Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 84 of 433
Found at i:24907179 original size:18 final size:17
Alignment explanation
Indices: 24907148--24907182 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24907138 CGATTTTTTT
*
24907148 TAAAAAAAATATAATAA
1 TAAAAAAAAAATAATAA
24907165 TAAAAATAAAAATAATAA
1 TAAAAA-AAAAATAATAA
24907183 AATATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAAAAAAAAATAATAA
Found at i:24908697 original size:2 final size:2
Alignment explanation
Indices: 24908690--24908723 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24908680 TTTAAAGACA
24908690 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
24908724 TTGAAGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24913934 original size:18 final size:18
Alignment explanation
Indices: 24913911--24913948 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
24913901 AATATATATT
24913911 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
24913929 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
24913947 AA
1 AA
24913949 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:24913941 original size:13 final size:13
Alignment explanation
Indices: 24913925--24913949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24913915 CAAGTACCCA
24913925 ACCCAACCCAATT
1 ACCCAACCCAATT
24913938 ACCCAACCCAAT
1 ACCCAACCCAAT
24913950 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:24913985 original size:6 final size:6
Alignment explanation
Indices: 24913974--24914026 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
24913964 ATAATTTGAT
*
24913974 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
24914024 AAA
1 AAA
24914027 ACATATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:24914067 original size:9 final size:9
Alignment explanation
Indices: 24914055--24914095 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
24914045 ATAATTCGGT
24914055 TAATTTGGG
1 TAATTTGGG
*
24914064 TAATTAGGG
1 TAATTTGGG
*
24914073 TAATTCGGG
1 TAATTTGGG
*
24914082 TAATTTAGG
1 TAATTTGGG
24914091 TAATT
1 TAATT
24914096 CGATTAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (9 bp):
TAATTTGGG
Found at i:24914085 original size:27 final size:27
Alignment explanation
Indices: 24914046--24914114 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
24914036 TTTATACAAA
* *
24914046 TAATTCGGTTAATTTGGGTAATTAGGG
1 TAATTCGGTTAATTTAGGTAATTAGAG
* * *
24914073 TAATTCGGGTAATTTAGGTAATTCGAT
1 TAATTCGGTTAATTTAGGTAATTAGAG
24914100 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
24914115 TATACTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTTAGGTAATTAGAG
Found at i:24914112 original size:18 final size:18
Alignment explanation
Indices: 24914046--24914113 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
24914036 TTTATACAAA
* *
24914046 TAATTCGGTTAATTTGGG
1 TAATTAGGTTAATTCGGG
*
24914064 TAATTAGGGTAATTCGGG
1 TAATTAGGTTAATTCGGG
**
24914082 TAATTTAGG-TAATTCGAT
1 TAA-TTAGGTTAATTCGGG
*
24914100 TAATTCGGTTAATT
1 TAATTAGGTTAATT
24914114 TTATACTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.10
18 33 0.79
19 5 0.12
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.43
Consensus pattern (18 bp):
TAATTAGGTTAATTCGGG
Found at i:24914470 original size:31 final size:31
Alignment explanation
Indices: 24914432--24914491 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
24914422 TGTAATGTTA
24914432 GTCATGTGATACTTTAACTCAATTAAAAAGT
1 GTCATGTGATACTTTAACTCAATTAAAAAGT
* *
24914463 GTCATGTGATACTTTAATTTAATTAAAAA
1 GTCATGTGATACTTTAACTCAATTAAAAA
24914492 TTATCATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (31 bp):
GTCATGTGATACTTTAACTCAATTAAAAAGT
Found at i:24914563 original size:16 final size:16
Alignment explanation
Indices: 24914544--24914584 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24914534 AAAAAATTTA
*
24914544 ATAAATAAATAAAATT
1 ATAAATAAATAAAAAT
24914560 AT-AATAAAATAAAAAT
1 ATAAAT-AAATAAAAAT
24914576 ATAAA-AAAT
1 ATAAATAAAT
24914585 TGTTAGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 7 0.32
16 13 0.59
17 2 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAATAAATAAAAAT
Found at i:24914564 original size:19 final size:19
Alignment explanation
Indices: 24914536--24914572 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24914526 AATAGATTAA
24914536 AAAATTTAAT-AAATAAAT
1 AAAATTTAATAAAATAAAT
24914554 AAAATTATAATAAAATAAA
1 AAAATT-TAATAAAATAAA
24914573 AATATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTTAATAAAATAAAT
Found at i:24915407 original size:25 final size:26
Alignment explanation
Indices: 24915362--24915416 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
24915352 TTTTATTTTC
*
24915362 TTTTTCATTTTCTCTAATTC-TCCTT
1 TTTTTCATTTTCTCTAATTCTTCCAT
* * *
24915387 TTTTTCTTTTTCTTTACTTCTTCCAT
1 TTTTTCATTTTCTCTAATTCTTCCAT
24915413 TTTT
1 TTTT
24915417 CAAAGATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTCATTTTCTCTAATTCTTCCAT
Found at i:24925951 original size:2 final size:2
Alignment explanation
Indices: 24925940--24925978 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
24925930 TTGTTTCTTT
24925940 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24925979 GTTTATATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24926456 original size:3 final size:3
Alignment explanation
Indices: 24926450--24926548 Score: 96
Period size: 3 Copynumber: 33.7 Consensus size: 3
24926440 AATAAGATTA
** ** **
24926450 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA- AAT TTT TTT TCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
24926496 AAT -AT AAT AAG ATT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24926541 AAT AAT AA
1 AAT AAT AA
24926549 AAAATAAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
2 6 0.07
3 75 0.90
4 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:24926498 original size:61 final size:63
Alignment explanation
Indices: 24926422--24926545 Score: 234
Period size: 61 Copynumber: 2.0 Consensus size: 63
24926412 GTCATATTCT
24926422 AATTTATTTTTCTAATATAATAAGATTAAATAATAATAATAATAATAATAATAATAA-AATAA
1 AATTTATTTTTCTAATATAATAAGATTAAATAATAATAATAATAATAATAATAATAATAATAA
24926484 AATTT-TTTTTCTAATATAATAAGATTAAATAATAATAATAATAATAATAATAATAATAATAA
1 AATTTATTTTTCTAATATAATAAGATTAAATAATAATAATAATAATAATAATAATAATAATAA
24926546 TAAAAAATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 51 0.84
62 10 0.16
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (63 bp):
AATTTATTTTTCTAATATAATAAGATTAAATAATAATAATAATAATAATAATAATAATAATAA
Found at i:24928101 original size:2 final size:2
Alignment explanation
Indices: 24928094--24928124 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
24928084 CAAATTAGCT
24928094 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24928125 GGAATTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24929872 original size:188 final size:188
Alignment explanation
Indices: 24929555--24929930 Score: 716
Period size: 188 Copynumber: 2.0 Consensus size: 188
24929545 AAATTATTTT
* *
24929555 ATTATTATTTTGGGGTTATAGCATGTTAATATTAGTGTATGGAAAATTTGGTGAATTAATTTTAG
1 ATTATTATTTTGGGGTTATAGCATGTCAATATTAGTGTATGGAAAATTTGGCGAATTAATTTTAG
24929620 CGATGGCTTGCTCAATTGTGAAAAAGGACTAAATCGCATAAAAGGAAAAAGTTGCAAACTAGTGC
66 CGATGGCTTGCTCAATTGTGAAAAAGGACTAAATCGCATAAAAGGAAAAAGTTGCAAACTAGTGC
*
24929685 CCAAATGTGTCAATTAGCTAGAGGAATTAAATTGGGGGTCTTTAAAGGGCAAATAGAC
131 CCAAATGTGTCAATTAGCTAGAGGAATTAAATTGGGGGTCTTTAAAGGGAAAATAGAC
24929743 ATTATTATTTTGGGGTTATAGCATGTCAATATTAGTGTATGGAAAATTTGGCGAATTAATTTTAG
1 ATTATTATTTTGGGGTTATAGCATGTCAATATTAGTGTATGGAAAATTTGGCGAATTAATTTTAG
24929808 CGATGGCTTGCTCAATTGTGAAAAAGGACTAAATCGCATAAAAGGAAAAAGTTGCAAACTAGTGC
66 CGATGGCTTGCTCAATTGTGAAAAAGGACTAAATCGCATAAAAGGAAAAAGTTGCAAACTAGTGC
*
24929873 CCAAATGTGTCAATTAGCTAGAGGACTTAAATTGGGGGTCTTTAAAGGGAAAATAGAC
131 CCAAATGTGTCAATTAGCTAGAGGAATTAAATTGGGGGTCTTTAAAGGGAAAATAGAC
24929931 CCTTAGGGAG
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (188 bp):
ATTATTATTTTGGGGTTATAGCATGTCAATATTAGTGTATGGAAAATTTGGCGAATTAATTTTAG
CGATGGCTTGCTCAATTGTGAAAAAGGACTAAATCGCATAAAAGGAAAAAGTTGCAAACTAGTGC
CCAAATGTGTCAATTAGCTAGAGGAATTAAATTGGGGGTCTTTAAAGGGAAAATAGAC
Found at i:24930163 original size:12 final size:12
Alignment explanation
Indices: 24930146--24930170 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24930136 ATGTAAGTGA
24930146 TCTTGATGATTT
1 TCTTGATGATTT
24930158 TCTTGATGATTT
1 TCTTGATGATTT
24930170 T
1 T
24930171 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:24930953 original size:47 final size:48
Alignment explanation
Indices: 24930881--24931148 Score: 210
Period size: 47 Copynumber: 5.7 Consensus size: 48
24930871 ACTTGTGTGT
* *
24930881 GCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCACATTATGGAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATGGAA
*
24930927 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-TGA-GATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATG--GA-A
* * *
24930975 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATGGAA
* * *
24931021 GGC-AGTGTAA-AACATGTCTGGGACAT-GCATTGGCTACGA-GAT-GATA
1 -GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATGATGGA-A
* *
24931067 G-TCAGTGTAAGACCATGCCTGGGACATGGCATC-G--ACTTGA-GGTATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATGG-A--A
* *
24931114 GCCAGTGTAAGACCATGTCTGGGACATAGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
24931149 TACCTTACCC
Statistics
Matches: 181, Mismatches: 19, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
45 9 0.05
46 62 0.34
47 83 0.46
48 26 0.14
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATGATGGAA
Found at i:24931099 original size:94 final size:94
Alignment explanation
Indices: 24930879--24931148 Score: 277
Period size: 94 Copynumber: 2.9 Consensus size: 94
24930869 TCACTTGTGT
* ** *
24930879 GTGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGGAAGCTAGTGTAAGAACATG
24930944 TCTGGGACATGGCATCGGCACTGAGATGA
66 TCTGGGACATGGCATCGGCACTGAGATGA
* *
24930973 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAAGGC-AGTGTAA-AACAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGGAA-GCTAGTGTAAGAACAT
*
24931036 GTCTGGGACAT-GCATTGGCTAC-GAGATGA
65 GTCTGGGACATGGCATCGGC-ACTGAGATGA
* * *** * *
24931065 -TAG-TCAGTGTAAGACCATGCCTGGGACATGGCATCGACTTGAGGTAT-G-AGCCAGTGTAAGA
1 GT-GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAAG-ATGGAAGCTAGTGTAAGA
* *
24931126 CCATGTCTGGGACATAGCATCGG
61 ACATGTCTGGGACATGGCATCGG
24931149 TACCTTACCC
Statistics
Matches: 151, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
91 2 0.01
92 26 0.17
93 38 0.25
94 75 0.50
95 10 0.07
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGGAAGCTAGTGTAAGAACATG
TCTGGGACATGGCATCGGCACTGAGATGA
Found at i:24938521 original size:14 final size:14
Alignment explanation
Indices: 24938502--24938528 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24938492 AGTCCAATCC
24938502 AAAATAAACCAAAA
1 AAAATAAACCAAAA
24938516 AAAATAAACCAAA
1 AAAATAAACCAAA
24938529 CCAAAAACAA
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:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAATAAACCAAAA
Found at i:24939271 original size:20 final size:20
Alignment explanation
Indices: 24939246--24939285 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24939236 TTTTATTATC
24939246 AAAGCATATCTTCAAAACAT
1 AAAGCATATCTTCAAAACAT
24939266 AAAGCATATCTTCAAAACAT
1 AAAGCATATCTTCAAAACAT
24939286 CAATTTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAGCATATCTTCAAAACAT
Found at i:24940550 original size:20 final size:20
Alignment explanation
Indices: 24940525--24940564 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24940515 TATAATTTCA
24940525 TTCAATTCCCACTTTAAACT
1 TTCAATTCCCACTTTAAACT
24940545 TTCAATTCCCACTTTAAACT
1 TTCAATTCCCACTTTAAACT
24940565 AAATTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (20 bp):
TTCAATTCCCACTTTAAACT
Found at i:24940977 original size:5 final size:5
Alignment explanation
Indices: 24940967--24941055 Score: 178
Period size: 5 Copynumber: 17.8 Consensus size: 5
24940957 ATTTAATTAT
24940967 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
24941017 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
24941056 TATTCTTAAG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 84 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:24941122 original size:19 final size:20
Alignment explanation
Indices: 24941084--24941123 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24941074 AGTATAATTT
*
24941084 ATTATTTTATACATATGTAA
1 ATTATTTTATACACATGTAA
*
24941104 ATTATTTT-TACCCATGTAA
1 ATTATTTTATACACATGTAA
24941123 A
1 A
24941124 CACCAACTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTATTTTATACACATGTAA
Found at i:24947343 original size:22 final size:22
Alignment explanation
Indices: 24947315--24947379 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
24947305 GCAAATACGT
*
24947315 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
24947337 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
24947359 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
24947380 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:24947866 original size:27 final size:27
Alignment explanation
Indices: 24947810--24948300 Score: 657
Period size: 27 Copynumber: 18.3 Consensus size: 27
24947800 GGGCCAAAAT
* * * *
24947810 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
24947836 AGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24947863 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
24947890 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24947917 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24947944 GGTAATTCTACTCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24947971 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24947998 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
24948025 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24948051 TGATAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* **
24948079 GGTAATTCTACCTTATGGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
24948106 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24948133 GGTAATTCTATCCTACAGGGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
24948160 GATAATTCTACCCTACAGAGGTGTTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
24948187 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24948214 GGTAATTGTATCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24948240 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24948267 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24948294 GATAATT
1 GGTAATT
24948301 TTACAAACCA
Statistics
Matches: 406, Mismatches: 53, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
26 40 0.10
27 362 0.89
28 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:24948312 original size:27 final size:27
Alignment explanation
Indices: 24948282--24948409 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
24948272 TTCTACCCTA
**
24948282 CAGGGGTATTGCGATAATTTTACAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
* * *
24948309 CAGGGGTATTTTGTTGATTTTATAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
* * * *
24948336 CAAGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
*
24948363 CAAGGGTATTTT-AGTAATTTTACAAAC
1 CAGGGGTATTTTGA-TAATTTTACAAAC
* *
24948390 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGATAATTT
24948410 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAC
Found at i:24948418 original size:27 final size:27
Alignment explanation
Indices: 24948296--24948409 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
24948286 GGTATTGCGA
* * *
24948296 TAATTTTACAAACCAGGGGTATTTTGT
1 TAATTTTATAAACCAAGGGTATTTTGG
*
24948323 TGATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
* *
24948350 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTATAAACCAAGGGTATTTTGG
* * *
24948377 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
24948404 TAATTT
1 TAATTT
24948410 GGTAAACTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTATAAACCAAGGGTATTTTGG
Found at i:24953299 original size:31 final size:31
Alignment explanation
Indices: 24953239--24953374 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
24953229 TAACCCATTA
* * *
24953239 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * * *
24953269 TAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
24953300 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* *
24953331 CAAAATCAGAATTAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
24953362 CAAAAATCAGAAT
1 C-AGAATCAGAAT
24953375 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
30 14 0.16
31 63 0.70
32 13 0.14
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:24953303 original size:6 final size:6
Alignment explanation
Indices: 24953255--24953374 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
24953245 AAGAAACATT
* * *
24953255 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
24953304 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATTAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
24953355 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
24953375 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 13 0.15
8 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:24953559 original size:27 final size:26
Alignment explanation
Indices: 24953511--24953612 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
24953501 GCTCAGTTAT
* * *
24953511 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
24953538 TAGATATTGTGGCAAAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
* *
24953564 CAAATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
*
24953592 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
24953613 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.08
27 51 0.81
28 7 0.11
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:24953799 original size:22 final size:22
Alignment explanation
Indices: 24953771--24953835 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
24953761 GCAAATACGT
*
24953771 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
24953793 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
24953815 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
24953836 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:24954320 original size:27 final size:27
Alignment explanation
Indices: 24954262--24954699 Score: 578
Period size: 27 Copynumber: 16.3 Consensus size: 27
24954252 GGGCCAAAAT
* * * *
24954262 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24954288 GATAATT-TCACCCTACAGGGGTATTTT
1 GGTAATTCT-ACCCTACAGGGGTATTTC
*
24954315 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24954342 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24954369 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
24954396 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24954423 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24954450 GATAATTCTACCCTCCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24954477 GATAATTCTACCCT-CTAGGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* *
24954504 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
24954531 GGTAATTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24954558 GGTAATTCTACCCTACGGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24954585 GATAATTCTACCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24954612 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24954639 GGTAATTCTACCTTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24954665 TGGTATTTCTACCCTACAGGGGTATTGC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
24954693 GATAATT
1 GGTAATT
24954700 TTACAAACCA
Statistics
Matches: 365, Mismatches: 40, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
25 1 0.00
26 17 0.05
27 343 0.94
28 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:24954711 original size:27 final size:27
Alignment explanation
Indices: 24954681--24954808 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
24954671 TTCTACCCTA
**
24954681 CAGGGGTATTGCGATAATTTTACAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
* * *
24954708 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
* * * *
24954735 CAAGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
*
24954762 CAAGGGTATTTT-AGTAATTTTACAAAC
1 CAGGGGTATTTTGA-TAATTTTACAAAC
* *
24954789 CTGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGATAATTT
24954809 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAC
Found at i:24954815 original size:27 final size:27
Alignment explanation
Indices: 24954695--24954808 Score: 156
Period size: 27 Copynumber: 4.2 Consensus size: 27
24954685 GGTATTGCGA
* *
24954695 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
*
24954722 TGATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
* *
24954749 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTATAAACCAAGGGTATTTTGG
* **
24954776 TAATTTTACAAACCTGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
24954803 TAATTT
1 TAATTT
24954809 GGTAAACTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTATAAACCAAGGGTATTTTGG
Found at i:24956746 original size:55 final size:54
Alignment explanation
Indices: 24956590--24956786 Score: 164
Period size: 53 Copynumber: 3.6 Consensus size: 54
24956580 TTTCCTTTTT
* * * * ** *
24956590 AAACTTACCATTGCCATGTCTTGACATACTCTTACGTG-GTATCCTTGCCTTAT-
1 AAACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAG-ATCCTTGCCTTATA
* * * * * *
24956643 GAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATA
1 AAACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTATA
** * * * ** *
24956697 ATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA
1 A-AACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTATA
*
24956752 AAACTTACCAATTTCATGCCTTGGCATGGTCTTAC
1 AAACTTACCAATGTCATGCCTTGGCATGGTCTTAC
24956787 TTGGTATCCT
Statistics
Matches: 113, Mismatches: 28, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
53 43 0.38
54 29 0.26
55 41 0.36
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
AAACTTACCAATGTCATGCCTTGGCATGGTCTTACATGAGATCCTTGCCTTATA
Found at i:24956797 original size:54 final size:54
Alignment explanation
Indices: 24956619--24956797 Score: 182
Period size: 55 Copynumber: 3.3 Consensus size: 54
24956609 CTTGACATAC
* * * *
24956619 TCTTACGTGGTATCCTTGCCTTAT-GAACTCACC-ATTGCCATGCCTTGGCATGG
1 TCTTACATGGTATCCTTGCCTTATAAAACTTACCAATT-TCATGCCTTGGCATGG
* * ** * * * *
24956672 TCTTACATGGGATCTTTGCCTTATAATAGTTTATCAATGTCATGTCTTGACATGG
1 TCTTACATGGTATCCTTGCCTTATAA-AACTTACCAATTTCATGCCTTGGCATGG
* * *
24956727 TCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATTTCATGCCTTGGCATGG
1 TCTTACATGGTATCCTTGCCTTATAAAACTTACCAATTTCATGCCTTGGCATGG
*
24956781 TCTTACTTGGTATCCTT
1 TCTTACATGGTATCCTT
24956798 AAACCCTAAT
Statistics
Matches: 97, Mismatches: 26, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
53 21 0.22
54 36 0.37
55 38 0.39
56 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (54 bp):
TCTTACATGGTATCCTTGCCTTATAAAACTTACCAATTTCATGCCTTGGCATGG
Found at i:24962437 original size:96 final size:96
Alignment explanation
Indices: 24962286--24962547 Score: 357
Period size: 96 Copynumber: 2.7 Consensus size: 96
24962276 ATTCCATGTT
* * * * *
24962286 CCAAACATGGTCTTCCACTGGCTCACATGTCAAGGCCGATGCCATGTCCCAGACATGGTCTTACA
1 CCAAACATGGTCTTACACTGGCTCTCATATGATGGCCGATGCCATGTCCCAGACATGGTCTTACA
*
24962351 CTAGCTCTCGTCT-CAATACCAATGCCATGCC
66 CTAGCTCTCAT-TACAATACCAATGCCATGCC
* *
24962382 CCAGACATGGTCTTACACTGGCTCTCATAATG-TGGCCAATGCCATGTCCCAGACATGGTCTTAC
1 CCAAACATGGTCTTACACTGGCTCTCAT-ATGATGGCCGATGCCATGTCCCAGACATGGTCTTAC
* * * * * *
24962446 ATTGGCTCTCATTACATTGCCGATGCCATGCT
65 ACTAGCTCTCATTACAATACCAATGCCATGCC
*
24962478 CCAAACATGGTCTTACACTGGCTCTCATATGATGGCTGATGCCATGTCCCAGACATGGTCTTACA
1 CCAAACATGGTCTTACACTGGCTCTCATATGATGGCCGATGCCATGTCCCAGACATGGTCTTACA
24962543 CTAGC
66 CTAGC
24962548 ACACATATCA
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
95 4 0.03
96 139 0.97
97 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (96 bp):
CCAAACATGGTCTTACACTGGCTCTCATATGATGGCCGATGCCATGTCCCAGACATGGTCTTACA
CTAGCTCTCATTACAATACCAATGCCATGCC
Found at i:24962532 original size:144 final size:144
Alignment explanation
Indices: 24962272--24962544 Score: 345
Period size: 144 Copynumber: 1.9 Consensus size: 144
24962262 AGGGTGAATT
* * *
24962272 GCCAATTCCATGTTCCAAACATGGTCTTCCACTGGCTCACATGTCAAGGCCGATGCCATGTCCCA
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGGCCGATGCCATGTCCCA
* * *
24962337 GACATGGTCTTACACTAGCTCTCGTCTCAATACCAATGCCATGCCCCAGACATGGTCTTACACTG
66 AACATGGTCTTACACTAGCTCTCATATCAATACCAATGCCATGCCCCAGACATGGTCTTACACTG
24962402 GCTCTCATAATGTG
131 GCTCTCATAATGTG
* * * **
24962416 GCCAATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCAT-TACATTGCCGATGCCATG-CTC
1 GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGT-CAAGGCCGATGCCATGTC-C
* * * ** *
24962479 CAAACATGGTCTTACACTGGCTCTCATAT-GATGGCTGATGCCATGTCCCAGACATGGTCTTACA
64 CAAACATGGTCTTACACTAGCTCTCATATCAAT-ACCAATGCCATGCCCCAGACATGGTCTTACA
24962543 CT
128 CT
24962545 AGCACACATA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
143 4 0.04
144 105 0.96
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (144 bp):
GCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAAGGCCGATGCCATGTCCCA
AACATGGTCTTACACTAGCTCTCATATCAATACCAATGCCATGCCCCAGACATGGTCTTACACTG
GCTCTCATAATGTG
Found at i:24962555 original size:48 final size:48
Alignment explanation
Indices: 24962279--24962544 Score: 297
Period size: 48 Copynumber: 5.5 Consensus size: 48
24962269 ATTGCCAATT
* * * * * *
24962279 CCATGTTCCAAACATGGTCTTCCACTGGCTCACATGTCAAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGATG
* * * * *
24962327 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT-ACCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCCGATG
* * *
24962375 CCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGCCGATG
* *
24962423 CCATGTCCCAGACATGGTCTTACATTGGCTCTCAT-TACATTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGGCCGATG
* * *
24962471 CCATG-CTCCAAACATGGTCTTACACTGGCTCTCATATGATGGCTGATG
1 CCATGTC-CCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGATG
24962519 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
24962545 AGCACACATA
Statistics
Matches: 183, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 176 0.96
49 4 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGATG
Found at i:24964165 original size:16 final size:17
Alignment explanation
Indices: 24964116--24964166 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
24964106 GGTGAGAAGT
24964116 AAAAGTTTAGGAGGGAAATA
1 AAAAGTTT--GAGGG-AATA
24964136 AAAAGTTTTG-GGGAATA
1 AAAAG-TTTGAGGGAATA
24964153 AAAA-TTTGAGGGAA
1 AAAAGTTTGAGGGAA
24964167 AGTAAATGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
16 5 0.17
17 8 0.28
18 3 0.10
19 1 0.03
20 5 0.17
21 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (17 bp):
AAAAGTTTGAGGGAATA
Found at i:24964172 original size:18 final size:17
Alignment explanation
Indices: 24964126--24964172 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
24964116 AAAAGTTTAG
24964126 GAGGGAAATAAAAAGTTTT
1 GAGGGAAATAAAAA--TTT
24964145 G-GGG-AATAAAAATTT
1 GAGGGAAATAAAAATTT
24964160 GAGGGAAAGTAAA
1 GAGGGAAA-TAAA
24964173 TGGGGGAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.16
16 3 0.12
17 10 0.40
18 7 0.28
19 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (17 bp):
GAGGGAAATAAAAATTT
Found at i:24964283 original size:25 final size:24
Alignment explanation
Indices: 24964255--24964301 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
24964245 AGGATGGGAA
*
24964255 GGGAGTAAAAGTTTTAGGGGAAAGT
1 GGGAGTAAAAATTTT-GGGGAAAGT
24964280 GGGAGTAAAAATTTTGGGGAAA
1 GGGAGTAAAAATTTTGGGGAAA
24964302 AATAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (24 bp):
GGGAGTAAAAATTTTGGGGAAAGT
Found at i:24967261 original size:28 final size:28
Alignment explanation
Indices: 24967221--24967290 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
24967211 GTAATAAGCC
* *
24967221 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
24967249 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24967277 TGCACACTTAGTGC
1 CGCACACTTAGTGC
24967291 CAATTTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24974929 original size:28 final size:28
Alignment explanation
Indices: 24974889--24974958 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
24974879 GTAATAAGCC
* *
24974889 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
24974917 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
24974945 TGCACACTTAGTGC
1 CGCACACTTAGTGC
24974959 CAATTTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24979872 original size:46 final size:47
Alignment explanation
Indices: 24979772--24979941 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 47
24979762 GGGTAGAATA
*
24979772 CCGATGTCATGTCCCAGACATGGTCTTACACTGGC-TCATCTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCG-AGG
** * *
24979818 TTGATG-CATGTCCCAGACAT-ATCTTACATTGGCTTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCGAGG
* * * *
24979864 CCGATG-CATGTCCCAAACAT-GTCCTACACTAGCTCTCATCTCAATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCGA-GG
24979911 -CGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
24979942 AGCTCACAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 51 0.50
47 16 0.16
48 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCGAGG
Found at i:24988789 original size:45 final size:45
Alignment explanation
Indices: 24988730--24988897 Score: 150
Period size: 45 Copynumber: 3.7 Consensus size: 45
24988720 ATGCCGAGGC
*
24988730 CATGTCCTAGACATGGTCTTACACTAGCTCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCATCTCGTAGGCCGATG
* * *
24988775 CATGTCCCAAACATGTCTTACACTGGCTTAAATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-CATCTCGTAGGCCGATG
* * *
24988821 -AAGTCCCAGACATGTCTTACACTGGCTC-TCGTC-TCAATGG-AGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCATC-TCGT--A-GGCCGATG
24988866 TCATGTCCCAGACATGGTCTTACACTAGCTCA
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCA
24988898 CAATAACCTA
Statistics
Matches: 101, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 13 0.13
45 43 0.43
46 15 0.15
47 12 0.12
48 14 0.14
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCATCTCGTAGGCCGATG
Found at i:24992157 original size:12 final size:13
Alignment explanation
Indices: 24992121--24992158 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
24992111 AAATATTTGA
24992121 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
24992134 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
24992148 CTTG-TCTTAAT
1 CTTGTTCTTAAT
24992159 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:25000601 original size:96 final size:96
Alignment explanation
Indices: 25000437--25000612 Score: 298
Period size: 96 Copynumber: 1.8 Consensus size: 96
25000427 GGGTGAATTG
* *
25000437 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAG
1 CCGATCCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
25000502 ACATGGTCTTACACTGGCTCTCATTACATTA
66 ACATGGTCTTACACTGGCTCTCATTACATTA
* * * *
25000533 CCGATCCCATGTTCCAAATATGGTCTTACACTGGCTCTCATATTGTGGCCGATGCCATGTCCCAG
1 CCGATCCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
25000598 ACATGGTCTTACACT
66 ACATGGTCTTACACT
25000613 AGCACACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
CCGATCCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTCTCATTACATTA
Found at i:25000623 original size:48 final size:48
Alignment explanation
Indices: 25000436--25000623 Score: 209
Period size: 48 Copynumber: 3.9 Consensus size: 48
25000426 AGGGTGAATT
* * * *
25000436 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGTG
* * *
25000484 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTACAT-T-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACA-TA-TTGTG
* * * * *
25000532 ACCGATCCCATGTTCCAAATATGGTCTTACACTGGCTCTCATATTGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGTG
* * *
25000580 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT
25000624 CACCCAAATG
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 110 0.96
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGTG
Found at i:25003278 original size:43 final size:43
Alignment explanation
Indices: 25003244--25003569 Score: 517
Period size: 43 Copynumber: 7.6 Consensus size: 43
25003234 CGGCATTACA
* *
25003244 CCTGCTAGGCACGAAAGCCTGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
25003287 CCTGCAAGGCACGAAGGCCCGAATACACATAACCGGCACAAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
25003330 CCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
** * *
25003373 CCTGCTAGGCACGAAGGCCCGAATACACATCATTGGCACGGAC
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
25003416 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
25003459 CCTGCTAGGCACGAAGGCCCGAATATACATCACCGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
25003502 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
25003545 CCTGCTAGGCACGAAGGCCCTAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
25003570 TAATACTAGC
Statistics
Matches: 259, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 259 1.00
ACGTcount: A:0.32, C:0.33, G:0.24, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:25003610 original size:38 final size:37
Alignment explanation
Indices: 25003562--25003664 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
25003552 GGCACGAAGG
* * * * *
25003562 CCCTAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCTGATATAATACCAGCACGAAG-CTGCGGGATTTAA
25003600 CCCTGATATAATACCAGCACGAAGCTGCGGGATTTAA
1 CCCTGATATAATACCAGCACGAAGCTGCGGGATTTAA
* **
25003637 CCCGGATATTTTACCAGCACGAAGCTGC
1 CCCTGATATAATACCAGCACGAAGCTGC
25003665 AGGTCTTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 37 0.65
38 20 0.35
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (37 bp):
CCCTGATATAATACCAGCACGAAGCTGCGGGATTTAA
Found at i:25003645 original size:37 final size:37
Alignment explanation
Indices: 25003567--25003682 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 37
25003557 GAAGGCCCTA
* * * * *
25003567 ATATAATACTAGCACTAGGCCTGCGGGATTTATCCCTG
1 ATATAATACCAGCACGAAG-CTGCGGGATTTAACCCGG
25003605 ATATAATACCAGCACGAAGCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCTGCGGGATTTAACCCGG
** ** *
25003642 ATATTTTACCAGCACGAAGCTGCAGGTCTTTAAGCCGG
1 ATATAATACCAGCACGAAGCTGC-GGGATTTAACCCGG
25003680 ATA
1 ATA
25003683 CACATCAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
37 37 0.55
38 30 0.45
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (37 bp):
ATATAATACCAGCACGAAGCTGCGGGATTTAACCCGG
Found at i:25004643 original size:2 final size:2
Alignment explanation
Indices: 25004636--25004663 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25004626 TCACTTTAAA
25004636 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
25004664 TCAACTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25008643 original size:18 final size:18
Alignment explanation
Indices: 25008608--25008645 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25008598 GAAATATTTA
*
25008608 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
25008626 TTTTGATGTATTAT-ATAT
1 TTTTGATGT-TTATAATAT
25008644 TT
1 TT
25008646 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:25008661 original size:11 final size:11
Alignment explanation
Indices: 25008645--25008675 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
25008635 ATTATATATT
25008645 TAAAAATTATA
1 TAAAAATTATA
*
25008656 TAAAAATAATA
1 TAAAAATTATA
25008667 TAAAAATTA
1 TAAAAATTA
25008676 ATACGGCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:25010545 original size:26 final size:26
Alignment explanation
Indices: 25010502--25010574 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
25010492 TTAAATATTT
*
25010502 ATAAATT-ATAATATATATTTATTATTA
1 ATAAATTAATAA-A-ATATTTATTAATA
25010529 A-AAATTAATATAAATATTT-TTAATA
1 ATAAATTAATA-AAATATTTATTAATA
*
25010554 ATATATTAATAAAATTATTTA
1 ATAAATTAATAAAA-TATTTA
25010575 AAATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 9 0.23
26 24 0.62
27 5 0.13
28 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAATTAATAAAATATTTATTAATA
Found at i:25028523 original size:18 final size:18
Alignment explanation
Indices: 25028500--25028536 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25028490 TTCAAATTTT
25028500 ATAATCTCTATTAACCTA
1 ATAATCTCTATTAACCTA
25028518 ATAATCTCTATTAACCTA
1 ATAATCTCTATTAACCTA
25028536 A
1 A
25028537 CTCAGACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATCTCTATTAACCTA
Found at i:25029896 original size:28 final size:28
Alignment explanation
Indices: 25029817--25029889 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
25029807 AAAAGGGAGG
* * *
25029817 AAAAAGAAAAGAAAGAAATG-ATAACGA
1 AAAAAAAAAAGAAAGAAAAGAAAAACGA
* *
25029844 AAAGAAAAGAAGGAAGAACAAGAAAAAC-A
1 AAA-AAAAAAAGAAAGAA-AAGAAAAACGA
25029873 AAAAAAAAAAGAAAGAA
1 AAAAAAAAAAGAAAGAA
25029890 GAGGAAACGT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
27 3 0.08
28 23 0.64
29 6 0.17
30 4 0.11
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.03
Consensus pattern (28 bp):
AAAAAAAAAAGAAAGAAAAGAAAAACGA
Found at i:25033752 original size:13 final size:13
Alignment explanation
Indices: 25033713--25033753 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
25033703 ATGGATAATC
25033713 TTTTCTTGTTTTTA
1 TTTT-TTGTTTTTA
*
25033727 TTTTTTATTTTTA
1 TTTTTTGTTTTTA
*
25033740 TTTTTTGTCTTTA
1 TTTTTTGTTTTTA
25033753 T
1 T
25033754 GCATATAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTTTGTTTTTA
Found at i:25035341 original size:5 final size:5
Alignment explanation
Indices: 25035331--25035358 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
25035321 AGGAAAAAGA
25035331 AGATG AGATG AGATG AGATG AGATG AGA
1 AGATG AGATG AGATG AGATG AGATG AGA
25035359 ACAAGTGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (5 bp):
AGATG
Found at i:25036635 original size:3 final size:3
Alignment explanation
Indices: 25036627--25036694 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
25036617 AATGGTCCGT
25036627 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25036675 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
25036695 TATTATTATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25036699 original size:3 final size:3
Alignment explanation
Indices: 25036693--25036724 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
25036683 AATAATAATA
25036693 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
25036725 GTTAAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25039046 original size:59 final size:59
Alignment explanation
Indices: 25038974--25039091 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
25038964 TATCGGGATG
25038974 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
1 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
25039033 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
1 GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
25039092 AACCGCAATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (59 bp):
GGTTTGATATGTGATGGAGGAAGTGTATTCTGGAAGTATTACTACAATTTTGGCAGTTA
Found at i:25039271 original size:24 final size:24
Alignment explanation
Indices: 25039239--25039285 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25039229 AGGTAGGATC
25039239 TGTGACTGCATCTATATCTGAATT
1 TGTGACTGCATCTATATCTGAATT
* * *
25039263 TGTGTCTGCATTTGTATCTGAAT
1 TGTGACTGCATCTATATCTGAAT
25039286 CTGAGTAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (24 bp):
TGTGACTGCATCTATATCTGAATT
Found at i:25042426 original size:3 final size:3
Alignment explanation
Indices: 25042406--25042514 Score: 127
Period size: 3 Copynumber: 36.7 Consensus size: 3
25042396 TTAGACTATA
* *
25042406 TAT TAT T-T ATAT TA- TAT TAT TGAT TAT TAT AAT TAT TAAT TGT TAT
1 TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT
**
25042452 GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25042498 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
25042515 AATAAATTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
2 7 0.08
3 78 0.85
4 7 0.08
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:25042683 original size:33 final size:31
Alignment explanation
Indices: 25042597--25042689 Score: 107
Period size: 33 Copynumber: 2.9 Consensus size: 31
25042587 ACTTGTTATA
25042597 AAATAATTTGTTTACTTAATATTAAAGTAAT
1 AAATAATTTGTTTACTTAATATTAAAGTAAT
* * * **
25042628 AAATAATTAGATTAAATT-ATATTATTGATAATT
1 AAATAATTTG-TTTACTTAATATTAAAG-TAA-T
25042661 AAATAATTTGTTTACTTAATATTAAAGTA
1 AAATAATTTGTTTACTTAATATTAAAGTA
25042690 TGATTATGAC
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
31 16 0.33
32 15 0.31
33 17 0.35
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (31 bp):
AAATAATTTGTTTACTTAATATTAAAGTAAT
Found at i:25042840 original size:33 final size:32
Alignment explanation
Indices: 25042774--25042840 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
25042764 TTAAATTAGT
* *
25042774 AGATATTTATTATTTATTAATATTAAAATTAAG
1 AGATATTTATTAATTA-TAATATTAAAAATAAG
25042807 AGATATTTATTAATTA-AATAATTATAAAATAAG
1 AGATATTTATTAATTATAAT-ATTA-AAAATAAG
25042840 A
1 A
25042841 TTTTTATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 3 0.10
32 4 0.13
33 23 0.77
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (32 bp):
AGATATTTATTAATTATAATATTAAAAATAAG
Found at i:25042936 original size:15 final size:15
Alignment explanation
Indices: 25042902--25042950 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
25042892 CGATTGTTAT
* *
25042902 ATATATTATTAAATAG
1 ATAT-TTATTAATTAA
25042918 ATATTTATTAATTAA
1 ATATTTATTAATTAA
* *
25042933 ATATATATAAATTAA
1 ATATTTATTAATTAA
25042948 ATA
1 ATA
25042951 AAAAAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATATTTATTAATTAA
Found at i:25042947 original size:19 final size:19
Alignment explanation
Indices: 25042899--25042952 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
25042889 AGACGATTGT
25042899 TATATATATT-ATTAAATA
1 TATATATATTAATTAAATA
* *
25042917 GATATTTATTAATTAAATA
1 TATATATATTAATTAAATA
* *
25042936 TATATAAATTAAATAAA
1 TATATATATTAATTAAA
25042953 AAAAAGAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TATATATATTAATTAAATA
Found at i:25043037 original size:13 final size:13
Alignment explanation
Indices: 25043021--25043076 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
25043011 AAACAGGGAG
*
25043021 AAAAAGAGAAAG-
1 AAAAAGAAAAAGA
**
25043033 AAAAAGGGAAAGA
1 AAAAAGAAAAAGA
*
25043046 AAAAAAAAAAAGA
1 AAAAAGAAAAAGA
*
25043059 AAAAAGAAAAAGG
1 AAAAAGAAAAAGA
25043072 AAAAA
1 AAAAA
25043077 CTAGAGATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
12 11 0.30
13 26 0.70
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:25043038 original size:6 final size:6
Alignment explanation
Indices: 25043019--25043076 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
25043009 AAAAACAGGG
* ** *
25043019 AGAAAA AGAGAA AGAAAA AGGGAA AGAAAAA AAAAAA AGAAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AG-AAAA AGAAAA AG-AAAA AGAAAA
25043069 AGGAAAA A
1 A-GAAAA A
25043077 CTAGAGATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
6 26 0.63
7 15 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:25043061 original size:7 final size:7
Alignment explanation
Indices: 25043041--25043076 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
25043031 AGAAAAAGGG
25043041 AAAGAAA
1 AAAGAAA
25043048 AAA-AAA
1 AAAGAAA
25043054 AAAGAAA
1 AAAGAAA
25043061 AAAGAAA
1 AAAGAAA
*
25043068 AAGGAAA
1 AAAGAAA
25043075 AA
1 AA
25043077 CTAGAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:25043818 original size:40 final size:40
Alignment explanation
Indices: 25043773--25043853 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
25043763 AATTATGGAA
* * *
25043773 TACTGAATATTGTTTTGAATACCGAATTGAACTGTGAAAT
1 TACTGAATAATGTTATGAATACCGAATTGAACTGTAAAAT
* ** *
25043813 TACTGAATAATGTTATGTATATTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTATGAATACCGAATTGAACTGTAAAAT
25043853 T
1 T
25043854 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATAATGTTATGAATACCGAATTGAACTGTAAAAT
Found at i:25044117 original size:45 final size:45
Alignment explanation
Indices: 25044066--25044172 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
25044056 CAACTACTGT
*
25044066 TACTGTTACCGTTACTGTTATCGATTCGA-CACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTATAGATT-GAGCACTTTGTGTGTCGAA
* *
25044111 TACTGTTACCGTTACTGTTATAGATTTAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTATAGATTGAGCACTTTGTGTGTCGAA
*
25044156 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
25044173 CTACTGCTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTATAGATTGAGCACTTTGTGTGTCGAA
Found at i:25044196 original size:7 final size:7
Alignment explanation
Indices: 25044184--25044208 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25044174 TACTGCTACC
25044184 ATTACTG
1 ATTACTG
25044191 ATTACTG
1 ATTACTG
25044198 ATTACTG
1 ATTACTG
25044205 ATTA
1 ATTA
25044209 GGTACTGTGT
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:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (7 bp):
ATTACTG
Found at i:25050549 original size:22 final size:22
Alignment explanation
Indices: 25050517--25050562 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
25050507 AGAAGAAAGC
**
25050517 TTATGAAGATCAGTACTAAATT
1 TTATGAAGATCAACACTAAATT
*
25050539 TTATGAGGATCAACACTAAATT
1 TTATGAAGATCAACACTAAATT
25050561 TT
1 TT
25050563 CTATTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (22 bp):
TTATGAAGATCAACACTAAATT
Found at i:25053120 original size:260 final size:260
Alignment explanation
Indices: 25052653--25053171 Score: 869
Period size: 260 Copynumber: 2.0 Consensus size: 260
25052643 AATTTTTAAC
* *
25052653 GCAAAGACAATAACTTCCAATTCTAAGCATGTGTCGAATAATTTTTTTTGTACGGCTTCAATTGT
1 GCAAACACAATAACTGCCAATTCTAAGCATGTGTCGAATAATTTTTTTTGTACGGCTTCAATTGT
25052718 CAGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAGCA
66 CAGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAGCA
* * *
25052783 TCACTGAAAATCACAAATTCTTTTCCCGATTCAGGCTGAACTAGAACGGGTGCTTCGGCCAACAG
131 TCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTAGAACGGGTGCTTCGGCCAACAG
* * ** *
25052848 TGTTTTCAACTGGTCGAAACTTTACTTACACTTGCTGGACCATTCTTATTTCACATCTTTCTATT
196 TGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTATT
* *
25052913 GCAAACACAATAACTGCCAATTCTAAGTCATGTGTTGGATAATTTTTTTTGTACGGCTTCAATTG
1 GCAAACACAATAACTGCCAATTCTAAG-CATGTGTCGAATAATTTTTTTTGTACGGCTTCAATTG
* * *
25052978 TCGGTAAGTATATGCTATTACTTTGCCTTCCTGTATCAAAACACAACCTAAA-CATATAAAGAGC
65 TCAGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAGC
* *
25053042 ATCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTATAACGGGTGCTTCGGTCAACA
130 ATCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTAGAACGGGTGCTTCGGCCAACA
25053107 GTGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTAT
195 GTGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTAT
25053172 AATAGTTGTG
Statistics
Matches: 241, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
260 157 0.65
261 84 0.35
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (260 bp):
GCAAACACAATAACTGCCAATTCTAAGCATGTGTCGAATAATTTTTTTTGTACGGCTTCAATTGT
CAGTAAGCATATGCTATTACTTTGCCTTCCTGCATCAAAACACAACCTAAACCATATAAAGAGCA
TCACTAAAAATCACAAATTCTTTTCCCGATTCAAGCTAAACTAGAACGGGTGCTTCGGCCAACAG
TGCTTTCAACTGGTCGAAACTTTACTGACACTTGCCAGACCATTCATATTTCACATCTTTCTATT
Found at i:25055665 original size:27 final size:28
Alignment explanation
Indices: 25055635--25055704 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
25055625 ATAGTGAATC
*
25055635 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
25055662 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
25055690 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25055705 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:25055776 original size:42 final size:42
Alignment explanation
Indices: 25055712--25055818 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
25055702 GCTGTACAAT
* *
25055712 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
25055754 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
25055796 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
25055819 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:25062849 original size:27 final size:28
Alignment explanation
Indices: 25062819--25062888 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
25062809 ATAGTGAATC
*
25062819 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
25062846 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
25062874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25062889 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:25062960 original size:42 final size:42
Alignment explanation
Indices: 25062896--25063002 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
25062886 GCTGTACAAT
* *
25062896 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
25062938 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
25062980 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
25063003 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:25068274 original size:12 final size:12
Alignment explanation
Indices: 25068259--25068285 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25068249 CGTAGCCAGT
25068259 GATGAATTGACG
1 GATGAATTGACG
25068271 GATGAATTGACG
1 GATGAATTGACG
25068283 GAT
1 GAT
25068286 AAGACCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (12 bp):
GATGAATTGACG
Found at i:25068395 original size:35 final size:35
Alignment explanation
Indices: 25068313--25068538 Score: 294
Period size: 35 Copynumber: 6.5 Consensus size: 35
25068303 GTGGCAAAGT
*
25068313 TATGATACGTAGGTATGGCATCGTCCATACCGAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
25068348 T-TGATAAGTAGGTATGGCATCGACCATACTGAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
*
25068382 TATGATACGTAGGTATGGCATCGTCCATACTGAAC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
25068417 TATGATACGTAGGTATGGCATTGTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * *
25068452 TATGACATGTAGGTATGGCATCGTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * ** *
25068487 TATGAAACGTAGGTATGGTATTTTCCATACCGAG-
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
25068521 TATGAAATGTAGGTATGG
1 TATGATACGTAGGTATGG
25068539 TATTTCAATG
Statistics
Matches: 171, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
34 48 0.28
35 123 0.72
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (35 bp):
TATGATACGTAGGTATGGCATCGTCCATACTGAGC
Found at i:25070737 original size:38 final size:39
Alignment explanation
Indices: 25070658--25070751 Score: 127
Period size: 38 Copynumber: 2.4 Consensus size: 39
25070648 CATGGCATGA
* * * *
25070658 AAGTGCTATCAGGAGTACCGAAATACAATAGGGGCATGT
1 AAGTGCGATCAGGGGTACCGAAATACAACAGGGGCACGT
* *
25070697 AAGTGTGATCAGGGGTA-CGAAGTACAACAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAATACAACAGGGGCACGT
25070735 AAGTGCGATCAGGGGTA
1 AAGTGCGATCAGGGGTA
25070752 TAATTATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 34 0.71
39 14 0.29
ACGTcount: A:0.33, C:0.15, G:0.34, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAATACAACAGGGGCACGT
Found at i:25070749 original size:20 final size:20
Alignment explanation
Indices: 25070687--25070749 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
25070677 GAAATACAAT
* *
25070687 AGGGGCATGTAAGTGTGATC
1 AGGGGCACGTAAGTGCGATC
* * *
25070707 AGGGGTACG-AAGTAC-AAC
1 AGGGGCACGTAAGTGCGATC
25070725 AGGGGCACGTAAGTGCGATC
1 AGGGGCACGTAAGTGCGATC
25070745 AGGGG
1 AGGGG
25070750 TATAATTATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 14 0.42
ACGTcount: A:0.29, C:0.14, G:0.41, T:0.16
Consensus pattern (20 bp):
AGGGGCACGTAAGTGCGATC
Found at i:25072272 original size:25 final size:25
Alignment explanation
Indices: 25072238--25072288 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
25072228 GATAGCATCC
*
25072238 GAACCGTTAAAAAGTTTCTAGATGT
1 GAACCGTTAAAAAGTTTCCAGATGT
*
25072263 GAACCGTTAAAAGGTTTCCAGATGT
1 GAACCGTTAAAAAGTTTCCAGATGT
25072288 G
1 G
25072289 TTGTCGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (25 bp):
GAACCGTTAAAAAGTTTCCAGATGT
Found at i:25077599 original size:17 final size:17
Alignment explanation
Indices: 25077579--25077611 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25077569 ATCATGAAGG
25077579 AAAGAATGAAATGAATA
1 AAAGAATGAAATGAATA
25077596 AAAGAATGAAATGAAT
1 AAAGAATGAAATGAAT
25077612 GCTAAGGCTT
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:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAGAATGAAATGAATA
Found at i:25078577 original size:26 final size:26
Alignment explanation
Indices: 25078540--25078675 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
25078530 TGATACAAAT
* *
25078540 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25078566 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
25078592 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25078618 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
25078644 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
25078670 TGATAA
1 TGATAA
25078676 GAAATTCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:25080179 original size:26 final size:26
Alignment explanation
Indices: 25080150--25080202 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25080140 TTTACAGTTT
25080150 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
25080176 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
25080202 T
1 T
25080203 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:25086259 original size:34 final size:33
Alignment explanation
Indices: 25086221--25086322 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 33
25086211 TAAACACATG
* *
25086221 ATAAGCATAGTATTTGCCACCGTATTGAACTGTT
1 ATAAGCATATTA-TTGCCACCGTATTGATCTGTT
* * *
25086255 ATAAGCATATTGATTGCTACCATATTGTTCTGTT
1 ATAAGCATATT-ATTGCCACCGTATTGATCTGTT
* *
25086289 AAAAGCATATTAAATGCCACCGTATTGATCTGTT
1 ATAAGCATATT-ATTGCCACCGTATTGATCTGTT
25086323 TTGAAAATGC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 55 0.98
35 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
ATAAGCATATTATTGCCACCGTATTGATCTGTT
Found at i:25086617 original size:45 final size:44
Alignment explanation
Indices: 25086531--25086620 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 44
25086521 ATTTGCATTA
* * *
25086531 TTTTTTTGTGTACCCACAACCATAGACAGATTCCATTTGTGGTG
1 TTTTTTTGTGTACCCACAACCATAGACAAATTACATCTGTGGTG
* * * *
25086575 TTTTTGTTGTGTATCCACAGCTATAGGCAAATTACATCTGTGGTG
1 TTTTT-TTGTGTACCCACAACCATAGACAAATTACATCTGTGGTG
25086620 T
1 T
25086621 CAAAGATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 5 0.13
45 33 0.87
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (44 bp):
TTTTTTTGTGTACCCACAACCATAGACAAATTACATCTGTGGTG
Found at i:25097384 original size:39 final size:40
Alignment explanation
Indices: 25097336--25097468 Score: 189
Period size: 39 Copynumber: 3.3 Consensus size: 40
25097326 AGACTAAGAT
25097336 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTC
* * *
25097375 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTC
* *
25097415 CCGAAGGCATTTGGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTT-GTGCGAGTTACTAAT-TCCGGGCTAAGTC
25097456 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25097469 AACGAGTAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
39 35 0.42
40 14 0.17
41 34 0.41
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTC
Found at i:25097439 original size:41 final size:41
Alignment explanation
Indices: 25097336--25097468 Score: 202
Period size: 41 Copynumber: 3.3 Consensus size: 41
25097326 AGACTAAGAT
*
25097336 CCGAAGGCATTT-GTGCGAGTTACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGGTGCGAGTTACTAAATCCGGGCTAAGTC
*
25097375 CCGAAGGCA-TTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGGTGCGAGTTACTAAATCCGGGCTAAGTC
*
25097415 CCGAAGGCATTTGGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGGTGCGAGTTACTA-AATCCGGGCTAAGTC
25097456 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25097469 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
38 2 0.02
39 33 0.38
40 10 0.12
41 39 0.45
42 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
CCGAAGGCATTTGGTGCGAGTTACTAAATCCGGGCTAAGTC
Found at i:25097498 original size:79 final size:78
Alignment explanation
Indices: 25097335--25097500 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 78
25097325 CAGACTAAGA
* **
25097335 TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTA
*
25097400 AATCCGGGTTAAGT
66 AATCC-GGTTAAAT
* * *
25097414 CCCGAAGGCATTTGGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TA
1 TCCGAAGGCATTT-GTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA
*
25097477 GCTATATCC-GTTAAAT
63 -CTAAATCCGGTTAAAT
25097493 TCCGAAGG
1 TCCGAAGG
25097501 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
79 27 0.36
80 23 0.31
81 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTA
AATCCGGTTAAAT
Found at i:25105421 original size:40 final size:39
Alignment explanation
Indices: 25105364--25105548 Score: 151
Period size: 40 Copynumber: 4.6 Consensus size: 39
25105354 TCGAATGATG
25105364 TCCGGGCTAAGTCCCGAAGGC-TTTGCGCTGAGTGACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGCGC-GAGTGACTAAT
* * *
25105403 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGCGCGAGTGACTAAT
* * * * * *
25105444 TCCGGGCTAAGCCCGAAGGCCTTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGCGCGAGTGACTAAT
* * * *
25105483 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGCGCGAGTGACTAAT
* *
25105522 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
25105549 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGCGCGAGTGACTAAT
Found at i:25105500 original size:79 final size:81
Alignment explanation
Indices: 25105364--25105543 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 81
25105354 TCGAATGATG
* *
25105364 TCCGGGCTAAGTCCCGAAGG-CTTTGCGCTGAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCCTTGGCGCTGAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
25105428 TGTGCGAGTTACTA-A
66 GGTGCGAGTTACTATA
* * **
25105443 TTCCGGGCTAAG-CCCGAAGGCCTTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCCTTGGCGCTGAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
25105505 TTGGTGCGAGTTACTATA
64 TTGGTGCGAGTTACTATA
* *
25105523 ACCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
25105544 ATTTGAATGA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.68
80 27 0.31
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCCTTGGCGCTGAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
GGTGCGAGTTACTATA
Found at i:25105570 original size:79 final size:77
Alignment explanation
Indices: 25105365--25105581 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 77
25105355 CGAATGATGT
** * *
25105365 CCGGGCTAAGTCCCGAAGGCTTTGCGCTGAGT-GACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCTTTG-AATGAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATTG
*
25105429 GTGCGAGTTACTAATT
62 GTGCGAGTTACTAATA
* * *
25105445 CCGGGCTAAG-CCCGAAGGCCTTG-GTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCTTTGAAT--GAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATT
25105507 GGTGCGAGTTACT-ATAA
61 GGTGCGAGTTACTAAT-A
* *
25105524 CCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGC-TTTGAATGAGTAGCTATATCCGGTT-AAGTCCGAAGG
25105582 TACGTGATTC
Statistics
Matches: 114, Mismatches: 11, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
77 1 0.01
78 3 0.03
79 71 0.62
80 35 0.31
81 3 0.03
82 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCTTTGAATGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTGGTGC
GAGTTACTAATA
Found at i:25109966 original size:49 final size:49
Alignment explanation
Indices: 25109894--25110019 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
25109884 AGATGTCGAC
* *
25109894 GCCATGTCCCAGATAGGTCTTACACTGAATTTCATATATCGAG-GCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGAATCTCATATATC-AGTGCCAAT
* ** * ***
25109943 GCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCAGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCAGTGCCAAT
25109992 GCCATGTCCCAGACAGGTCTTACACTGA
1 GCCATGTCCCAGACAGGTCTTACACTGA
25110020 CACACAACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 2 0.03
49 63 0.97
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCAGTGCCAAT
Found at i:25110104 original size:48 final size:47
Alignment explanation
Indices: 25110038--25110155 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 47
25110028 AAGCTGACGC
* * * *
25110038 CATGTCCCAGACAAGTCTTACACTA-GCT-TGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGGCTCT-CATA-AT-GAGGCCAATG
* *
25110086 CATGTCCCAAACATGTCTTACA-TAGGCTCTCATAATGTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGGCTCTCATAATGAGGCCAATG
25110132 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
25110156 GGCACACATA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
46 29 0.48
47 4 0.07
48 26 0.43
49 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGGCTCTCATAATGAGGCCAATG
Found at i:25114985 original size:27 final size:27
Alignment explanation
Indices: 25114948--25115012 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
25114938 AGCATAGCTG
* *
25114948 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATATGGCAAAGCCA
* * *
25114975 CCAGTATCAGTAATTATGGCATAGCCA
1 CCAGTAACAGTAAATATGGCAAAGCCA
25115002 CCAGTAACAGT
1 CCAGTAACAGT
25115013 GAACCAGTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTAAATATGGCAAAGCCA
Found at i:25115225 original size:27 final size:27
Alignment explanation
Indices: 25115164--25115402 Score: 275
Period size: 27 Copynumber: 8.9 Consensus size: 27
25115154 GGGCTACTCA
* * * *
25115164 TCATTTTGCCATACAGGGGTATCACGG
1 TCATTTTACCCTACAGGGGTATTACAG
* * * *
25115191 CCACTTTACCCGACAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
*
25115218 TCATTTTACCCTACAGGGGTATTA-TG
1 TCATTTTACCCTACAGGGGTATTACAG
* *
25115244 ATCATTTTACCCTATAGGGTTATTACAG
1 -TCATTTTACCCTACAGGGGTATTACAG
* *
25115272 TCATTTTACCCTATAGGGGTATTACAA
1 TCATTTTACCCTACAGGGGTATTACAG
* * *
25115299 TTATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACAG
25115326 TCATTTTACCCTACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* * *
25115353 TCATTTTACCCTACAAGGATATTACGG
1 TCATTTTACCCTACAGGGGTATTACAG
*
25115380 TCATTTTACTCTACA-GGGTATTA
1 TCATTTTACCCTACAGGGGTATTA
25115403 GCTTAGATAA
Statistics
Matches: 181, Mismatches: 29, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
26 8 0.04
27 172 0.95
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACAG
Found at i:25120232 original size:21 final size:21
Alignment explanation
Indices: 25120206--25120246 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25120196 AAAATTTCAA
25120206 GCCCAAGAGTTAGCAAACCTG
1 GCCCAAGAGTTAGCAAACCTG
* *
25120227 GCCCAAGTGTTTGCAAACCT
1 GCCCAAGAGTTAGCAAACCT
25120247 AACTCTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (21 bp):
GCCCAAGAGTTAGCAAACCTG
Found at i:25121700 original size:43 final size:42
Alignment explanation
Indices: 25121639--25121778 Score: 199
Period size: 43 Copynumber: 3.3 Consensus size: 42
25121629 TTAAAACAAT
*
25121639 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCTGCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTT-CTACAAAC
* *
25121682 GCCGCTAAAGACCATGACCTTTAGCAACGCTTTTTTTACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGACGC-TTTTCTACAAAC
* * *
25121725 GTCGCTAAAGACCATGACCTTTAACGGCGCTTTTCTCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCT-ACAAAC
25121768 GCCGCTAAAGA
1 GCCGCTAAAGA
25121779 ATATAACCTT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 5 0.06
43 77 0.90
44 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCTACAAAC
Found at i:25126001 original size:15 final size:15
Alignment explanation
Indices: 25125972--25126000 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25125962 TAAATATTAA
25125972 ATTTTTAAGTTTTTT
1 ATTTTTAAGTTTTTT
25125987 ATTTTTAA-TTTTTT
1 ATTTTTAAGTTTTTT
25126001 TTTAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
ATTTTTAAGTTTTTT
Found at i:25126028 original size:19 final size:19
Alignment explanation
Indices: 25125987--25126039 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
25125977 TAAGTTTTTT
* *
25125987 ATTTTTAATTTTTTTTTAA
1 ATTTTTAAATTTTTTTGAA
25126006 A-TTTTAAATTTTTTTGAA
1 ATTTTTAAATTTTTTTGAA
25126024 GATTTTTATAATTTTT
1 -ATTTTTA-AATTTTT
25126040 AAATTATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 5 0.17
21 7 0.24
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
ATTTTTAAATTTTTTTGAA
Found at i:25127415 original size:30 final size:30
Alignment explanation
Indices: 25127381--25127437 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25127371 CGAGCCTAGG
25127381 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
* * * *
25127411 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
25127438 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGA
Found at i:25128018 original size:68 final size:67
Alignment explanation
Indices: 25127945--25128096 Score: 175
Period size: 64 Copynumber: 2.3 Consensus size: 67
25127935 CATCATGTGT
* * * * *
25127945 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTATGTG-TACACCAT
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAGACACCAT
25128009 GTAG
64 GTAG
* * *
25128013 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAAGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGTG--AGACACCAT
25128076 GTAG
64 GTAG
25128080 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
25128097 TAAACTGCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 26 0.37
65 3 0.04
66 1 0.01
67 26 0.37
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGTGAGACACCATGT
AG
Found at i:25129777 original size:14 final size:14
Alignment explanation
Indices: 25129758--25129788 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25129748 TCGTATATTT
25129758 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
25129772 TAAACCCTAAACTA
1 TAAACCCTAAACCA
25129786 TAA
1 TAA
25129789 TAATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:25129924 original size:14 final size:14
Alignment explanation
Indices: 25129883--25129929 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
25129873 CTAATTAATT
*
25129883 TAAACCTTAAACTCT
1 TAAACCTTAAA-TCC
* *
25129898 TAATCCCTAAATCC
1 TAAACCTTAAATCC
25129912 TAAACCTTAAATCC
1 TAAACCTTAAATCC
25129926 TAAA
1 TAAA
25129930 ACATAAACCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAACCTTAAATCC
Found at i:25129927 original size:21 final size:22
Alignment explanation
Indices: 25129890--25129943 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
25129880 ATTTAAACCT
* *
25129890 TAAACTCTT-AATCCCTAAATCC
1 TAAAC-CTTAAATCCCTAAAACA
25129912 TAAACCTTAAAT-CCTAAAACA
1 TAAACCTTAAATCCCTAAAACA
*
25129933 TAAACCATAAA
1 TAAACCTTAAA
25129944 CCATGAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAACCTTAAATCCCTAAAACA
Found at i:25130523 original size:76 final size:76
Alignment explanation
Indices: 25130397--25130581 Score: 280
Period size: 76 Copynumber: 2.4 Consensus size: 76
25130387 TGAAATATTT
* * * * *
25130397 TTTTGTGGCATTTTTCAAAAAGCGCCGCTAAAGCCACTAAAAGCTTAATACAAAACAATGGCGTT
1 TTTTGCGGCATTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACAACGGCATT
25130462 TTGCAAAATTC
66 TTGCAAAATTC
** * *
25130473 TTTTGCGGCATTTTTTGGAAAGCGCCTCTAAAGCCACTAAAAGCTCAATACAAAACGACGGCATT
1 TTTTGCGGCATTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACAACGGCATT
25130538 TTGCAAAATTC
66 TTGCAAAATTC
*
25130549 TTTTGCGGCGTTTTTTAAAAAGCGCCGCTAAAG
1 TTTTGCGGCATTTTTTAAAAAGCGCCGCTAAAG
25130582 GTGTACTTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (76 bp):
TTTTGCGGCATTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACAACGGCATT
TTGCAAAATTC
Found at i:25130931 original size:39 final size:40
Alignment explanation
Indices: 25130887--25130971 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
25130877 AAGTTTTGCG
*
25130887 GCGTTTTT-AAAAAGCACCGCTAATGCTCGTTCTTTAGCA
1 GCGTTTTTCAAAAAGCACCACTAATGCTCGTTCTTTAGCA
* * *
25130926 GCGTTTTTCGAAAAGCGCCACTAATGCTCGTTCTTTGGCA
1 GCGTTTTTCAAAAAGCACCACTAATGCTCGTTCTTTAGCA
25130966 GCGTTT
1 GCGTTT
25130972 CTTATTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.20
40 33 0.80
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCACCACTAATGCTCGTTCTTTAGCA
Found at i:25138621 original size:20 final size:20
Alignment explanation
Indices: 25138596--25138633 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25138586 AAGTGCTAGA
*
25138596 TTTGAACAACAGCAGATGTT
1 TTTGAACAACAACAGATGTT
25138616 TTTGAACAACAACAGATG
1 TTTGAACAACAACAGATG
25138634 CTTTAGTAGG
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:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
TTTGAACAACAACAGATGTT
Found at i:25143335 original size:62 final size:62
Alignment explanation
Indices: 25143254--25143377 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
25143244 TGTGAAATGA
*
25143254 AAGAAAATATGGGCTGCTATAGGCAAGAAAAATATTTAGCTAGGCTTGGGTAACTTAGAAAT
1 AAGAAAATATGGGCTGCTATAGGCAAGAAAAATATTCAGCTAGGCTTGGGTAACTTAGAAAT
* * *
25143316 AAGAAAATGTTGGCTGCTATAGGCAAGAAAAATATTCGGCTAGGCTTGGGTAACTTAGAAAT
1 AAGAAAATATGGGCTGCTATAGGCAAGAAAAATATTCAGCTAGGCTTGGGTAACTTAGAAAT
25143378 TTCATGCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (62 bp):
AAGAAAATATGGGCTGCTATAGGCAAGAAAAATATTCAGCTAGGCTTGGGTAACTTAGAAAT
Found at i:25156086 original size:20 final size:20
Alignment explanation
Indices: 25156063--25156131 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
25156053 TATACTTTGG
*
25156063 TGCCTCTATTTGCACTTCGA
1 TGCCTCTATTTGCACTTCAA
* *
25156083 TGCCCCTGTTTGCACTTCAA
1 TGCCTCTATTTGCACTTCAA
*
25156103 TGCCTCTGTATTTGCACTACAA
1 TGCCTC--TATTTGCACTTCAA
25156125 TGCCTCT
1 TGCCTCT
25156132 GTTAGCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 23 0.56
22 18 0.44
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.38
Consensus pattern (20 bp):
TGCCTCTATTTGCACTTCAA
Found at i:25156119 original size:22 final size:22
Alignment explanation
Indices: 25156069--25156133 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
25156059 TTGGTGCCTC
* *
25156069 TATTTGCACTTCGATGCCCCTG
1 TATTTGCACTTCAATGCCTCTG
25156091 --TTTGCACTTCAATGCCTCTG
1 TATTTGCACTTCAATGCCTCTG
*
25156111 TATTTGCACTACAATGCCTCTG
1 TATTTGCACTTCAATGCCTCTG
25156133 T
1 T
25156134 TAGCATTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 18 0.47
22 20 0.53
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.38
Consensus pattern (22 bp):
TATTTGCACTTCAATGCCTCTG
Found at i:25156120 original size:42 final size:43
Alignment explanation
Indices: 25156069--25156153 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
25156059 TTGGTGCCTC
* * *
25156069 TATTTGCACTTCGATGCCCCTGTTTGCACTTCAATGC-CTCTG
1 TATTTGCACTACAATGCCCCTGTTAGCACTTCAATGCTCTCTG
* * *
25156111 TATTTGCACTACAATGCCTCTGTTAGCATTTCGATGCTCTCTG
1 TATTTGCACTACAATGCCCCTGTTAGCACTTCAATGCTCTCTG
25156154 GTATGTTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 31 0.86
43 5 0.14
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.39
Consensus pattern (43 bp):
TATTTGCACTACAATGCCCCTGTTAGCACTTCAATGCTCTCTG
Found at i:25158487 original size:20 final size:21
Alignment explanation
Indices: 25158464--25158510 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
25158454 TTTAAATGAG
*
25158464 AAATTCATCTTT-GAAATAAA
1 AAATTCATCTTTCAAAATAAA
* *
25158484 AAATATTATTTTTCAAAATAAA
1 AAAT-TCATCTTTCAAAATAAA
25158506 AAATT
1 AAATT
25158511 TTGTTGGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 11 0.50
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTCATCTTTCAAAATAAA
Done.