Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 59 of 59
Found at i:21493633 original size:15 final size:15
Alignment explanation
Indices: 21493615--21493645 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21493605 ACCAATGCCA
21493615 ATGAAAATTCCCTGG
1 ATGAAAATTCCCTGG
21493630 ATGAAAATTCCCTGG
1 ATGAAAATTCCCTGG
21493645 A
1 A
21493646 GACAGACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (15 bp):
ATGAAAATTCCCTGG
Found at i:21494590 original size:4 final size:4
Alignment explanation
Indices: 21494581--21494611 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
21494571 ATACGTGCAC
21494581 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
21494612 CGCATGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:21502261 original size:28 final size:28
Alignment explanation
Indices: 21502229--21502282 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
21502219 AATACAAGTG
**
21502229 TGTGGTTTGGGTCATGGTCACAAATTTA
1 TGTGGTTTGGGTCATAATCACAAATTTA
21502257 TGTGGTTTGGGTCATAATCACAAATT
1 TGTGGTTTGGGTCATAATCACAAATT
21502283 GTTGCTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (28 bp):
TGTGGTTTGGGTCATAATCACAAATTTA
Found at i:21502384 original size:2 final size:2
Alignment explanation
Indices: 21502377--21502403 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21502367 ACATTTATTT
21502377 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21502404 TCCTTTGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21533046 original size:19 final size:20
Alignment explanation
Indices: 21533013--21533051 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21533003 AATAAAAAGG
21533013 CAACAATAACTTAA-CTGTC
1 CAACAATAACTTAACCTGTC
21533032 CAACAATAA-TATAACCTGTC
1 CAACAATAACT-TAACCTGTC
21533052 AGGATCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 12 0.67
20 5 0.28
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
CAACAATAACTTAACCTGTC
Found at i:21542383 original size:15 final size:15
Alignment explanation
Indices: 21542363--21542394 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21542353 TTCTGGTTAA
21542363 AAGTCTATGCATTAG
1 AAGTCTATGCATTAG
*
21542378 AAGTCTATGTATTAG
1 AAGTCTATGCATTAG
21542393 AA
1 AA
21542395 TCATTAGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (15 bp):
AAGTCTATGCATTAG
Found at i:21544952 original size:5 final size:5
Alignment explanation
Indices: 21544942--21544968 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
21544932 CCTCCTCTGC
21544942 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
21544969 TTAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:21545181 original size:2 final size:2
Alignment explanation
Indices: 21545174--21545199 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21545164 TAATGAGGAA
21545174 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21545200 TTAAATTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21550062 original size:11 final size:12
Alignment explanation
Indices: 21550028--21550076 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
21550018 TTCTATAATA
*
21550028 TTTAAATAAGTT
1 TTTAAATAAATT
* *
21550040 TTTATAT-TATT
1 TTTAAATAAATT
21550051 TTTAAA-AAA-T
1 TTTAAATAAATT
21550061 TTTAAATAAATT
1 TTTAAATAAATT
21550073 TTTA
1 TTTA
21550077 TTTTTTTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 7 0.24
11 11 0.38
12 11 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTAAATAAATT
Found at i:21569828 original size:11 final size:12
Alignment explanation
Indices: 21569812--21569842 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21569802 ATGATTACGT
21569812 CCCCCCCACCAC
1 CCCCCCCACCAC
21569824 CCCCCCCACC-C
1 CCCCCCCACCAC
21569835 CCCCCCCA
1 CCCCCCCA
21569843 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.13, C:0.87, G:0.00, T:0.00
Consensus pattern (12 bp):
CCCCCCCACCAC
Found at i:21579362 original size:21 final size:20
Alignment explanation
Indices: 21579338--21579384 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
21579328 AACAATGCAA
*
21579338 AAAAGCTAGAGAAA-AGAATAT
1 AAAAGCT-GAGAAAGAGAA-AC
*
21579359 AAAACCTGAGAAAGAGAAAC
1 AAAAGCTGAGAAAGAGAAAC
21579379 AAAAGC
1 AAAAGC
21579385 AATACCTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.62, C:0.11, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAAGCTGAGAAAGAGAAAC
Found at i:21589962 original size:123 final size:123
Alignment explanation
Indices: 21589801--21590668 Score: 1529
Period size: 123 Copynumber: 7.1 Consensus size: 123
21589791 TTATCATGAT
* ** * * *
21589801 CACTATCACTATCACCAGATGTATTTTGATCCTCGTCATAGTGATCATTATGTTGCCCTTCAAAT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
21589866 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
* *
21589924 CACTTTCACTATCACAGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCAATT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
* *
21589989 GATAAGTTTTCACCATGATTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
* *
21590047 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATAATTATGTTGCCCTTTGATT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
*
21590112 GATAAGTTCTCACCATGCTTCTCACTGAGAGAGTCTCTAGAAATGTTCTGATTCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
*
21590170 CACTTTCACTATCACAGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
* *
21590235 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCCAGAAATGTTTTGATTCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
21590293 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
* * *
21590358 GATAAGTTCTCACCATGCTTCTCACTATGAGAGTCTCCAGAAATATTCTGATTCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
*
21590416 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCAATT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
21590481 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
21590539 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
1 CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
* * *
21590604 GATAAGTTCTCACCATGCTTTTCACTATGAGAGTCTCTAGAAATGTTCTGATCCCCCC
66 GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
21590662 CACTTTC
1 CACTTTC
21590669 TTGACTTAAG
Statistics
Matches: 713, Mismatches: 32, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 713 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (123 bp):
CACTTTCACTATCACTGGATGTATTTTGATCCTTGTCATAGTGATCATTATGTTGCCCTTCGATT
GATAAGTTCTCACCATGCTTCTCACTGTGAGAGTCTCTAGAAATGTTCTGATTCCCCC
Found at i:21598266 original size:118 final size:118
Alignment explanation
Indices: 21597761--21598230 Score: 753
Period size: 118 Copynumber: 4.0 Consensus size: 118
21597751 AGCTCTGCTC
* * *
21597761 TGCAGCAGCTTGAGCTAACCACAGTAAACAAACATGAACAAAAAGGATAAAAGAATTCTAAGCAG
1 TGCAGCAACTTGAGCTTACCGCAGTAAACAAACATGAACAAAAAGGATAAAAGAATTCTAAGCAG
* * *
21597826 AACCCAATCAGGATATCTAACTTACCAGTGCATAAGCTTCATTAAGGCCTTAA
66 AACCCAATCAGGAAATCTAAATTACCAGTGCATAAACTTCATTAAGGCCTTAA
* *
21597879 TGCAGCAACTTGAGCTTACCGCAGTAAACAAACATGAACAGAAAGGATAAAAGAATTCCAAGCAG
1 TGCAGCAACTTGAGCTTACCGCAGTAAACAAACATGAACAAAAAGGATAAAAGAATTCTAAGCAG
*
21597944 AACCCAATCAGGAAATCTAAATTACCAGTGCGTAAACTTCATTAAGGCCTTAA
66 AACCCAATCAGGAAATCTAAATTACCAGTGCATAAACTTCATTAAGGCCTTAA
* *
21597997 TGCAGCAACTTGAGCTCACCGCAGTAAACAAACATGAGCAAAAAGGATAAAAGAATTCTAAGCAG
1 TGCAGCAACTTGAGCTTACCGCAGTAAACAAACATGAACAAAAAGGATAAAAGAATTCTAAGCAG
* * *
21598062 AACCCAATCAGGAAATCTAAATTACCACTGCATAAACTTCAGTACGGCCTTAA
66 AACCCAATCAGGAAATCTAAATTACCAGTGCATAAACTTCATTAAGGCCTTAA
* * *
21598115 TGCAGCAGCTTGAGCTTACCGCAGTAAACAAACATGAACAAAAATGATAAAAGAATTCTAAGGAG
1 TGCAGCAACTTGAGCTTACCGCAGTAAACAAACATGAACAAAAAGGATAAAAGAATTCTAAGCAG
* * *
21598180 -ACCCAATCAGGAAATCTAAATTACCAGTCCATAAACTTCATCATGGCCTTA
66 AACCCAATCAGGAAATCTAAATTACCAGTGCATAAACTTCATTAAGGCCTTA
21598231 TAGAAGACAT
Statistics
Matches: 325, Mismatches: 27, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
117 46 0.14
118 279 0.86
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (118 bp):
TGCAGCAACTTGAGCTTACCGCAGTAAACAAACATGAACAAAAAGGATAAAAGAATTCTAAGCAG
AACCCAATCAGGAAATCTAAATTACCAGTGCATAAACTTCATTAAGGCCTTAA
Found at i:21601254 original size:32 final size:31
Alignment explanation
Indices: 21601194--21601254 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
21601184 TATATCATAC
* *
21601194 GATCAAATTATTAATTTTTTAATAATTAAGT
1 GATCAAAATATTAATTTTTAAATAATTAAGT
21601225 GATCAAAATATTAAATTTTGTAAAT-ATTAA
1 GATCAAAATATT-AATTTT-TAAATAATTAA
21601255 TGGGAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 11 0.42
32 11 0.42
33 4 0.15
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (31 bp):
GATCAAAATATTAATTTTTAAATAATTAAGT
Found at i:21603472 original size:6 final size:6
Alignment explanation
Indices: 21603461--21603486 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21603451 ACTACTCATG
21603461 TGCTGA TGCTGA TGCTGA TGCTGA TG
1 TGCTGA TGCTGA TGCTGA TGCTGA TG
21603487 AAGAAAGTAA
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:0.15, C:0.15, G:0.35, T:0.35
Consensus pattern (6 bp):
TGCTGA
Found at i:21609631 original size:2 final size:2
Alignment explanation
Indices: 21609624--21609655 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21609614 AAAATTAAGA
21609624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21609656 GCCTAGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21617045 original size:2 final size:2
Alignment explanation
Indices: 21617040--21617067 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21617030 AGTATGTGTG
21617040 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
21617068 CTAGTTTATT
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:21617619 original size:2 final size:2
Alignment explanation
Indices: 21617612--21617637 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21617602 ATGCAGGTCG
21617612 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
21617638 GCTTTGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21635162 original size:1 final size:1
Alignment explanation
Indices: 21635158--21635191 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
21635148 AAACACGCAA
*
21635158 GGGGGAGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
21635192 ATGCGTCGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:21646356 original size:30 final size:30
Alignment explanation
Indices: 21646316--21646394 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
21646306 AACAAAAGCC
*
21646316 CTTGGATTTAGCCCAAGTGGCTTTAGTGTT
1 CTTGGGTTTAGCCCAAGTGGCTTTAGTGTT
* *
21646346 CTTGGGTTTAGCCCAACTGGTTTTAGTGTT
1 CTTGGGTTTAGCCCAAGTGGCTTTAGTGTT
* * *
21646376 CCTGAGTTTGGCCCAAGTG
1 CTTGGGTTTAGCCCAAGTG
21646395 ATTAACCTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (30 bp):
CTTGGGTTTAGCCCAAGTGGCTTTAGTGTT
Found at i:21658344 original size:2 final size:2
Alignment explanation
Indices: 21658337--21658376 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
21658327 TATAGCTACA
21658337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21658377 TCATCCATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21659255 original size:2 final size:2
Alignment explanation
Indices: 21659248--21659283 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
21659238 GGATGAAGAA
*
21659248 AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21659284 GAAGATGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21659479 original size:2 final size:2
Alignment explanation
Indices: 21659474--21659543 Score: 74
Period size: 2 Copynumber: 36.5 Consensus size: 2
21659464 GGCAGACAGG
* * * *
21659474 GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA -A GT NA AA GA -A
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
21659514 G- GA GA GA GA GA GC GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21659544 GAAGATGGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
1 3 0.05
2 53 0.95
ACGTcount: A:0.47, C:0.01, G:0.49, T:0.01
Consensus pattern (2 bp):
GA
Found at i:21659531 original size:260 final size:261
Alignment explanation
Indices: 21659237--21659763 Score: 1015
Period size: 260 Copynumber: 2.0 Consensus size: 261
21659227 GTGAGAAGTG
21659237 GGGATGAAG-AAAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGGAAGATGGATTGTCGGG
1 GGGA-GAAGTAAAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGGAAGATGGATTGTCGGG
21659301 TTTGAGGGAAAAGCATTAACTAGAGTCAAAGTTTAACCCAACAAACAAAGACACCGGTATATTTT
65 TTTGAGGGAAAAGCATTAACTAGAGTCAAAGTTTAACCCAACAAACAAAGACACCGGTATATTTT
21659366 CACACTACTGTCTGCTGCCCCCATCACTCCCTGACGTATTCATCCATTCACCAAGTGAAAGTGAA
130 CACACTACTGTCTGCTGCCCCCATCACTCCCTGACGTATTCATCCATTCACCAAGTGAAAGTGAA
21659431 AGAGCTAGTAAAATGTATGGATGATGAAAGAGAGGCAGACAGGGAGAGAGAGAGAGAGAGAGAGA
195 AGAGCTAGTAAAATGTATGGATGATGAAAGAGAGGCAGACAGGGAGAGAGAGAGAGAGAGAGAGA
21659496 GA
260 GA
21659498 GGGAGAAGTNAAAGA-AG-GAGAGAGAGAGCGAGAGAGAGAGAGAGAGGAAGATGGATTGTCGGG
1 GGGAGAAGT-AAAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGGAAGATGGATTGTCGGG
21659561 TTTGAGGGAAAAGCATTAACTAGAGTCAAAGTTTAACCCAACAAACAAAGACACCGGTATATTTT
65 TTTGAGGGAAAAGCATTAACTAGAGTCAAAGTTTAACCCAACAAACAAAGACACCGGTATATTTT
21659626 CACACTACTGTCTGCTGCCCCCATCACTCCCTGACGTATTCATCCATTCACCAAGTGAAAGTGAA
130 CACACTACTGTCTGCTGCCCCCATCACTCCCTGACGTATTCATCCATTCACCAAGTGAAAGTGAA
21659691 AGAGCTAGTAAAATGTATGGATGATGAAAGAGAGGCAGACAGGGAGAGAGAGAGAGAGAGAGAGA
195 AGAGCTAGTAAAATGTATGGATGATGAAAGAGAGGCAGACAGGGAGAGAGAGAGAGAGAGAGAGA
21659756 GA
260 GA
21659758 GGGAGA
1 GGGAGA
21659764 GTCTACTGTG
Statistics
Matches: 264, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
260 253 0.96
261 6 0.02
262 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (261 bp):
GGGAGAAGTAAAGAGAGAGAGAGAGAGAGCGAGAGAGAGAGAGAGAGGAAGATGGATTGTCGGGT
TTGAGGGAAAAGCATTAACTAGAGTCAAAGTTTAACCCAACAAACAAAGACACCGGTATATTTTC
ACACTACTGTCTGCTGCCCCCATCACTCCCTGACGTATTCATCCATTCACCAAGTGAAAGTGAAA
GAGCTAGTAAAATGTATGGATGATGAAAGAGAGGCAGACAGGGAGAGAGAGAGAGAGAGAGAGAG
A
Found at i:21659739 original size:2 final size:2
Alignment explanation
Indices: 21659734--21659764 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
21659724 GGCAGACAGG
*
21659734 GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21659765 TCTACTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21672157 original size:6 final size:6
Alignment explanation
Indices: 21672146--21672170 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21672136 CCTTTCCTCT
21672146 CTCCGG CTCCGG CTCCGG CTCCGG C
1 CTCCGG CTCCGG CTCCGG CTCCGG C
21672171 GCCGAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.32, T:0.16
Consensus pattern (6 bp):
CTCCGG
Found at i:21672268 original size:111 final size:111
Alignment explanation
Indices: 21672074--21672275 Score: 377
Period size: 111 Copynumber: 1.8 Consensus size: 111
21672064 GTCAAACGTT
21672074 TGCTTCCTCCAATTCCCATTCCAAACGCAGGTGTCCAACTCTTGCAACAACTATCACCCATGCCT
1 TGCTTCCTCCAATTCCCATTCCAAACGCAGGTGTCCAACTCTTGCAACAACTATCACCCATGCCT
*
21672139 TTCCTCTCTCCGGCTCCGGCTCCGGCTCCGGCGCCGAATATCCGTA
66 TTCCTCTCCCCGGCTCCGGCTCCGGCTCCGGCGCCGAATATCCGTA
*
21672185 TGCTTCCTCCAATTCCCATTCCGAACGCAGGTGTCCAACTCTTGCAACAACTATCACCCATGCCT
1 TGCTTCCTCCAATTCCCATTCCAAACGCAGGTGTCCAACTCTTGCAACAACTATCACCCATGCCT
*
21672250 TTTCTCTCCCCGGCTCCGGCTCCGGC
66 TTCCTCTCCCCGGCTCCGGCTCCGGC
21672276 GCCGAATATC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 88 1.00
ACGTcount: A:0.17, C:0.41, G:0.16, T:0.26
Consensus pattern (111 bp):
TGCTTCCTCCAATTCCCATTCCAAACGCAGGTGTCCAACTCTTGCAACAACTATCACCCATGCCT
TTCCTCTCCCCGGCTCCGGCTCCGGCTCCGGCGCCGAATATCCGTA
Found at i:21682121 original size:222 final size:222
Alignment explanation
Indices: 21681844--21682520 Score: 1167
Period size: 222 Copynumber: 3.0 Consensus size: 222
21681834 GAAGATGCAA
* * * * *
21681844 AGATGGAGCGAACCCCAAACTCGCGGACTGAGTCATTTTCCCTCGGAAGTCACCAAGACTTTCCA
1 AGATGGAGCAAACCCCAAACTCACGGACTGAGTCAGTTTCCCTGGGAATTCACCAAGACTTTCCA
* *
21681909 GTCTGCTGT-CAGGTTGACTAACTCCTCTGTTCAAAGCATCATTTATGTTCAATGTATCACCCGT
66 GTCTGCT-TCCAGGTTGACTTACTCCTCTGTTTAAAGCATCATTTATGTTCAATGTATCACCCGT
* *
21681973 TGAGGTCTGTCCTCCATTTGAGAAACCACTCTGAATGTCCATTTCACCACCTGACATGTTTTGGT
130 TGAGGTCTGTCCTCCATTTGAGAAACCACTCTGAATGTCCATTTTATCACCTGACATGTTTTGGT
21682038 ATCCAGGTGTACTTGAAGAGACCCTAAC
195 ATCCAGGTGTACTTGAAGAGACCCTAAC
21682066 AGATGGAGCAAACCCCAAACTCACGGACTGAGTCAGTTTCCCTGGGAATTCACCAAGACTTTCCA
1 AGATGGAGCAAACCCCAAACTCACGGACTGAGTCAGTTTCCCTGGGAATTCACCAAGACTTTCCA
21682131 GTCTGCTTCCAGGTTGACTTACTCCTCTGTTTAAAGCATCATTTATGTTCAATGTATCACCCGTT
66 GTCTGCTTCCAGGTTGACTTACTCCTCTGTTTAAAGCATCATTTATGTTCAATGTATCACCCGTT
21682196 GAGGTCTGTCCTCCATTTGAGAAACCACTCTGAATGTCCATTTTATCACCTGACATGTTTTGGTA
131 GAGGTCTGTCCTCCATTTGAGAAACCACTCTGAATGTCCATTTTATCACCTGACATGTTTTGGTA
21682261 TCCAGGTGTACTTGAAGAGACCCTAAC
196 TCCAGGTGTACTTGAAGAGACCCTAAC
21682288 AGATGGAGCAAACCCCAAACTCACGGACTGAGTCAGTTTCCCTGGGAATTCACCAAGACTTTCCA
1 AGATGGAGCAAACCCCAAACTCACGGACTGAGTCAGTTTCCCTGGGAATTCACCAAGACTTTCCA
* *
21682353 GTCTGCTTCCAGGTTGACTTACTCCTCTGTTTAAAGCATCATTTATGTTCAATGTATTACCCGAT
66 GTCTGCTTCCAGGTTGACTTACTCCTCTGTTTAAAGCATCATTTATGTTCAATGTATCACCCGTT
* * * * *
21682418 GATGCCTGTCCTCCATTTGAGAAACCAGTCAGAATGTCCATTTTATCACGTGACATGTTTTGGTA
131 GAGGTCTGTCCTCCATTTGAGAAACCACTCTGAATGTCCATTTTATCACCTGACATGTTTTGGTA
* * *
21682483 TCCCGGTGTACTTGAAGGGACCCTAAA
196 TCCAGGTGTACTTGAAGAGACCCTAAC
21682510 AGATGGAGCAA
1 AGATGGAGCAA
21682521 CCTTGATATT
Statistics
Matches: 435, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
221 1 0.00
222 434 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (222 bp):
AGATGGAGCAAACCCCAAACTCACGGACTGAGTCAGTTTCCCTGGGAATTCACCAAGACTTTCCA
GTCTGCTTCCAGGTTGACTTACTCCTCTGTTTAAAGCATCATTTATGTTCAATGTATCACCCGTT
GAGGTCTGTCCTCCATTTGAGAAACCACTCTGAATGTCCATTTTATCACCTGACATGTTTTGGTA
TCCAGGTGTACTTGAAGAGACCCTAAC
Found at i:21706415 original size:6 final size:6
Alignment explanation
Indices: 21706398--21706438 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
21706388 AATTTATCTC
*
21706398 CCCTGT CTCTGT CCCTGT CCCTGT CCCTGT CCCTGT CCCTG
1 CCCTGT CCCTGT CCCTGT CCCTGT CCCTGT CCCTGT CCCTG
21706439 GTGGTTTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.17, T:0.34
Consensus pattern (6 bp):
CCCTGT
Found at i:21707837 original size:164 final size:164
Alignment explanation
Indices: 21707578--21707877 Score: 503
Period size: 164 Copynumber: 1.8 Consensus size: 164
21707568 TCGATTTAAA
*
21707578 TAATAAATTTATTACTTATCACGAGTTCAAGTAGGGTTCAGATAGTGATTTAGGATATCTATTAT
1 TAATAAATTTATTACTTATCACGAGTTCAAGTAGGGTTCAGATAGTGATTTAGGATATCCATTAT
* * *
21707643 TCAAATCTAATTATAAATATTTAGTTTTAATATTAAATTTTAATTTATATATATTATTTTTTATA
66 CCAAATCTAATTATAAATATTTAGTTTTAATATTAAATTTTAATTTATATACATTATATTTTATA
21707708 ATTAATATTAAGATATCCTATAATTCAGTTCAAG
131 ATTAATATTAAGATATCCTATAATTCAGTTCAAG
* * *
21707742 TAATAAATTTATTACTTGTCATGAGTTCAAGTAGGGTT-TGCATAGTGATTTAGGATATCCATTA
1 TAATAAATTTATTACTTATCACGAGTTCAAGTAGGGTTCAG-ATAGTGATTTAGGATATCCATTA
* *
21707806 TCCAAATCTAATTATAAATATTTATTTTTAATATTAAATTTTAATTTATATACATTCTATTTTAT
65 TCCAAATCTAATTATAAATATTTAGTTTTAATATTAAATTTTAATTTATATACATTATATTTTAT
21707871 AATTAAT
130 AATTAAT
21707878 GTAATATTTA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 1 0.01
164 125 0.99
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (164 bp):
TAATAAATTTATTACTTATCACGAGTTCAAGTAGGGTTCAGATAGTGATTTAGGATATCCATTAT
CCAAATCTAATTATAAATATTTAGTTTTAATATTAAATTTTAATTTATATACATTATATTTTATA
ATTAATATTAAGATATCCTATAATTCAGTTCAAG
Found at i:21711909 original size:65 final size:65
Alignment explanation
Indices: 21711805--21711993 Score: 351
Period size: 65 Copynumber: 2.9 Consensus size: 65
21711795 CTTGATGTAA
*
21711805 GTATTGTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAGAAATGTAATGTGGGTT
1 GTATTTTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAGAAATGTAATGTGGGTT
21711870 GTATTTTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAGAAATGTAATGTGGGTT
1 GTATTTTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAGAAATGTAATGTGGGTT
*
21711935 GTATTTTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAAAAACTGTAAT
1 GTATTTTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAGAAA-TGTAAT
21711994 TGTGCAGGTC
Statistics
Matches: 121, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
65 115 0.95
66 6 0.05
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (65 bp):
GTATTTTTGTCAATATATTGCAATCTTATTCATATATTAAAGCTAAAAGAAATGTAATGTGGGTT
Found at i:21714311 original size:46 final size:46
Alignment explanation
Indices: 21714236--21714329 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
21714226 TCCCTTGCCT
* * *
21714236 TACTCACCTTTATTACATTACTTCGTGGTAATTATACAAGTACTAA
1 TACTCACCATTATTACATTACATCATGGTAATTATACAAGTACTAA
*
21714282 TACTTACCATTATTACATTACATCATGGTAATTATACAAGTACTAA
1 TACTCACCATTATTACATTACATCATGGTAATTATACAAGTACTAA
21714328 TA
1 TA
21714330 TTATTAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.38
Consensus pattern (46 bp):
TACTCACCATTATTACATTACATCATGGTAATTATACAAGTACTAA
Found at i:21714700 original size:5 final size:5
Alignment explanation
Indices: 21714685--21714717 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
21714675 GTATGAAATA
*
21714685 GAGAG GTGAG GAGAG GAGAG GAGAG GAGAG GAG
1 GAGAG GAGAG GAGAG GAGAG GAGAG GAGAG GAG
21714718 TCGCCATCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.61, T:0.03
Consensus pattern (5 bp):
GAGAG
Found at i:21715012 original size:6 final size:6
Alignment explanation
Indices: 21715001--21715027 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21714991 TCTTTTGCTC
21715001 TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCA
21715028 TTTGCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (6 bp):
TCACTT
Found at i:21715338 original size:6 final size:6
Alignment explanation
Indices: 21715312--21715362 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
21715302 TCTCTTCAAA
* * * *
21715312 CTGCAA CTGCAT CAGCAT CTGCGT CTGCGT CTGCAT CTGCAT CTGCAT
1 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT
21715360 CTG
1 CTG
21715363 GGGACGGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.16, C:0.33, G:0.22, T:0.29
Consensus pattern (6 bp):
CTGCAT
Found at i:21717245 original size:2 final size:2
Alignment explanation
Indices: 21717238--21717273 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
21717228 ACTTCTATTA
21717238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21717274 GGTGTTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21722358 original size:18 final size:18
Alignment explanation
Indices: 21722335--21722389 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
21722325 AATGGCTGCT
21722335 GTCCTGCCATTTGTGAAG
1 GTCCTGCCATTTGTGAAG
* * **
21722353 GTCCTG-AATAT-TG-CT
1 GTCCTGCCATTTGTGAAG
21722368 GTCCTGCCATTTGTGAAG
1 GTCCTGCCATTTGTGAAG
21722386 GTCC
1 GTCC
21722390 AGTATATTGC
Statistics
Matches: 26, Mismatches: 8, Indels: 6
0.65 0.20 0.15
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
17 5 0.19
18 10 0.38
ACGTcount: A:0.16, C:0.24, G:0.25, T:0.35
Consensus pattern (18 bp):
GTCCTGCCATTTGTGAAG
Found at i:21722373 original size:33 final size:33
Alignment explanation
Indices: 21722331--21722410 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
21722321 TCCAAATGGC
*
21722331 TGCTGTCCTGCCATTTGTGAAGGTCCTGAATAT
1 TGCTGTCCTGCCATTTGTGAAGGTCCAGAATAT
*
21722364 TGCTGTCCTGCCATTTGTGAAGGTCCAGTATAT
1 TGCTGTCCTGCCATTTGTGAAGGTCCAGAATAT
21722397 TGCTGTCCTGCCAT
1 TGCTGTCCTGCCAT
21722411 CGGAGGGGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (33 bp):
TGCTGTCCTGCCATTTGTGAAGGTCCAGAATAT
Found at i:21725851 original size:18 final size:18
Alignment explanation
Indices: 21725807--21725859 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
21725797 ATATAGTTGA
* *
21725807 CATCATCCAATAGACAAG
1 CATCATCCAATAGAGAGG
*
21725825 CATCGTCCAATAGAGAGG
1 CATCATCCAATAGAGAGG
*
21725843 TATCATCCAATAGAGAG
1 CATCATCCAATAGAGAG
21725860 AGGTAAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (18 bp):
CATCATCCAATAGAGAGG
Found at i:21735720 original size:31 final size:30
Alignment explanation
Indices: 21735678--21735740 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
21735668 AAAACATATA
* *
21735678 TAAATAAATAAAATCTAATCACATAATTAG
1 TAAATAAATAAAACCTAATAACATAATTAG
21735708 TAAATTAAATAAAACCTAATAACATAATTAG
1 TAAA-TAAATAAAACCTAATAACATAATTAG
21735739 TA
1 TA
21735741 TATGTCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
TAAATAAATAAAACCTAATAACATAATTAG
Found at i:21749594 original size:22 final size:22
Alignment explanation
Indices: 21749569--21749611 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21749559 GTATACTAAC
21749569 AAAGGCTTGGGACAGAGAGGAT
1 AAAGGCTTGGGACAGAGAGGAT
21749591 AAAGGCTTGGGACAGAGAGGA
1 AAAGGCTTGGGACAGAGAGGA
21749612 GAATCAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.42, T:0.12
Consensus pattern (22 bp):
AAAGGCTTGGGACAGAGAGGAT
Found at i:21752691 original size:41 final size:41
Alignment explanation
Indices: 21752632--21752712 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
21752622 AGCCTAGTTT
*
21752632 AAGAAAATTATCACATATAATGCATAGCCTATAATAGCCAG
1 AAGAAAATTATCACATATAATGCATAACCTATAATAGCCAG
21752673 AAGAAAATTATCTA-ATATAATGCATAACCTATAATAGCCA
1 AAGAAAATTATC-ACATATAATGCATAACCTATAATAGCCA
21752713 TAGGTTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (41 bp):
AAGAAAATTATCACATATAATGCATAACCTATAATAGCCAG
Found at i:21762027 original size:19 final size:19
Alignment explanation
Indices: 21762000--21762046 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
21761990 AACCAAGGAG
*
21762000 ATAAGATAAAATTTT-TAGA
1 ATAAAATAAAATTTTAT-GA
* *
21762019 ATAAAATAATATTTTATTA
1 ATAAAATAAAATTTTATGA
21762038 ATAAAATAA
1 ATAAAATAA
21762047 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAAAATAAAATTTTATGA
Found at i:21762400 original size:2 final size:2
Alignment explanation
Indices: 21762395--21762428 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21762385 TAAAAAAATA
*
21762395 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21762429 TAGAAGACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:21762604 original size:2 final size:2
Alignment explanation
Indices: 21762597--21762629 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21762587 TGAAAGAATA
21762597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21762630 ATTGAATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21766967 original size:15 final size:15
Alignment explanation
Indices: 21766947--21766978 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21766937 TTTATGTTTA
21766947 TAAACAAAATGAGTT
1 TAAACAAAATGAGTT
*
21766962 TAAACAAAATGATTT
1 TAAACAAAATGAGTT
21766977 TA
1 TA
21766979 TAAATTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.31
Consensus pattern (15 bp):
TAAACAAAATGAGTT
Found at i:21775911 original size:5 final size:5
Alignment explanation
Indices: 21775901--21775976 Score: 55
Period size: 5 Copynumber: 14.4 Consensus size: 5
21775891 AGCCTTCACC
** * *
21775901 TTTCT TTTCT TTTCT TTCTCTT TTTCT TCCCT TTCCT TTCCCT TTTCT
1 TTTCT TTTCT TTTCT TT-TC-T TTTCT TTTCT TTTCT TT-TCT TTTCT
*
21775949 TTTCT TCTTCC TTTC- TTTCT TTCTCT TT
1 TTTCT T-TTCT TTTCT TTTCT TT-TCT TT
21775977 CTCTCTTGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.07
5 35 0.58
6 18 0.30
7 3 0.05
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (5 bp):
TTTCT
Found at i:21775924 original size:11 final size:11
Alignment explanation
Indices: 21775901--21775976 Score: 63
Period size: 11 Copynumber: 7.2 Consensus size: 11
21775891 AGCCTTCACC
21775901 TTTCTTT-TCT
1 TTTCTTTCTCT
21775911 TTTCTTTCTCT
1 TTTCTTTCTCT
*
21775922 TTT-TCTTCCCT
1 TTTCT-TTCTCT
* *
21775933 TTCCTTTCCCT
1 TTTCTTTCTCT
21775944 TTTCTTT-TCT
1 TTTCTTTCTCT
*
21775954 TCTTCCTT-TC-
1 T-TTCTTTCTCT
21775964 TTTCTTTCTCT
1 TTTCTTTCTCT
21775975 TT
1 TT
21775977 CTCTCTTGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
9 5 0.09
10 14 0.26
11 34 0.63
12 1 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTCTTTCTCT
Found at i:21775924 original size:16 final size:16
Alignment explanation
Indices: 21775901--21775976 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
21775891 AGCCTTCACC
21775901 TTTCTTT-TCTTTTCT
1 TTTCTTTCTCTTTTCT
* **
21775916 TTCTCTTTTTCTTCCCT
1 TT-TCTTTCTCTTTTCT
* *
21775933 TTCCTTTCCCTTTTCT
1 TTTCTTTCTCTTTTCT
*
21775949 TTTC-TTCTTCCTTTC-
1 TTTCTTTC-TCTTTTCT
21775964 TTTCTTTCTCTTT
1 TTTCTTTCTCTTT
21775977 CTCTCTTGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
15 13 0.28
16 25 0.54
17 8 0.17
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCTTTCTCTTTTCT
Found at i:21776951 original size:19 final size:20
Alignment explanation
Indices: 21776924--21776962 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21776914 TTAATATTTT
*
21776924 AATATTATTTT-ATTCAAAA
1 AATAATATTTTAATTCAAAA
21776943 AATAATATTTTAATTCAAAA
1 AATAATATTTTAATTCAAAA
21776963 TATTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAATATTTTAATTCAAAA
Found at i:21779134 original size:27 final size:27
Alignment explanation
Indices: 21779096--21779228 Score: 117
Period size: 27 Copynumber: 5.0 Consensus size: 27
21779086 GCAAAAAAAA
*
21779096 AAAAAAAATTCTACACGTCATTTTCAT
1 AAAAAAATTTCTACACGTCATTTTCAT
*
21779123 AAAAAAATTTCTACACATCATTTTCAT
1 AAAAAAATTTCTACACGTCATTTTCAT
* * *
21779150 -AAAAAATTTCTAAACGCCATGTTCA-
1 AAAAAAATTTCTACACGTCATTTTCAT
* * * * **
21779175 AAAATAGTTTGCTACATGCCATTGCCAT
1 AAAAAAATTT-CTACACGTCATTTTCAT
* * *
21779203 AAAAAATTTTCTACACATCATGTTCA
1 AAAAAAATTTCTACACGTCATTTTCA
21779229 AACATTTTGC
Statistics
Matches: 82, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
26 28 0.34
27 46 0.56
28 8 0.10
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (27 bp):
AAAAAAATTTCTACACGTCATTTTCAT
Found at i:21779190 original size:53 final size:52
Alignment explanation
Indices: 21779097--21779242 Score: 134
Period size: 53 Copynumber: 2.8 Consensus size: 52
21779087 CAAAAAAAAA
* * * * **
21779097 AAAAAAATTCTACACGTCATTTTCATAAAAAAATTT-CTACACATCATTTTCAT
1 AAAAAATTTCTACACGTCATGTTC--AAAAATATTTGCTACACACCATTGCCAT
* * **
21779150 AAAAAATTTCTAAACGCCATGTTCAAAAATAGTTTGCTACATGCCATTGCCAT
1 AAAAAATTTCTACACGTCATGTTCAAAAATA-TTTGCTACACACCATTGCCAT
* *
21779203 AAAAAATTTTCTACACATCATGTTCAAACAT-TTTGCTACA
1 AAAAAA-TTTCTACACGTCATGTTCAAAAATATTTGCTACA
21779243 TGCCATGCCA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
51 6 0.08
52 12 0.16
53 38 0.50
54 20 0.26
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (52 bp):
AAAAAATTTCTACACGTCATGTTCAAAAATATTTGCTACACACCATTGCCAT
Found at i:21779244 original size:52 final size:51
Alignment explanation
Indices: 21779147--21779253 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 51
21779137 ACATCATTTT
*
21779147 CATAAAAAATTTCTAAACGCCATGTTCAAAAATAGTTTGCTACATGCCATTGC
1 CATAAAAAATTTCTAAACACCATGTTCAAAAATA-TTTGCTACATGCCA-TGC
* * *
21779200 CATAAAAAATTTTCTACACATCATGTTCAAACAT-TTTGCTACATGCCATGC
1 CATAAAAAA-TTTCTAAACACCATGTTCAAAAATATTTGCTACATGCCATGC
21779251 CAT
1 CAT
21779254 GTTCAATAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
51 6 0.12
52 14 0.29
53 9 0.18
54 20 0.41
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.32
Consensus pattern (51 bp):
CATAAAAAATTTCTAAACACCATGTTCAAAAATATTTGCTACATGCCATGC
Found at i:21787002 original size:12 final size:12
Alignment explanation
Indices: 21786971--21787005 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21786961 AATTATGGCT
* *
21786971 TCTCTCTCTCTC
1 TCTCTCTGTGTC
21786983 TCTCTCTGTGTC
1 TCTCTCTGTGTC
21786995 TCTCTCTGTGT
1 TCTCTCTGTGT
21787006 TGTCTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.37, G:0.11, T:0.51
Consensus pattern (12 bp):
TCTCTCTGTGTC
Found at i:21800447 original size:28 final size:29
Alignment explanation
Indices: 21800394--21800462 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
21800384 CTTGATCCCA
*
21800394 TATACCTGTTCATATACACCTTCTTCTTT
1 TATACCTGTTCATATACAACTTCTTCTTT
* *
21800423 TATATCTGTTCA-GTACAACTTCTTCTTT
1 TATACCTGTTCATATACAACTTCTTCTTT
**
21800451 GGTACCTGTTCA
1 TATACCTGTTCA
21800463 CGTATAGCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (29 bp):
TATACCTGTTCATATACAACTTCTTCTTT
Found at i:21801867 original size:19 final size:18
Alignment explanation
Indices: 21801840--21801882 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21801830 AATAATAAAT
21801840 AAATAAAATCAAGAGAAAA
1 AAATAAAATCAA-AGAAAA
* *
21801859 AAATTAAATCAAATAAAA
1 AAATAAAATCAAAGAAAA
21801877 AAATAA
1 AAATAA
21801883 GAGATGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAATAAAATCAAAGAAAA
Found at i:21803275 original size:17 final size:17
Alignment explanation
Indices: 21803255--21803287 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21803245 AAAATTATAG
21803255 AAAATA-AAATGAAAAAC
1 AAAATAGAAA-GAAAAAC
21803272 AAAATAGAAAGAAAAA
1 AAAATAGAAAGAAAAA
21803288 AAATACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAGAAAGAAAAAC
Found at i:21805985 original size:20 final size:20
Alignment explanation
Indices: 21805960--21805997 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21805950 TAATTATTTA
21805960 ATATTTATACATTTTTATCC
1 ATATTTATACATTTTTATCC
*
21805980 ATATTTATATATTTTTAT
1 ATATTTATACATTTTTAT
21805998 TAATTTATAT
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:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTATACATTTTTATCC
Found at i:21806433 original size:30 final size:31
Alignment explanation
Indices: 21806399--21806458 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 31
21806389 TTTTACACAA
*
21806399 ACACT-AATTAAATTTGAGTATTAGTTATAT
1 ACACTAAATTAAATTTGAGTACTAGTTATAT
21806429 ACACTAAAAATTAAATTTGAGTACTAGTTA
1 ACACT--AAATTAAATTTGAGTACTAGTTA
21806459 CCTGTTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
33 21 0.81
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (31 bp):
ACACTAAATTAAATTTGAGTACTAGTTATAT
Found at i:21810359 original size:40 final size:39
Alignment explanation
Indices: 21810304--21810384 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 39
21810294 AAGGGGTGTA
21810304 AGTCTCATAAACTCAGTGATAATCATCAACTTAGCAAGT
1 AGTCTCATAAACTCAGTGATAATCATCAACTTAGCAAGT
** *
21810343 NAGTCTCATTGACTCAGTGATAATCATCGACTTAGCAAGT
1 -AGTCTCATAAACTCAGTGATAATCATCAACTTAGCAAGT
21810383 AG
1 AG
21810385 GGCGTAGATG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (39 bp):
AGTCTCATAAACTCAGTGATAATCATCAACTTAGCAAGT
Found at i:21815146 original size:96 final size:95
Alignment explanation
Indices: 21814982--21815173 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 95
21814972 GTAATTTCTT
21814982 TCAGGCATTGAAATTCAATATCTTACCTACTACTGGATCAGAAAATCCTTCAAACCATTTTATTA
1 TCAGGCATTGAAATTCAATATCTTACCTACTACTGGATCAGAAAATCCTTCAAACCATTTTATTA
21815047 AACACATATACTCAACAATGCACGGCTTTG
66 AACACATATACTCAACAATGCACGGCTTTG
21815077 NTCAGGCATTGAAATTCAATATCTTACCTACTACTGGATCAGAAAATCCTTCAAACCATTTTATT
1 -TCAGGCATTGAAATTCAATATCTTACCTACTACTGGATCAGAAAATCCTTCAAACCATTTTATT
21815142 AAACACATATACTCAACAATGCACGGCTTTG
65 AAACACATATACTCAACAATGCACGGCTTTG
21815173 T
1 T
21815174 TTTAAATGTT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 1 0.01
96 95 0.99
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (95 bp):
TCAGGCATTGAAATTCAATATCTTACCTACTACTGGATCAGAAAATCCTTCAAACCATTTTATTA
AACACATATACTCAACAATGCACGGCTTTG
Found at i:21815920 original size:7 final size:7
Alignment explanation
Indices: 21815908--21816229 Score: 138
Period size: 7 Copynumber: 46.3 Consensus size: 7
21815898 GTTTCGGTTA
21815908 TTGGGGT
1 TTGGGGT
*
21815915 TTGGGGG
1 TTGGGGT
*
21815922 TTGGGGG
1 TTGGGGT
21815929 TTGGGGT
1 TTGGGGT
*
21815936 TTAGGGT
1 TTGGGGT
*
21815943 TTAGGGT
1 TTGGGGT
*
21815950 TTAGGGT
1 TTGGGGT
*
21815957 TTAGGGT
1 TTGGGGT
*
21815964 TTAGGGT
1 TTGGGGT
*
21815971 TAGGGGT
1 TTGGGGT
*
21815978 TAGGGG-
1 TTGGGGT
*
21815984 TTAGGG-
1 TTGGGGT
*
21815990 TTAGGGT
1 TTGGGGT
*
21815997 TTAGGGT
1 TTGGGGT
*
21816004 TTACGGGT
1 TT-GGGGT
*
21816012 TAGGGGT
1 TTGGGGT
*
21816019 TAGGGGT
1 TTGGGGT
* *
21816026 TAGCGGT
1 TTGGGGT
21816033 TAT-GGGT
1 T-TGGGGT
**
21816040 TTAAGGT
1 TTGGGGT
*
21816047 TAGGGG-
1 TTGGGGT
21816053 TTGGGGT
1 TTGGGGT
*
21816060 TAGGGG-
1 TTGGGGT
*
21816066 TTAGGGT
1 TTGGGGT
21816073 TTGGGGT
1 TTGGGGT
*
21816080 TGGGGGT
1 TTGGGGT
*
21816087 TTGGGTT
1 TTGGGGT
*
21816094 TTAGGGAT
1 TT-GGGGT
**
21816102 TAAGGGT
1 TTGGGGT
21816109 TT-GGGT
1 TTGGGGT
**
21816115 TTAAGGT
1 TTGGGGT
*
21816122 TTAGGGT
1 TTGGGGT
*
21816129 TAGGGGT
1 TTGGGGT
*
21816136 TAGGGGT
1 TTGGGGT
*
21816143 TTAGGGT
1 TTGGGGT
*
21816150 TAGGGG-
1 TTGGGGT
* *
21816156 ATAGGGT
1 TTGGGGT
**
21816163 TCAGGGT
1 TTGGGGT
*
21816170 TCAGGGGT
1 T-TGGGGT
**
21816178 TCAGGGT
1 TTGGGGT
*
21816185 TCAGGGGT
1 T-TGGGGT
21816193 TTGGGGT
1 TTGGGGT
*
21816200 TTAGGG-
1 TTGGGGT
21816206 TTGGGGT
1 TTGGGGT
21816213 TTAGGGGT
1 TT-GGGGT
*
21816221 TAGGGGT
1 TTGGGGT
21816228 TT
1 TT
21816230 TTTTTTTTTT
Statistics
Matches: 248, Mismatches: 54, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
6 34 0.14
7 188 0.76
8 26 0.10
ACGTcount: A:0.12, C:0.02, G:0.50, T:0.36
Consensus pattern (7 bp):
TTGGGGT
Found at i:21815927 original size:14 final size:14
Alignment explanation
Indices: 21815910--21816229 Score: 173
Period size: 14 Copynumber: 22.9 Consensus size: 14
21815900 TTCGGTTATT
* *
21815910 GGGGTTTGGGGGTTG
1 GGGG-TTGGGGTTTA
21815925 GGGGTTGGGGTTTA
1 GGGGTTGGGGTTTA
* *
21815939 GGGTTTAGGGTTTA
1 GGGGTTGGGGTTTA
* *
21815953 GGGTTTAGGGTTTA
1 GGGGTTGGGGTTTA
21815967 -GGGTTAGGGG-TTA
1 GGGGTT-GGGGTTTA
*
21815980 GGGGTTAGGG-TTA
1 GGGGTTGGGGTTTA
* *
21815993 GGGTTTAGGGTTTA
1 GGGGTTGGGGTTTA
*
21816007 CGGGTTAGGGG-TTA
1 GGGGTT-GGGGTTTA
*
21816021 GGGGTTAGCGG-TTA
1 GGGGTT-GGGGTTTA
* **
21816035 TGGGTTTAAGG-TTA
1 -GGGGTTGGGGTTTA
21816049 GGGGTTGGGG-TTA
1 GGGGTTGGGGTTTA
*
21816062 GGGGTTAGGGTTT-
1 GGGGTTGGGGTTTA
21816075 GGGGTTGGGGGTTT-
1 GGGGTT-GGGGTTTA
* * *
21816089 GGGTTTTAGGGATTA
1 GGG-GTTGGGGTTTA
* *
21816104 AGGGTTTGGGTTTA
1 GGGGTTGGGGTTTA
* * *
21816118 AGGTTTAGGG-TTA
1 GGGGTTGGGGTTTA
21816131 GGGGTTAGGGGTTTA
1 GGGGTT-GGGGTTTA
*
21816146 -GGGTTAGGGG-ATA
1 GGGGTT-GGGGTTTA
* *
21816159 -GGGTTCAGGGTTCA
1 GGGGTT-GGGGTTTA
* *
21816173 GGGGTTCAGGGTTCA
1 GGGGTT-GGGGTTTA
21816188 GGGGTTTGGGGTTTA
1 GGGG-TTGGGGTTTA
21816203 -GGGTTGGGGTTTA
1 GGGGTTGGGGTTTA
21816216 GGGGTTAGGGGTTT
1 GGGGTT-GGGGTTT
21816230 TTTTTTTTTT
Statistics
Matches: 249, Mismatches: 40, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
13 74 0.30
14 123 0.49
15 50 0.20
16 2 0.01
ACGTcount: A:0.12, C:0.02, G:0.50, T:0.35
Consensus pattern (14 bp):
GGGGTTGGGGTTTA
Found at i:21815956 original size:21 final size:21
Alignment explanation
Indices: 21815932--21816225 Score: 232
Period size: 21 Copynumber: 14.1 Consensus size: 21
21815922 TTGGGGGTTG
21815932 GGGTTTAGGGTTTAGGGTTTA
1 GGGTTTAGGGTTTAGGGTTTA
21815953 GGGTTTAGGGTTTAGGG-TTA
1 GGGTTTAGGGTTTAGGGTTTA
* *
21815973 GGGGTTAGGGGTTAGGG-TTA
1 GGGTTTAGGGTTTAGGGTTTA
21815993 GGGTTTAGGGTTTACGGG-TTA
1 GGGTTTAGGGTTTA-GGGTTTA
* *
21816014 GGGGTTAGGGGTTAGCGG-TTA
1 GGGTTTAGGGTTTAG-GGTTTA
* *
21816035 TGGGTTTAAGG-TTAGGGGTT-
1 -GGGTTTAGGGTTTAGGGTTTA
* * *
21816055 GGGGTTAGGGGTTAGGGTTTG
1 GGGTTTAGGGTTTAGGGTTTA
**
21816076 GGGTTGGGGGTTT-GGGTTTTA
1 GGGTTTAGGGTTTAGGG-TTTA
*
21816097 GGGATTAAGGGTTT-GGGTTTA
1 GGG-TTTAGGGTTTAGGGTTTA
* *
21816118 AGGTTTAGGG-TTAGGGGTTA
1 GGGTTTAGGGTTTAGGGTTTA
**
21816138 GGGGTTTAGGG-TTAGGGGATA
1 -GGGTTTAGGGTTTAGGGTTTA
* * *
21816159 GGGTTCAGGGTTCAGGGGTTCA
1 GGGTTTAGGGTTTA-GGGTTTA
* *
21816181 GGGTTCAGGGGTTTGGGGTTTA
1 GGGTTTA-GGGTTTAGGGTTTA
* *
21816203 GGG-TTGGGGTTTAGGGGTTA
1 GGGTTTAGGGTTTAGGGTTTA
21816223 GGG
1 GGG
21816226 GTTTTTTTTT
Statistics
Matches: 225, Mismatches: 35, Indels: 27
0.78 0.12 0.09
Matches are distributed among these distances:
19 10 0.04
20 83 0.37
21 88 0.39
22 39 0.17
23 5 0.02
ACGTcount: A:0.14, C:0.02, G:0.49, T:0.35
Consensus pattern (21 bp):
GGGTTTAGGGTTTAGGGTTTA
Found at i:21816227 original size:21 final size:21
Alignment explanation
Indices: 21815925--21816228 Score: 191
Period size: 20 Copynumber: 14.3 Consensus size: 21
21815915 TTGGGGGTTG
21815925 GGGGTT-GGGGTTTAGGGTTTA
1 GGGGTTAGGGG-TTAGGGTTTA
* *
21815946 GGGTTTAGGGTTTAGGGTTTA
1 GGGGTTAGGGGTTAGGGTTTA
*
21815967 -GGGTTAGGGGTTAGGGGTTA
1 GGGGTTAGGGGTTAGGGTTTA
*
21815987 -GGGTTAGGGTTTAGGGTTTA
1 GGGGTTAGGGGTTAGGGTTTA
* *
21816007 CGGGTTAGGGGTTAGGGGTTA
1 GGGGTTAGGGGTTAGGGTTTA
* *
21816028 GCGGTTATGGGTTTAAGGTTAGGGGTT-
1 GGGGTTA--GG-----GGTTAGGGTTTA
21816055 GGGGTTAGGGGTTAGGGTTT-
1 GGGGTTAGGGGTTAGGGTTTA
* *
21816075 GGGGTTGGGGGTTTGGGTTTTA
1 GGGGTTAGGGGTTAGGG-TTTA
* * *
21816097 GGGATTAAGGGTTTGGGTTTA
1 GGGGTTAGGGGTTAGGGTTTA
* * *
21816118 AGGTTTA-GGGTTAGGGGTTA
1 GGGGTTAGGGGTTAGGGTTTA
**
21816138 GGGGTTTA-GGGTTAGGGGATA
1 GGGG-TTAGGGGTTAGGGTTTA
*
21816159 -GGGTTCA-GGGTTCAGGGGTTCA
1 GGGGTT-AGGGGTT-A-GGGTTTA
*
21816181 -GGGTTCAGGGGTTTGGGGTTTA
1 GGGGTT-AGGGG-TTAGGGTTTA
*
21816203 -GGGTT-GGGGTTTAGGGGTTA
1 GGGGTTAGGGG-TTAGGGTTTA
21816223 GGGGTT
1 GGGGTT
21816229 TTTTTTTTTT
Statistics
Matches: 233, Mismatches: 32, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
19 2 0.01
20 95 0.41
21 71 0.30
22 39 0.17
23 5 0.02
24 2 0.01
25 2 0.01
27 6 0.03
28 11 0.05
ACGTcount: A:0.13, C:0.02, G:0.50, T:0.35
Consensus pattern (21 bp):
GGGGTTAGGGGTTAGGGTTTA
Done.