868--22142893 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22142858 CACTCACAGA
22142868 AGCATC AGCATC AGCATC AGCATC AG
1 AGCATC AGCATC AGCATC AGCATC AG
22142894 TTTGCACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (6 bp):
AGCATC
Found at i:22152330 original size:15 final size:15
Alignment explanation
Indices: 22152302--22152348 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
22152292 TTTATATTAT
*
22152302 TATA-ATTGTGTGTA
1 TATATATTGTATGTA
22152316 TATATATTGTATGTA
1 TATATATTGTATGTA
* *
22152331 TATATATTATATGCA
1 TATATATTGTATGTA
22152346 TAT
1 TAT
22152349 CAATGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (15 bp):
TATATATTGTATGTA
Found at i:22153574 original size:2 final size:2
Alignment explanation
Indices: 22153561--22153593 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22153551 TTTGGGATAA
*
22153561 AT AT AT AC 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 AT AT A
22153594 CTATTAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:22158780 original size:13 final size:13
Alignment explanation
Indices: 22158762--22158809 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
22158752 TTCTACCATA
22158762 TTGGACCACCCCC
1 TTGGACCACCCCC
*
22158775 TTGGACCACCCCA
1 TTGGACCACCCCC
22158788 TTGGACC-CCTCCC
1 TTGGACCACC-CCC
*
22158801 TTGAACCAC
1 TTGGACCAC
22158810 TCTCTTGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 2 0.07
13 27 0.90
14 1 0.03
ACGTcount: A:0.19, C:0.48, G:0.15, T:0.19
Consensus pattern (13 bp):
TTGGACCACCCCC
Found at i:22160692 original size:33 final size:33
Alignment explanation
Indices: 22160650--22160721 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
22160640 GAACACTTTT
22160650 TCAAAAATTGATTTGACAGTGAAAATGCCTTAG
1 TCAAAAATTGATTTGACAGTGAAAATGCCTTAG
22160683 TCAAAAATTGATTTGACAGTGAAAATGCCTTAG
1 TCAAAAATTGATTTGACAGTGAAAATGCCTTAG
*
22160716 CCAAAA
1 TCAAAA
22160722 TTCCCAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (33 bp):
TCAAAAATTGATTTGACAGTGAAAATGCCTTAG
Found at i:22165455 original size:226 final size:226
Alignment explanation
Indices: 22165061--22165480 Score: 786
Period size: 226 Copynumber: 1.9 Consensus size: 226
22165051 TAGGGGAAAT
22165061 AGTAATTTTTCCAAAAATATGGGTTGGACTAAATTGAATATGAATTATGTTGAATTGATTTAAAT
1 AGTAATTTTTCCAAAAATATGGGTTGGACTAAATTGAATATGAATTATGTTGAATTGATTTAAAT
*
22165126 TCATTCGTATAGATCCGGTTAGACCTCGTACAGAGTTAGATCGGGGAAAAGGAAAAATATCAGAT
66 TCATTCGTATAGATCCGGTTAGACCTCATACAGAGTTAGATCGGGGAAAAGGAAAAATATCAGAT
22165191 TAGTCGCCTTCGTATCTACATACACTCGTTGAGGTAAGTTTGTGTAATTAAATTGTGTAAGTATC
131 TAGTCGCCTTCGTATCTACATACACTCGTTGAGGTAAGTTTGTGTAATTAAATTGTGTAAGTATC
22165256 TACGTAAAATCGTATCTACGTACACTCGTTG
196 TACGTAAAATCGTATCTACGTACACTCGTTG
* *
22165287 AGTAATTTTTCCAAAAATGTGTGTTGGACTAAATTGAATATGAATTATGTTGAATTGATTTAAAT
1 AGTAATTTTTCCAAAAATATGGGTTGGACTAAATTGAATATGAATTATGTTGAATTGATTTAAAT
* *
22165352 TCATTCGTATAGATTCGGTTAGACCTCATACGGAGTTAGATCGGGGAAAAGGAAAAATATCAGAT
66 TCATTCGTATAGATCCGGTTAGACCTCATACAGAGTTAGATCGGGGAAAAGGAAAAATATCAGAT
*
22165417 TAGTCGCCTTCGTATCTACGTACACTCGTTGAGGTAAGTTTGTGTAATTAAATTGTGTAAGTAT
131 TAGTCGCCTTCGTATCTACATACACTCGTTGAGGTAAGTTTGTGTAATTAAATTGTGTAAGTAT
22165481 GTGATTTGTT
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
226 188 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (226 bp):
AGTAATTTTTCCAAAAATATGGGTTGGACTAAATTGAATATGAATTATGTTGAATTGATTTAAAT
TCATTCGTATAGATCCGGTTAGACCTCATACAGAGTTAGATCGGGGAAAAGGAAAAATATCAGAT
TAGTCGCCTTCGTATCTACATACACTCGTTGAGGTAAGTTTGTGTAATTAAATTGTGTAAGTATC
TACGTAAAATCGTATCTACGTACACTCGTTG
Found at i:22166067 original size:17 final size:17
Alignment explanation
Indices: 22166045--22166078 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22166035 TTATTGATTC
*
22166045 GGAAGCTCGTTCGAGTT
1 GGAAGCTCGTTAGAGTT
*
22166062 GGAAGCTTGTTAGAGTT
1 GGAAGCTCGTTAGAGTT
22166079 ATATCACACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.32
Consensus pattern (17 bp):
GGAAGCTCGTTAGAGTT
Found at i:22170627 original size:12 final size:11
Alignment explanation
Indices: 22170601--22170646 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
22170591 AACTAAATCC
22170601 TTTCTCTC-AA
1 TTTCTCTCTAA
22170611 TTTCTCTCTAA
1 TTTCTCTCTAA
22170622 TATTCTCTCTAA
1 T-TTCTCTCTAA
* *
22170634 TTACTCTCAAA
1 TTTCTCTCTAA
22170645 TT
1 TT
22170647 CCTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 8 0.25
11 13 0.41
12 11 0.34
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTCTCTCTAA
Found at i:22175477 original size:125 final size:124
Alignment explanation
Indices: 22175322--22175857 Score: 921
Period size: 124 Copynumber: 4.3 Consensus size: 124
22175312 CCCAAACATG
22175322 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCA-AATATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAA-ATTCTTCTGATAAAGCATCCTG
*
22175386 CTTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGC-GTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
22175447 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTTTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
22175512 TTGAAGCGTTTTTGTACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
22175571 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
22175636 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* **
22175696 CTACTGTATCAAAAATGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
22175761 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTGTTTTTTCAGGAT
66 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
22175820 CTACTGTATCAAAAACGCGTCCATGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
22175858 CTTAATAAAT
Statistics
Matches: 394, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
124 205 0.52
125 187 0.47
126 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:22175760 original size:249 final size:249
Alignment explanation
Indices: 22175322--22175857 Score: 939
Period size: 249 Copynumber: 2.2 Consensus size: 249
22175312 CCCAAACATG
22175322 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAATATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAATATTCTTCTGATAAAGCATCCTGC
22175387 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
* *
22175452 GTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTTTTCTGATAAAGCATCCTGCTTGAA
131 GTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAA
*
22175517 GCGTTTTTGTACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
196 GCGTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
22175571 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAA-ATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCA-AATATTCTTCTGATAAAGCATCCTG
*
22175635 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTAC
65 CTTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTAC
* * *
22175700 TGTATCAAAAATGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
130 TGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGA
* * *
22175765 AGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTGTTTTTTCAGGAT
195 AGCGTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
22175820 CTACTGTATCAAAAACGCGTCCATGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
22175858 CTTAATAAAT
Statistics
Matches: 273, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
249 271 0.99
250 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAATATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACT
GTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAA
GCGTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:22176768 original size:16 final size:15
Alignment explanation
Indices: 22176749--22176798 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
22176739 AGCAATTTAA
22176749 TTTTTTTTCTTTTATT
1 TTTTTTTTCTTTT-TT
** *
22176765 TTTTTTAACTTTCCTT
1 TTTTTTTTCTTT-TTT
22176781 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
22176796 TTT
1 TTT
22176799 CATTCTCTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:22187526 original size:29 final size:29
Alignment explanation
Indices: 22187484--22187581 Score: 124
Period size: 29 Copynumber: 3.2 Consensus size: 29
22187474 GTGAACCATG
* *
22187484 ATATGTGAACCCTAGAATTATGCGAGCCT
1 ATATGTGGACCCTAGAATTAGGCGAGCCT
* *
22187513 ATATGTGGACCCTAGGATTAGGTGAGCCT
1 ATATGTGGACCCTAGAATTAGGCGAGCCT
22187542 ATATGTATGTGACCCCTAGAATTAGGCGAGCCT
1 ATATG--TG-GA-CCCTAGAATTAGGCGAGCCT
22187575 ATATGTG
1 ATATGTG
22187582 AAACCTAGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
29 30 0.51
31 4 0.07
32 2 0.03
33 23 0.39
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (29 bp):
ATATGTGGACCCTAGAATTAGGCGAGCCT
Found at i:22187559 original size:33 final size:32
Alignment explanation
Indices: 22187485--22187580 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 32
22187475 TGAACCATGA
*
22187485 TATGTGAACCCTAGAATTATGCGAGCCTATATG
1 TATGTG-ACCCTAGAATTAGGCGAGCCTATATG
* *
22187518 --TG-GACCCTAGGATTAGGTGAGCCTATATG
1 TATGTGACCCTAGAATTAGGCGAGCCTATATG
22187547 TATGTGACCCCTAGAATTAGGCGAGCCTATATG
1 TATGTGA-CCCTAGAATTAGGCGAGCCTATATG
22187580 T
1 T
22187581 GAAACCTAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
29 23 0.43
30 1 0.02
31 4 0.07
32 2 0.04
33 24 0.44
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (32 bp):
TATGTGACCCTAGAATTAGGCGAGCCTATATG
Found at i:22187603 original size:62 final size:62
Alignment explanation
Indices: 22187485--22187604 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
22187475 TGAACCATGA
* * * ** **
22187485 TATGTGAACCCTAGAATTATGCGAGCCTATATGTGGACCCTAGGATTAGGTGAGCCTATATG
1 TATGTGAACCCTAGAATTAGGCGAGCCTATATGTGAAACCTAGGAACAGGCAAGCCTATATG
* *
22187547 TATGTGACCCCTAGAATTAGGCGAGCCTATATGTGAAACCTAGGAACATGCAAGCCTA
1 TATGTGAACCCTAGAATTAGGCGAGCCTATATGTGAAACCTAGGAACAGGCAAGCCTA
22187605 CATGCGAACC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 49 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (62 bp):
TATGTGAACCCTAGAATTAGGCGAGCCTATATGTGAAACCTAGGAACAGGCAAGCCTATATG
Found at i:22187663 original size:29 final size:29
Alignment explanation
Indices: 22187569--22187696 Score: 112
Period size: 29 Copynumber: 4.4 Consensus size: 29
22187559 AGAATTAGGC
* * *
22187569 GAGCCTATATGTGAAACCTAGGAACATGC
1 GAGCCTATATGCGAACCCTAGGAACATGT
* * * *
22187598 AAGCCTACATGCGAACCCTAGGAAAATAT
1 GAGCCTATATGCGAACCCTAGGAACATGT
** * *
22187627 GAATCTATGTGCGAACCCTAGGAACTTGT
1 GAGCCTATATGCGAACCCTAGGAACATGT
* ** *
22187656 GAGCCTATATGCGATCCCTAGGTTCATGC
1 GAGCCTATATGCGAACCCTAGGAACATGT
*
22187685 AAGCCTATATGC
1 GAGCCTATATGC
22187697 CATGCGAACC
Statistics
Matches: 75, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (29 bp):
GAGCCTATATGCGAACCCTAGGAACATGT
Found at i:22187718 original size:34 final size:35
Alignment explanation
Indices: 22187664--22187740 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
22187654 GTGAGCCTAT
* * * *
22187664 ATGCGATCCCTAGGTTCATGCAAGCCTATATG-CC
1 ATGCGAACCCGAGGTACATGCAAGCATATATGACC
* *
22187698 ATGCGAACCCGAGGTACATGCGAGCATATATGATC
1 ATGCGAACCCGAGGTACATGCAAGCATATATGACC
22187733 ATGCGAAC
1 ATGCGAAC
22187741 TTGTAAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 27 0.75
35 9 0.25
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (35 bp):
ATGCGAACCCGAGGTACATGCAAGCATATATGACC
Found at i:22206892 original size:7 final size:7
Alignment explanation
Indices: 22206882--22206906 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22206872 ATAGTATTTA
22206882 GTATTAT
1 GTATTAT
22206889 GTATTAT
1 GTATTAT
22206896 GTATTAT
1 GTATTAT
22206903 GTAT
1 GTAT
22206907 ATAACTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:22206892 original size:14 final size:15
Alignment explanation
Indices: 22206875--22206906 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22206865 CCGGTATATA
22206875 GTATTTA-GTATTAT
1 GTATTTATGTATTAT
22206889 GTA-TTATGTATTAT
1 GTATTTATGTATTAT
22206903 GTAT
1 GTAT
22206907 ATAACTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.19
14 13 0.81
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (15 bp):
GTATTTATGTATTAT
Found at i:22208117 original size:26 final size:25
Alignment explanation
Indices: 22208061--22208118 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
22208051 TATTTTGATA
22208061 TTATTTGATATAATAAAATAGAAAT
1 TTATTTGATATAATAAAATAGAAAT
* * *
22208086 TCTATTTGATGTAATAAAAATCGTAAT
1 T-TATTTGATATAAT-AAAATAGAAAT
22208113 TTATTT
1 TTATTT
22208119 CATACCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 17 0.61
27 10 0.36
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (25 bp):
TTATTTGATATAATAAAATAGAAAT
Found at i:22208157 original size:29 final size:29
Alignment explanation
Indices: 22208122--22208604 Score: 675
Period size: 29 Copynumber: 17.4 Consensus size: 29
22208112 TTTATTTCAT
* *
22208122 ACCCTAACCCTAACTTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208151 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
* *
22208180 ACTCTAACTTTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208209 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208238 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208267 ACCCTAACATTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208296 ACCCTAACCCTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
22208324 ACCCTAACCTTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
22208352 ACCCTAACCTTAACCTAATTTAATT-AAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208380 ACCCTAACCTTAACCTAATTTAATTAGAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208409 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208438 ACCCTAACCTTAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208467 A--C---CC-TAACCTAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208490 ACCCTAACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208519 ACCCTAAACTTAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
22208548 A--C---CC-TAACCTAATTTAATTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
*
22208571 ACCCTAA-C-T----TAATTTATTTAAAA
1 ACCCTAACCTTAACCTAATTTAATTAAAA
22208594 ACCCTAACCTT
1 ACCCTAACCTT
22208605 TTATGTCGAA
Statistics
Matches: 417, Mismatches: 23, Indels: 32
0.88 0.05 0.07
Matches are distributed among these distances:
23 60 0.14
24 4 0.01
25 3 0.01
27 4 0.01
28 85 0.20
29 261 0.63
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (29 bp):
ACCCTAACCTTAACCTAATTTAATTAAAA
Found at i:22208576 original size:18 final size:20
Alignment explanation
Indices: 22208531--22208596 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 20
22208521 CCTAAACTTA
22208531 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
22208552 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
* *
22208575 TAACTTAATTTATTTAAAAACC
1 --ACCTAATTTAATTAAAAACC
22208597 CTAACCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 2 0.05
23 39 0.95
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:22210849 original size:7 final size:7
Alignment explanation
Indices: 22210837--22210864 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22210827 ACAATATGTA
22210837 AGAGACT
1 AGAGACT
22210844 AGAGACT
1 AGAGACT
22210851 AGAGACT
1 AGAGACT
22210858 AGAGACT
1 AGAGACT
22210865 TAGACTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (7 bp):
AGAGACT
Found at i:22215293 original size:18 final size:18
Alignment explanation
Indices: 22215270--22215304 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22215260 AAGCCTTTAA
*
22215270 AAAAATGTATATATATTT
1 AAAAATGCATATATATTT
*
22215288 AAAAATGCGTATATATT
1 AAAAATGCATATATATT
22215305 ATATATTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (18 bp):
AAAAATGCATATATATTT
Found at i:22216918 original size:6 final size:6
Alignment explanation
Indices: 22216899--22216943 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
22216889 TCTACATTAA
* *
22216899 TTCATT TCTCATT TTCATT TTCATT TTCATT CTAATT TTCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TT
22216944 GGATAAAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:22218553 original size:39 final size:37
Alignment explanation
Indices: 22218486--22218619 Score: 101
Period size: 39 Copynumber: 3.5 Consensus size: 37
22218476 ACCAGAATGG
*
22218486 CACCCAGTGTCTCATCGG-ATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGTCTCATCGGCA-AG-CCGAAG-AATAGTTGA
* *
22218525 CACCCAGTGTCTCATCGGCCAAGCCGAAGTA-AGTTGG
1 CACCCAGTGTCTCATCGG-CAAGCCGAAGAATAGTTGA
* ** * * *
22218562 TACCCAGTACCTCATCGAATCTATCCGAAGTAATAGTATGA
1 CACCCAGTGTCTCATCG--GCAAGCCGAAG-AATAGT-TGA
22218603 CACCCAGTGTCTCATCG
1 CACCCAGTGTCTCATCG
22218620 ACTCAAGGTC
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
37 19 0.26
38 9 0.12
39 24 0.32
40 5 0.07
41 17 0.23
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (37 bp):
CACCCAGTGTCTCATCGGCAAGCCGAAGAATAGTTGA
Found at i:22219693 original size:27 final size:26
Alignment explanation
Indices: 22219656--22219711 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
22219646 AATCCCAAAA
* *
22219656 TTTCTTTCTTTCCTTCCCT-TTTTCTT
1 TTTCTTTCTTT-CTCCCCTGTTTTCGT
22219682 TTTCTTTCCTTTCTCCCCTGTTTTCGT
1 TTTCTTT-CTTTCTCCCCTGTTTTCGT
22219709 TTT
1 TTT
22219712 GCTATTCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTCTTTCTTTCTCCCCTGTTTTCGT
Found at i:22227515 original size:20 final size:20
Alignment explanation
Indices: 22227490--22227527 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22227480 AATTTTTTAA
*
22227490 ATATAAAAATTTTAAAAAAT
1 ATATAAAAATATTAAAAAAT
22227510 ATATAAAAATATTAAAAA
1 ATATAAAAATATTAAAAA
22227528 CTTTAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAAAAATATTAAAAAAT
Found at i:22227519 original size:28 final size:27
Alignment explanation
Indices: 22227488--22227554 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
22227478 TTAATTTTTT
*
22227488 AAATATAAAAATTTTAAAAAATATATAA
1 AAATATAAAAACTTTAAAAAATATA-AA
*
22227516 AAATATTAAAAACTTTAAAAAGTATAAA
1 AAATA-TAAAAACTTTAAAAAATATAAA
* *
22227544 TATTATAAAAA
1 AAATATAAAAA
22227555 AATATTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.18
28 10 0.29
29 18 0.53
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (27 bp):
AAATATAAAAACTTTAAAAAATATAAA
Found at i:22227543 original size:9 final size:9
Alignment explanation
Indices: 22227488--22227555 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
22227478 TTAATTTTTT
22227488 AAATATAAA
1 AAATATAAA
* *
22227497 AATTTTAAA
1 AAATATAAA
22227506 AAATATATAA
1 AAATATA-AA
22227516 AAATATTAAA
1 AAATA-TAAA
* *
22227526 AACTTTAAA
1 AAATATAAA
*
22227535 AAGTATAAA
1 AAATATAAA
* *
22227544 TATTATAAA
1 AAATATAAA
22227553 AAA
1 AAA
22227556 ATATTTTTAA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
9 31 0.69
10 12 0.27
11 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
AAATATAAA
Found at i:22230686 original size:21 final size:21
Alignment explanation
Indices: 22230647--22230701 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
22230637 TCAAGAAATC
*
22230647 TTTAACGAAACTTTAAAGTAAG
1 TTTAA-GAACCTTTAAAGTAAG
*
22230669 TTTAAGAACCTTTTAAGTAAG
1 TTTAAGAACCTTTAAAGTAAG
*
22230690 TTTAGGAACCTT
1 TTTAAGAACCTT
22230702 CTAATCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (21 bp):
TTTAAGAACCTTTAAAGTAAG
Found at i:22235103 original size:21 final size:20
Alignment explanation
Indices: 22235079--22235117 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22235069 CTTTCCTTCA
*
22235079 CATAAAATATTTAAAAAAATT
1 CATAAAAT-TCTAAAAAAATT
22235100 CATAAAATTCTAAAAAAA
1 CATAAAATTCTAAAAAAA
22235118 AAAAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
CATAAAATTCTAAAAAAATT
Found at i:22238756 original size:249 final size:249
Alignment explanation
Indices: 22238318--22239066 Score: 1498
Period size: 249 Copynumber: 3.0 Consensus size: 249
22238308 GGAGGTATGA
22238318 AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
1 AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
22238383 GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
66 GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
22238448 AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
131 AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
22238513 AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
196 AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
22238567 AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
1 AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
22238632 GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
66 GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
22238697 AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
131 AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
22238762 AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
196 AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
22238816 AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
1 AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
22238881 GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
66 GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
22238946 AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
131 AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
22239011 AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
196 AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
22239065 AG
1 AG
22239067 TAGATAACTT
Statistics
Matches: 500, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 500 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (249 bp):
AGGGACGGGGGTTATACAGTTAAAAGTGGGTACAAGCTACTTTTACATGAAAAATTATAGAACTT
GGGAGCCAGCCCTGCCCGAATAACAAAAGCTATTACAACATTCTAAATAGAATTGTGGGCGCTAC
AAATACCAGGGAAAATCAAGATAGCAATGTGAAGAATGTATAATGATTTCCTTCCTACGTATGTT
AATCTAAACAAACGAAACAAACACATTCCTAATGTTTGCCCTTTGTGTGAAAAT
Found at i:22240665 original size:19 final size:20
Alignment explanation
Indices: 22240623--22240686 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
22240613 TTTTTATAAC
*
22240623 TTTTTAATAAG-TTTTATTT
1 TTTTTAATTAGTTTTTATTT
*
22240642 ATTTTAATT-GTTTTTATTT
1 TTTTTAATTAGTTTTTATTT
*
22240661 TTTTT--TTAGTTTTATATCT
1 TTTTTAATTAGTTTT-TATTT
22240680 TTTTTAA
1 TTTTTAA
22240687 ATTCTATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.06
18 6 0.17
19 28 0.78
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTTTAATTAGTTTTTATTT
Found at i:22240810 original size:17 final size:18
Alignment explanation
Indices: 22240788--22240832 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
22240778 ATAATTTTTC
22240788 TAAATTTTTGTA-ATATT
1 TAAATTTTTGTATATATT
* *
22240805 TAAATTTTTTTATATTTT
1 TAAATTTTTGTATATATT
22240823 TATAATTTTT
1 TA-AATTTTT
22240833 AAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 6 0.25
19 7 0.29
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TAAATTTTTGTATATATT
Found at i:22240830 original size:9 final size:9
Alignment explanation
Indices: 22240752--22240846 Score: 70
Period size: 9 Copynumber: 10.6 Consensus size: 9
22240742 TAACATATTA
22240752 ATAATATTTT
1 ATAAT-TTTT
* *
22240762 ATAATATTC
1 ATAATTTTT
22240771 AT--TTTTT
1 ATAATTTTT
22240778 ATAATTTTT
1 ATAATTTTT
*
22240787 CTAAATTTTT
1 AT-AATTTTT
* *
22240797 GTAATATTT
1 ATAATTTTT
22240806 A-AATTTTT
1 ATAATTTTT
*
22240814 TTATATTTTT
1 ATA-ATTTTT
22240824 ATAATTTTT
1 ATAATTTTT
* *
22240833 AAAAATTTT
1 ATAATTTTT
22240842 ATAAT
1 ATAAT
22240847 ATGTTAATAA
Statistics
Matches: 65, Mismatches: 15, Indels: 11
0.71 0.16 0.12
Matches are distributed among these distances:
7 5 0.08
8 6 0.09
9 33 0.51
10 21 0.32
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:22240902 original size:30 final size:31
Alignment explanation
Indices: 22240868--22240954 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 31
22240858 TGTTATGCTT
22240868 AAATAATTAAAAATCAATTAAACA-CTTCTA
1 AAATAATTAAAAATCAATTAAACACCTTCTA
*
22240898 AAATAATTTTAAAAAAAATCAATT-AACACCTTGTA
1 AAATAA--TT---AAAAATCAATTAAACACCTTCTA
22240933 AAATAATTAAAAATCAATTAAA
1 AAATAATTAAAAATCAATTAAA
22240955 TCCTCCGTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
30 17 0.35
31 2 0.04
32 2 0.04
33 2 0.04
34 4 0.08
35 22 0.45
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATAATTAAAAATCAATTAAACACCTTCTA
Found at i:22241560 original size:3 final size:3
Alignment explanation
Indices: 22241552--22241580 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22241542 TTTGGCTTTA
22241552 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22241581 GCTTAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22242816 original size:3 final size:3
Alignment explanation
Indices: 22242808--22242867 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
22242798 CGCGGTAAGT
* * *
22242808 ATA ATA ATA AAA ATA TATA AT- ATA ATG ATA ATA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22242852 ATA CAGTA ATA ATA AT
1 ATA -A-TA ATA ATA AT
22242868 GTAATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 36 0.78
4 5 0.11
5 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22244557 original size:6 final size:6
Alignment explanation
Indices: 22244548--22244581 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
22244538 TATTTGAATT
22244548 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
22244582 ATAACGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:22244617 original size:24 final size:24
Alignment explanation
Indices: 22244590--22244638 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22244580 TTATAACGAA
22244590 AGCATTCATCATTTGAACAAAAAC
1 AGCATTCATCATTTGAACAAAAAC
22244614 AGCATTCATCATTTGAACAAAAAC
1 AGCATTCATCATTTGAACAAAAAC
22244638 A
1 A
22244639 AGTTTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.24
Consensus pattern (24 bp):
AGCATTCATCATTTGAACAAAAAC
Found at i:22248323 original size:217 final size:217
Alignment explanation
Indices: 22247669--22249389 Score: 1855
Period size: 217 Copynumber: 7.9 Consensus size: 217
22247659 TTTTAGGGAT
* * * * * * *
22247669 ATGAGTGACAACCTTGAAAGGTCAACTGGTA-TTATGATCAACGTACGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAA-GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * ** * *
22247733 AATAAGCATTTTGATTTTTTGGTTTTTGTGACTTTTGCATTAATAAAAGTGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * **
22247798 GTGATTGAGTATTTAAGCGATATGACAATTATTAACTTTTCCACATATTTATTGTCGGCTTGTTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
* *
22247863 GTGAGCAGCCATAACATTGGGAAC
195 GTGA-CAGTCATAACGTTGGGAAC
* * * * * *
22247887 ATGAGTGACGACCTTGAAAGATCAATTGGTACTTATGATTAGCATACGTTGGGAACATGCGTGGT
1 ATGAGTGACGACCTTGAAAG-TCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * * * * * * * * * *
22247952 AATAAGCGTTTTAATTTTTTGGGTTTTGCGACTTTTTCATGAATAAATGTGATACACGTTTCTAA
65 AATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * *
22248017 GTGACTGAGTA-TGAAGCAATGTGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
* *
22248081 GTGAACAGTCAGAACATTGGGAAC
195 GTG-ACAGTCATAACGTTGGGAAC
** *
22248105 ATGAGTGATAACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTA
1 ATGAGTGACGACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGTA
** * * ** * ** *
22248170 ATAAGTGTTTTGATTTTCAGGGATTTACGACTTTTTCATTAATAAATGTGATACACATTTTCATG
66 ATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCATG
** * * * * *
22248235 TGACCGAGTATTGAAGCGACACGACAATTATTAACTTTAT-CTCGTATTTATTGTCGATTTGCTA
131 TGATTGAGTATTGAAGCGATATGACAATCATTAACTTT-TCCTCATATTTATTGTCGATTTGTTA
* * * *
22248299 GTGATAGTTATAACATTAGGAAC
195 GTGACAGTCATAACGTTGGGAAC
** * * **
22248322 ATGAGTGGTGACTTTGAAAGTCAACT-AGTACTTATAATTAACATATGTTAGGAACATGCATGGT
1 ATGAGTGACGACCTTGAAAGTCAATTGA-TACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * * * *
22248386 AATAAACTTTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * * * *
22248451 GTGATTGAATACTAAAGCAAT-TCGACAATCATTAACTTTTGCACATACTTATTGTCGATTTGTT
130 GTGATTGAGTATTGAAGCGATAT-GACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTT
* *
22248515 AGTAAGCAGCCATAACGTTGGGAAC
194 AGTGA-CAGTCATAACGTTGGGAAC
* * * * * * **
22248540 ATGA-TGACGACCTTGAAAGGTCAATTGGTATTTATGATTAGCATACGTTGGGAACATACGTGGT
1 ATGAGTGACGACCTTGAAA-GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * * * * *
22248604 AATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAATGCGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * * ** *
22248669 ATGATTGATTATAGAAGCGATGTGACAATCATTAAATTTTCCTTGTATTTATTTTCGATTTGTTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
*
22248734 GTGA-ATGGTCAGAACGTTGGGAAC
195 GTGACA--GTCATAACGTTGGGAAC
* * * * *
22248758 ATGAGTAACCACCTTGAAAGTTAATTGGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
1 ATGAGTGACGACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGTA
* * * * * *
22248823 ACAAGCGTTCTGATTTTTTGGGATTTGTAACTTTTGCGTTAATAAATGTGATGCACAT-TTT-CA
66 ATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGAT--ACATGTTTCCA
* * * *
22248886 TGTGATTGAGTATTGAATCGATAT-AGCAATCATTAACTTTTCCTCACATTTATTGTTGATTTGC
129 TGTGATTGAGTATTGAAGCGATATGA-CAATCATTAACTTTTCCTCATATTTATTGTCGATTTGT
*
22248950 TAGTGACCGTCATAACGTTGGGAAC
193 TAGTGACAGTCATAACGTTGGGAAC
* **
22248975 ATGAGTGACGACCTTGAAAGTCAACT-AGTACTTATAATTAATGTATGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAAGTCAATTGA-TACTTATAATTAACATATGTTAGGAACATGTGTGGT
* * * *
22249039 AATAAGCATTCTGATTTTCGGGGATTTGTGCCTTTTACATTAATGAATGTGATACATGTTTTCAT
65 AATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * *
22249104 GAGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTATTGATTTGCTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
*
22249169 GTGACAGTTATAACGTTGGGAAC
195 GTGACAGTCATAACGTTGGGAAC
* * *
22249192 ATGAGTGACGACCTTGAAAGTCAAAT-AGTACTTATAATTAACGTATGTTAGGAACATGTGTGAT
1 ATGAGTGACGACCTTGAAAGTCAATTGA-TACTTATAATTAACATATGTTAGGAACATGTGTGGT
* *
22249256 AATAAGCATTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCAT
65 AATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCAT
* * * * * * * *
22249321 GTGATTGAATATTGAAGTGATATGACAATCATTAACTTTTGCACATACTTATTATCGGTTTGGTA
130 GTGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTA
22249386 GTGA
195 GTGA
22249390 ACAGACGTAA
Statistics
Matches: 1275, Mismatches: 205, Indels: 47
0.83 0.13 0.03
Matches are distributed among these distances:
215 4 0.00
216 6 0.00
217 673 0.53
218 477 0.37
219 111 0.09
220 4 0.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (217 bp):
ATGAGTGACGACCTTGAAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGTGGTA
ATAAGCATTCTGATTTTCTGGGATTTGTGACTTTTACATTAATAAATGTGATACATGTTTCCATG
TGATTGAGTATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTGTCGATTTGTTAG
TGACAGTCATAACGTTGGGAAC
Found at i:22248923 original size:653 final size:653
Alignment explanation
Indices: 22247669--22249393 Score: 2217
Period size: 653 Copynumber: 2.6 Consensus size: 653
22247659 TTTTAGGGAT
* * * * *
22247669 ATGAGTGACAACCTTGAAAGGTCAACTGGTA-TTATGATCAACGTACGTTAGGAACATGTGTGGT
1 ATGAGTGACGACCTTGAAA-GTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGT
** ** * * *
22247733 AATAAGCATTT-TGATTTTTTGGTTTTTGTGACTTTTGCATTAATAAAAGTGATACATGTTTCCA
65 AATAAGC-TTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCA
* * * **
22247797 TGTGATTGAGTATTTAAGCGATATGACAATTATTAACTTTTCCACATATTTATTGTCGGCTTGTT
129 TGTGATTGAATATTAAAGCGATATGACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTT
* *
22247862 AGTGAGCAGCCATAACATTGGGAACATGAGTGACGACCTTGAAAGATCAATTGGTACTTATGATT
194 AGTGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATT
* * *
22247927 AGCATACGTTGGGAACATGCGTGGTAATAAGCGTTTTAATTTTTTGGGTTTTGCGACTTTTTCAT
259 AGCATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACAT
* * * * * *
22247992 GAATAAATGTGATACACGTTTCTA-AGTGACTGAGTATGAAGCAATGTGACAATCATTAACTTTT
324 TAATAAATGTGATACATGTTTCCATA-TGATTGAATATGAAGCGATGTGACAATCATTAACTTTT
* *
22248056 CCTCATATTTATTGTCGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTGATAACCTTG
388 CCTCATATTTATTGTCGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTAACAACCTTG
* * *
22248121 AAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGTGTTTTGATTT
453 AAAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAACAAGCGTTCTGATTT
* *
22248186 TCAGGGATTTACGACTTTTTCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAG
518 TCAGGGATTTACAACTTTTGCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAG
* * ** * *
22248251 CGACACGACAATTATTAACTTTAT-CTCGTATTTATTGTCGATTTGCTAGTGATAGTTATAACAT
583 CGACAAGACAATCATTAACTTT-TCCTCACATTTATTGTCGATTTGCTAGTGACAGTCATAACAT
22248315 TAGGAAC
647 TAGGAAC
** * * **
22248322 ATGAGTGGTGACTTTGAAAGTCAACTAGTACTTATAATTAACATATGTTAGGAACATGCATGGTA
1 ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
* *
22248387 ATAAACTTTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCCATG
66 ATAAGCTTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCATG
* * * *
22248452 TGATTGAATACTAAAGCAAT-TCGACAATCATTAACTTTTGCACATACTTATTGTCGATTTGTTA
131 TGATTGAATATTAAAGCGATAT-GACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTTA
* *
22248516 GTAAGCAGCCATAACGTTGGGAACATGA-TGACGACCTTGAAAGGTCAATTGGTATTTATGATTA
195 GTGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTA
* *
22248580 GCATACGTTGGGAACATACGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATT
260 GCATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACATT
* * *
22248645 AATAAATGCGATACATGTTTCCATATGATTGATTATAGAAGCGATGTGACAATCATTAAATTTTC
325 AATAAATGTGATACATGTTTCCATATGATTGAATAT-GAAGCGATGTGACAATCATTAACTTTTC
** * ** * *
22248710 CTTGTATTTATTTTCGATTTGTTAGTGAATGGTCAGAACGTTGGGAACATGAGTAACCACCTTGA
389 CTCATATTTATTGTCGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTAACAACCTTGA
* * * *
22248775 AAGTTAATTGGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTAACAAGCGTTCTGATTTT
454 AAGTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAACAAGCGTTCTGATTTT
** ** * * ** *
22248840 TTGGGATTTGTAACTTTTGCGTTAATAAATGTGATGCACATTTTCATGTGATTGAGTATTGAATC
519 CAGGGATTTACAACTTTTGCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAGC
* * * *
22248905 GATATAG-CAATCATTAACTTTTCCTCACATTTATTGTTGATTTGCTAGTGACCGTCATAACGTT
584 GACA-AGACAATCATTAACTTTTCCTCACATTTATTGTCGATTTGCTAGTGACAGTCATAACATT
*
22248969 GGGAAC
648 AGGAAC
*
22248975 ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAATGTATGTTAGGAACATGTGTGGTA
1 ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
* * * *
22249040 ATAAGCATTCTGATTTTCGGGGATTTGTGCCTTTTACATTAATGAATGTGATACATGTTTTCATG
66 ATAAGCTTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCATG
* * * * * *
22249105 AGATTGAATATTGAAGCGATATGACAATCATTAACTTTTCCTCATATTTATTATTGATTTGCTAG
131 TGATTGAATATTAAAGCGATATGACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTTAG
** * * * *
22249170 TGA-CAGTTATAACGTTGGGAACATGAGTGACGACCTTGAAA-GTCAAATAGTACTTATAATTAA
196 TGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTAG
* * * * * * ** * *
22249233 CGTATGTTAGGAACATGTGTGATAATAAGCATTCTGATTTTCAGGGATTTGTGACTTTTACATTA
261 CATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACATTA
* * * * *
22249298 ATGAATGTGATACATGTTTCCATGTGATTGAATATTGAAGTGATATGACAATCATTAACTTTTGC
326 ATAAATGTGATACATGTTTCCATATGATTGAATA-TGAAGCGATGTGACAATCATTAACTTTTCC
* * * * *
22249363 ACATACTTATTATCGGTTTGGTAGTGAACAG
390 TCATATTTATTGTCGATTTGTTAGTGAACAG
22249394 ACGTAACTCT
Statistics
Matches: 919, Mismatches: 143, Indels: 21
0.85 0.13 0.02
Matches are distributed among these distances:
652 306 0.33
653 611 0.66
654 2 0.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (653 bp):
ATGAGTGACGACCTTGAAAGTCAACTAGTACTTATAATTAACGTATGTTAGGAACATGTGTGGTA
ATAAGCTTTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACATGTTTCCATG
TGATTGAATATTAAAGCGATATGACAATCATTAACTTTTCCACATATTTATTGTCGATTTGTTAG
TGAGCAGCCATAACGTTGGGAACATGAGTGACGACCTTGAAAGGTCAATTGGTACTTATGATTAG
CATACGTTGGGAACATGCGTGGTAATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTACATTA
ATAAATGTGATACATGTTTCCATATGATTGAATATGAAGCGATGTGACAATCATTAACTTTTCCT
CATATTTATTGTCGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTAACAACCTTGAAA
GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAACAAGCGTTCTGATTTTCA
GGGATTTACAACTTTTGCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAGCGA
CAAGACAATCATTAACTTTTCCTCACATTTATTGTCGATTTGCTAGTGACAGTCATAACATTAGG
AAC
Found at i:22249358 original size:870 final size:871
Alignment explanation
Indices: 22247669--22249387 Score: 2329
Period size: 870 Copynumber: 2.0 Consensus size: 871
22247659 TTTTAGGGAT
* **
22247669 ATGAGTGACAACCTTGAAAGGTCAACTGGTATTATGATCAACGTACGTTAGGAACATGTGTGGTA
1 ATGAGTGACAACCTTGAAAGGTCAACTGGTATTATGATCAACATACGTTAGGAACATACGTGGTA
* * * *
22247734 ATAAGCATTTTGATTTTTTGGTTTTTGTGACTTTTGCATTAATAAAAGTGATACATGTTTCCATG
66 ATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAAAGCGATACATGTTTCCATA
** * * *
22247799 TGATTGAGTATTTAAGCGATATGACAATTATTAACTTTTCCACATATTTATTGTCGGCTTGTTAG
131 TGATTGAGTATAGAAGCGATATGACAATCATTAAATTTTCCACATATTTATTGTCGACTTGTTAG
* * * * * *
22247864 TGAGCAGCCATAACATTGGGAACATGAGTGACGACCTTGAAAGATCAATTGGTACTTATGATTAG
196 TGAACAGCCAGAACATTGGGAACATGAGTAACCACCTTGAAAGATCAATTGGTACTTATAATTAA
* * * * * *
22247929 CATACGTTGGGAACATGCGTGGTAATAAGCGTTTTAATTTTTTGGGTTTTGCGACTTTTTCATGA
261 CATACGTTAGGAACATGCGTGGTAACAAGCGTTCTAATTTTTTGGGATTTGCAACTTTTGCATGA
*
22247994 ATAAATGTGATACACGTTTCTAAGTGACTGAGTATGAAGCAATGTGACAATCATTAACTTTTCCT
326 ATAAATGTGATACACGTTTCTAAGTGACTGAGTATGAAGCAATATGACAATCATTAACTTTTCCT
* * *
22248059 CATATTTATTGTCGATTTGTTAGTGAACAGTCAGAACATTGGGAACATGAGTGATAACCTTGAAA
391 CACATTTATTGTCGATTTGCTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTTGAAA
* ** *
22248124 GTCAATTGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGTGTTTTGATTTTCA
456 GTCAATAGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGCATTCTGATTTTCA
* * *
22248189 GGGATTTACGACTTTTTCATTAATAAATGTGATACACATTTTCATGTGACCGAGTATTGAAGCGA
521 GGGATTTACGACTTTTACATTAATAAATGTGATACACATTTTCATGAGACCGAATATTGAAGCGA
* * * *
22248254 CACGACAATTATTAACTTTATCTCGTATTTATTGTCGATTTGCTAGTGATAGTTATAACATTAGG
586 CACGACAATCATTAACTTTATCTCATATTTATTATCGATTTGCTAGTGACAGTTATAACATTAGG
** * *
22248319 AACATGAGTGGTGACTTTGAAAGTCAACTAGTACTTATAATTAACATATGTTAGGAACATGCATG
651 AACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACATATGTTAGGAACATGCATG
* *
22248384 GTAATAAACTTTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCC
716 ATAATAAACATTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCC
* *
22248449 ATGTGATTGAATACTAAAGCAATTCGACAATCATTAACTTTTGCACATACTTATTGTCGATTTGT
781 ATGTGATTGAATACTAAAGCAATTCGACAATCATTAACTTTTGCACATACTTATTATCGATTTGG
22248514 TAGTAAGCAGCCATAACGTTGGGAAC
846 TAGTAAGCAGCCATAACGTTGGGAAC
* * * * *
22248540 ATGA-TGACGACCTTGAAAGGTCAATTGGTATTTATGATTAGCATACGTTGGGAACATACGTGGT
1 ATGAGTGACAACCTTGAAAGGTCAACTGGTA-TTATGATCAACATACGTTAGGAACATACGTGGT
*
22248604 AATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAATGCGATACATGTTTCCAT
65 AATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAAAGCGATACATGTTTCCAT
* * *** * *
22248669 ATGATTGATTATAGAAGCGATGTGACAATCATTAAATTTTCCTTGTATTTATTTTCGATTTGTTA
130 ATGATTGAGTATAGAAGCGATATGACAATCATTAAATTTTCCACATATTTATTGTCGACTTGTTA
** * * *
22248734 GTGAATGGTCAGAACGTTGGGAACATGAGTAACCACCTTGAAAG-TTAATTGGTACTTATAATTA
195 GTGAACAGCCAGAACATTGGGAACATGAGTAACCACCTTGAAAGATCAATTGGTACTTATAATTA
* * * * * * *
22248798 ACGTATGTTAGGAACATGTGTGGTAACAAGCGTTCTGATTTTTTGGGATTTGTAACTTTTGCGTT
260 ACATACGTTAGGAACATGCGTGGTAACAAGCGTTCTAATTTTTTGGGATTTGCAACTTTTGCATG
* * * * * *
22248863 AATAAATGTGATGCACATTT-TCATGTGATTGAGTATTGAATCGATAT-AGCAATCATTAACTTT
325 AATAAATGTGATACACGTTTCT-AAGTGACTGAGTA-TGAAGCAATATGA-CAATCATTAACTTT
* * * * *
22248926 TCCTCACATTTATTGTTGATTTGCTAGTG-ACCGTCATAACGTTGGGAACATGAGTGACGACCTT
387 TCCTCACATTTATTGTCGATTTGCTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTT
** *
22248990 GAAAGTCAACTAG-TACTTATAATTAATGTATGTTAGGAACATGTGTGGTAATAAGCATTCTGAT
452 GAAAGTCAA-TAGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGCATTCTGAT
* ** * * ** **
22249054 TTTCGGGGATTTGTGCCTTTTACATTAATGAATGTGATACATGTTTTCATGAGATTGAATATTGA
516 TTTCAGGGATTTACGACTTTTACATTAATAAATGTGATACACATTTTCATGAGACCGAATATTGA
* * *
22249119 AGCGATATGACAATCATTAACTTT-TCCTCATATTTATTATTGATTTGCTAGTGACAGTTATAAC
581 AGCGACACGACAATCATTAACTTTAT-CTCATATTTATTATCGATTTGCTAGTGACAGTTATAAC
* * *
22249183 GTTGGGAACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACGTATGTTAGGAACA
645 ATTAGGAACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACATATGTTAGGAACA
** * *
22249248 TGTGTGATAATAAGCATTCTGATTTTCAGGGATTTGTGACTTTTACATTAATGAATGTGATACAT
710 TGCATGATAATAAACATTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACAT
* * **
22249313 GTTTCCATGTGATTGAATATTGAAGTGATAT-GACAATCATTAACTTTTGCACATACTTATTATC
775 GTTTCCATGTGATTGAATACTAAAGCAAT-TCGACAATCATTAACTTTTGCACATACTTATTATC
*
22249377 GGTTTGGTAGT
839 GATTTGGTAGT
22249388 GAACAGACGT
Statistics
Matches: 731, Mismatches: 110, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
869 2 0.00
870 498 0.68
871 231 0.32
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (871 bp):
ATGAGTGACAACCTTGAAAGGTCAACTGGTATTATGATCAACATACGTTAGGAACATACGTGGTA
ATAAGCATTTTGATTTTTTGGGTTTTGCGACTTTTGCATTAATAAAAGCGATACATGTTTCCATA
TGATTGAGTATAGAAGCGATATGACAATCATTAAATTTTCCACATATTTATTGTCGACTTGTTAG
TGAACAGCCAGAACATTGGGAACATGAGTAACCACCTTGAAAGATCAATTGGTACTTATAATTAA
CATACGTTAGGAACATGCGTGGTAACAAGCGTTCTAATTTTTTGGGATTTGCAACTTTTGCATGA
ATAAATGTGATACACGTTTCTAAGTGACTGAGTATGAAGCAATATGACAATCATTAACTTTTCCT
CACATTTATTGTCGATTTGCTAGTGAACAGTCAGAACATTGGGAACATGAGTGACAACCTTGAAA
GTCAATAGATACTTATAATTAACATATGTTAGGAACATGTGCGGTAATAAGCATTCTGATTTTCA
GGGATTTACGACTTTTACATTAATAAATGTGATACACATTTTCATGAGACCGAATATTGAAGCGA
CACGACAATCATTAACTTTATCTCATATTTATTATCGATTTGCTAGTGACAGTTATAACATTAGG
AACATGAGTGACGACCTTGAAAGTCAAATAGTACTTATAATTAACATATGTTAGGAACATGCATG
ATAATAAACATTCTGATTTTCAGGGATTTGTGACTTTAACATTAATGAATGTGATACATGTTTCC
ATGTGATTGAATACTAAAGCAATTCGACAATCATTAACTTTTGCACATACTTATTATCGATTTGG
TAGTAAGCAGCCATAACGTTGGGAAC
Found at i:22262384 original size:3 final size:3
Alignment explanation
Indices: 22262376--22262402 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22262366 AGACTACATA
22262376 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
22262403 GAAGGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22266307 original size:2 final size:2
Alignment explanation
Indices: 22266302--22266329 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22266292 ATTTTTTGAT
22266302 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
22266330 ATGTCTAGAA
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):
TA
Found at i:22267318 original size:20 final size:21
Alignment explanation
Indices: 22267284--22267322 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
22267274 AAATACAATT
22267284 ATAAAAATAAATAAAATTAAG
1 ATAAAAATAAATAAAATTAAG
*
22267305 ATAAAAAT-ATTAAAATTA
1 ATAAAAATAAATAAAATTA
22267323 TGTACTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
ATAAAAATAAATAAAATTAAG
Found at i:22271326 original size:3 final size:3
Alignment explanation
Indices: 22271320--22271442 Score: 219
Period size: 3 Copynumber: 41.0 Consensus size: 3
22271310 AGTAGTAGAC
22271320 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
22271368 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GGA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
22271416 GAA GGA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
22271443 AGCTTGATTC
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22273167 original size:18 final size:18
Alignment explanation
Indices: 22273132--22273175 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22273122 ATTTTAATTT
* *
22273132 TGAAAGTAAGAATAAAAA
1 TGAAAATAACAATAAAAA
*
22273150 TGAAAATAACAATTAAAA
1 TGAAAATAACAATAAAAA
*
22273168 TAAAAATA
1 TGAAAATA
22273176 TTAAAAGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (18 bp):
TGAAAATAACAATAAAAA
Done.