Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 18 of 210
Found at i:6247933 original size:15 final size:15
Alignment explanation
Indices: 6247915--6247943 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6247905 TAAATAAAAA
6247915 AAATATTAAATTATT
1 AAATATTAAATTATT
6247930 AAATATTAAATTAT
1 AAATATTAAATTAT
6247944 AATAATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATTAAATTATT
Found at i:6251297 original size:30 final size:31
Alignment explanation
Indices: 6251256--6251316 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
6251246 ATAAAAAAAA
* **
6251256 TAAAAAGATAAAATTATGTAT-GTATATATT
1 TAAAAAAATAAAAAAATGTATAGTATATATT
6251286 TAAAAAAATAAAAAAATGTATAAGTATATAT
1 TAAAAAAATAAAAAAATGTAT-AGTATATAT
6251317 AAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
32 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.34
Consensus pattern (31 bp):
TAAAAAAATAAAAAAATGTATAGTATATATT
Found at i:6253140 original size:89 final size:89
Alignment explanation
Indices: 6253028--6253691 Score: 1127
Period size: 89 Copynumber: 7.5 Consensus size: 89
6253018 AAGACTTGTA
* * *
6253028 TCTTCGATCTACTTCGCCACCAGTATGGGCAA-ACAAGATCTGTTCTCTTTTATCTACTTCATGC
1 TCTTCGATCTACTTCGCCACCAGTATGGG-AAGACAAGATCTGTTATCTTTGATCTACTTCACGC
*
6253092 CAATACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
* *
6253117 TCTTCGATCTACTTCGCCACCAGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
6253182 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* *
6253206 TTTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
6253271 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
* *
6253295 TCTTCGATCTACTTCGCCACCAGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
6253360 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
*
6253384 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
6253449 AGTACATGAAGACAAGATCTGTTT
66 AGTACATGAAGACAAGATCTGCTT
* * *
6253473 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATATGTTATCTTTGATCTACTTCACACC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
6253538 AGTACATGAAGACAAGATCTGCTT
66 AGTACATGAAGACAAGATCTGCTT
*
6253562 T-TTCTGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGTTATCTTTGATCTACTTCACGC
1 TCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
6253626 CAGTACATGAAGACAAGATCTGCTT
65 CAGTACATGAAGACAAGATCTGCTT
*
6253651 T-TTCCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 TCTT-CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
6253692 ACTGCTACTC
Statistics
Matches: 544, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
88 5 0.01
89 538 0.99
90 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTT
Found at i:6254985 original size:21 final size:21
Alignment explanation
Indices: 6254961--6255009 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
6254951 TTAGCCTCTC
*
6254961 CATTTTTACTTTTTCAT-TTTT
1 CATTTTT-CATTTTCATCTTTT
6254982 CATTTTTCATTTTCATCTTTT
1 CATTTTTCATTTTCATCTTTT
6255003 CATTTTT
1 CATTTTT
6255010 TCACATCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATCTTTT
Found at i:6255012 original size:8 final size:7
Alignment explanation
Indices: 6254961--6255009 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
6254951 TTAGCCTCTC
6254961 CATTTTT
1 CATTTTT
6254968 -ACTTTTT
1 CA-TTTTT
6254975 CATTTTT
1 CATTTTT
6254982 CATTTTT
1 CATTTTT
6254989 CA-TTTT
1 CATTTTT
6254995 CATCTTTT
1 CAT-TTTT
6255003 CATTTTT
1 CATTTTT
6255010 TCACATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 23 0.61
8 8 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:6255981 original size:18 final size:17
Alignment explanation
Indices: 6255958--6255996 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6255948 TGGTTTGACA
6255958 GAAAAAATCCAAAAGAAT
1 GAAAAAA-CCAAAAGAAT
**
6255976 GAAAAAACGTAAAGAAT
1 GAAAAAACCAAAAGAAT
6255993 GAAA
1 GAAA
6255997 GAACATTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.67, C:0.08, G:0.15, T:0.10
Consensus pattern (17 bp):
GAAAAAACCAAAAGAAT
Found at i:6257926 original size:19 final size:19
Alignment explanation
Indices: 6257886--6257927 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6257876 ATAATCTTTT
* *
6257886 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
6257905 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
6257924 ATGC
1 ATGC
6257928 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:6257975 original size:13 final size:13
Alignment explanation
Indices: 6257957--6257982 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6257947 TGTTTAATTT
6257957 TTTACTAGAAAAC
1 TTTACTAGAAAAC
6257970 TTTACTAGAAAAC
1 TTTACTAGAAAAC
6257983 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:6259690 original size:30 final size:31
Alignment explanation
Indices: 6259649--6259709 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
6259639 ATAAAAAAAA
* **
6259649 TAAAAAGATAAAATTATGTAT-GTATATATT
1 TAAAAAAATAAAAAAATGTATAGTATATATT
6259679 TAAAAAAATAAAAAAATGTATAAGTATATAT
1 TAAAAAAATAAAAAAATGTAT-AGTATATAT
6259710 AAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
32 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.34
Consensus pattern (31 bp):
TAAAAAAATAAAAAAATGTATAGTATATATT
Found at i:6262375 original size:32 final size:32
Alignment explanation
Indices: 6262339--6262423 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
6262329 TAACACAGAT
* * *
6262339 CGTGTGGCCCACATGGCCATACCTATCTTGCC
1 CGTGTGACCCACACGACCATACCTATCTTGCC
* *
6262371 CGTGTGACTCATACGACCATACCTATCTTGCC
1 CGTGTGACCCACACGACCATACCTATCTTGCC
* *
6262403 CGTGTAATCACACACGACCAT
1 CGTGTGA-CCCACACGACCAT
6262424 GTGGTGTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 33 0.75
33 11 0.25
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (32 bp):
CGTGTGACCCACACGACCATACCTATCTTGCC
Found at i:6264548 original size:2 final size:2
Alignment explanation
Indices: 6264541--6264591 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
6264531 TTATAGAAAG
6264541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6264583 AT GT AT AT A
1 AT AT AT AT A
6264592 AATTAAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6266828 original size:24 final size:23
Alignment explanation
Indices: 6266801--6266847 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6266791 TTTTTCCCAT
* *
6266801 TGATTTTTATTTTATTTTATTTTA
1 TGATTTCT-TTTTAATTTATTTTA
*
6266825 TGATTTCTTTTTAATTTGTTTTA
1 TGATTTCTTTTTAATTTATTTTA
6266848 ATTTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.72
Consensus pattern (23 bp):
TGATTTCTTTTTAATTTATTTTA
Found at i:6266841 original size:29 final size:29
Alignment explanation
Indices: 6266804--6266872 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
6266794 TTCCCATTGA
*
6266804 TTTTT-ATTTTATTTTATTTT-ATGATTTC
1 TTTTTAATTTTATTTAATTTTAAT-ATTTC
* *
6266832 TTTTTAATTTGT-TTTAATTTTAATTTTTG
1 TTTTTAATTT-TATTTAATTTTAATATTTC
6266861 TTTTTAATTTTA
1 TTTTTAATTTTA
6266873 AATCATCTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 25 0.74
30 3 0.09
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (29 bp):
TTTTTAATTTTATTTAATTTTAATATTTC
Found at i:6268904 original size:98 final size:98
Alignment explanation
Indices: 6268797--6268993 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
6268787 TTTAAAATAA
* * * * *
6268797 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATATC
*
6268862 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTATTTTAAAG
6268895 TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATATC
1 TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATATC
6268960 TTAAATCTTGGATAAGTGGATGTTATTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTATTTTAAAG
6268993 T
1 T
6268994 TTTATTATAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATATC
TTAAATCTTGGATAAGTGGATGTTATTTTAAAG
Found at i:6277528 original size:41 final size:40
Alignment explanation
Indices: 6277477--6277662 Score: 176
Period size: 41 Copynumber: 4.5 Consensus size: 40
6277467 TTTAAACAGA
* * ** *
6277477 TTCACTGGCACTTCACCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-ACCTGCTAGGCTTATAGCCTAATTCAG
* *
6277518 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTA-CCTGCTAGGCTTATAGCCTAATTCAG
* * * *
6277559 TTCACCGGCACTTAGCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTACCTGCTAGGCTTATAGCCTAATTCAG
* * * * *
6277599 CTCACCGGCACTTAGCCTGCT-GGACGTATAGTCTGATTCAA
1 TTCACCGGCACTTA-CCTGCTAGG-CTTATAGCCTAATTCAG
6277640 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTA-CCTGCTAG
6277663 ACGTATAGTC
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 38 0.31
41 85 0.69
42 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (40 bp):
TTCACCGGCACTTACCTGCTAGGCTTATAGCCTAATTCAG
Found at i:6277685 original size:41 final size:41
Alignment explanation
Indices: 6277518--6277675 Score: 219
Period size: 41 Copynumber: 3.9 Consensus size: 41
6277508 TTTAATTCCG
* * *
6277518 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* * *
6277559 TTCACCGGCACTTAG-CTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* * *
6277599 CTCACCGGCACTTAGCCTGCTGGACGTATAGTCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
*
6277640 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGA
6277676 ATAATTTCAC
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 36 0.34
41 69 0.66
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
Found at i:6278254 original size:2 final size:2
Alignment explanation
Indices: 6278247--6278275 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6278237 CTCATGAACT
6278247 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6278276 TCATACACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6278417 original size:2 final size:2
Alignment explanation
Indices: 6278410--6278454 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
6278400 AAAACTTATT
* *
6278410 TA TA TA TA TA TA CA TA TA TC TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6278452 TA T
1 TA T
6278455 TCGAACATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6283678 original size:44 final size:42
Alignment explanation
Indices: 6283620--6284308 Score: 278
Period size: 44 Copynumber: 15.8 Consensus size: 42
6283610 GATCGCATCT
6283620 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATC-TCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
6283664 AGTTTTATCCTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGACA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CA
* *
6283709 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTA-AAGTCGA
1 AGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * *
6283752 TAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAA-AACCTT
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * *
6283796 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
6283837 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
*
6283881 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
* *
6283926 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * ** * * *
6283969 TAATCCTATTTCCCTGAAGTTTCATTGGAGTGGATTAA-AATCTC
1 -AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * *
6284013 AGAACTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGTATCT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
6284054 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCT
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* ** * * *
6284098 GGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGGC-
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-CTAAGA-AGCA
* * * ** * * * * * * *
6284141 GGATTTTACCTCCCTGTGGTTACATTGGAGTACATCAAAGATTGTA
1 AG-TCTTATCT-CCTGAAGTTGCAGTGGAGCAGA-CTAAGA-AGCA
* ** * *
6284187 AGTCTTATTTCCCTGAAGTTGCAGTGGAATAGACTAGTGAAACA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTA-AGAAGCA
* * *
6284231 AGTCTTATCCTCCTGAAGTGGCAAT-GAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
*
6284276 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGA
6284309 TTAAAACCGA
Statistics
Matches: 491, Mismatches: 106, Indels: 95
0.71 0.15 0.14
Matches are distributed among these distances:
40 38 0.08
41 21 0.04
42 14 0.03
43 47 0.10
44 223 0.45
45 141 0.29
46 7 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:6283865 original size:84 final size:85
Alignment explanation
Indices: 6283753--6283963 Score: 225
Period size: 84 Copynumber: 2.4 Consensus size: 85
6283743 TAAAGTCGAT
* * *
6283753 AATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTTAGATCTTAT-CTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-AAG-TCTTATCCTC-CTGAAGTT
*
6283817 GCAGAGA-GCAGA-TCG-CAT-CT
63 GCAGAGAGGCAGACT-GACATGCA
* * * *
6283837 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCAAGTCTTATCCTCCTGAAGTTG
* *
6283902 CAGTGAGGCAGACTGAAGATGGCA
64 CAGAGAGGCAGACTG-ACAT-GCA
6283926 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
6283964 GCCGATAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
84 52 0.50
85 11 0.10
86 4 0.04
87 3 0.03
89 35 0.33
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAGTCTTATCCTCCTGAAGTTGCA
GAGAGGCAGACTGACATGCA
Found at i:6283985 original size:217 final size:217
Alignment explanation
Indices: 6283608--6284106 Score: 836
Period size: 217 Copynumber: 2.3 Consensus size: 217
6283598 GTGAAGATAA
* *
6283608 CAGATCGCATCTAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTTTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
* *
6283673 CTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAG
66 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * *
6283738 CAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTTAGATCTT
131 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTCAGAACTT
6283803 ATCTCTCTGAAGTTGCAGAGAG
196 ATCTCTCTGAAGTTGCAGAGAG
*
6283825 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
*
6283890 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * ** *
6283955 CAGATTAAAGCCGATAATCCTATTTCCCTGAAGTTTCATTGGAGTGGATTAAAATCTCAGAACTT
131 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTCAGAACTT
6284020 ATCTCTCTGAAGTTGCAGAGAG
196 ATCTCTCTGAAGTTGCAGAGAG
* * **
6284042 CAGATCGTATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCTGGTCTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
6284107 TCCCTAAGCA
Statistics
Matches: 263, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 263 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (217 bp):
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTCAGAACTT
ATCTCTCTGAAGTTGCAGAGAG
Found at i:6284249 original size:217 final size:217
Alignment explanation
Indices: 6283608--6284219 Score: 712
Period size: 217 Copynumber: 2.8 Consensus size: 217
6283598 GTGAAGATAA
* *
6283608 CAGATCGCATCTAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTTTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
** * * * * * *
6283673 CTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAG
66 CTCCTGAAGCAGCAGTGAGGCAGACTGAAGACGGCAAATCTTACCTCCCTGAAGTTACAGTGGAG
* * * * * ** * *
6283738 CAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTTAGATCTT
131 CACATCAAAGCCGATAATCCTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAATCTAAGATCTT
6283803 ATCTCTCTGAAGTTGCAGAGAG
196 ATCTCTCTGAAGTTGCAGAGAG
*
6283825 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
** * * *
6283890 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 CTCCTGAAGCAGCAGTGAGGCAGACTGAAGACGGCAAATCTTACCTCCCTGAAGTTACAGTGGAG
* * * * * * * *
6283955 CAGATTAAAGCCGATAATCCTATTTCCCTGAAGTTTCATTGGAGTGGATTAAAATCTCAGAACTT
131 CACATCAAAGCCGATAATCCTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAATCTAAGATCTT
6284020 ATCTCTCTGAAGTTGCAGAGAG
196 ATCTCTCTGAAGTTGCAGAGAG
* * **
6284042 CAGATCGTATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCTGGTCTTAT-
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
* ** * ** *
6284106 CTCCCT-AAGCAGTAGTG-GAGCAGA-TCGAAGACGGCGGATTTTACCTCCCTGTGGTTACATTG
66 CT-CCTGAAGCAGCAGTGAG-GCAGACT-GAAGACGGCAAATCTTACCTCCCTGAAGTTACAGTG
* ** *
6284168 GAGTACATCAAAGATTG-TAAGTCTTATTTCCCTGAAGTTGCAGTGGAATAGA
128 GAGCACATCAAAG-CCGATAA-TCCTATTTCCCTGAAGTTGCAGTGGAATAGA
6284220 CTAGTGAAAC
Statistics
Matches: 349, Mismatches: 41, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
215 2 0.01
216 55 0.16
217 292 0.84
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (217 bp):
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
CTCCTGAAGCAGCAGTGAGGCAGACTGAAGACGGCAAATCTTACCTCCCTGAAGTTACAGTGGAG
CACATCAAAGCCGATAATCCTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAATCTAAGATCTT
ATCTCTCTGAAGTTGCAGAGAG
Found at i:6284308 original size:45 final size:43
Alignment explanation
Indices: 6284189--6284308 Score: 102
Period size: 45 Copynumber: 2.7 Consensus size: 43
6284179 AGATTGTAAG
* ** *
6284189 TCTTATTTCCCTGAAGTTGCAGTGGAATAGACTAGTGAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGTG-AACAAA
* * *
6284233 TCTTATC-CTCCTGAAGTGGCAAT-GAGGCAGACTGAAGATG-GCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT--AG-TGAACAAA
6284278 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
6284309 TTAAAACCGA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 23 0.38
45 27 0.45
46 5 0.08
47 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAGTGAACAAA
Found at i:6286527 original size:98 final size:98
Alignment explanation
Indices: 6286336--6286532 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
6286326 TTTAAAATAA
* * * *
6286336 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
6286401 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6286434 TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
6286499 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6286532 T
1 T
6286533 TTTATTATAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:6287505 original size:25 final size:26
Alignment explanation
Indices: 6287456--6287505 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6287446 AAAAATAGTT
* * *
6287456 AAATTTTCAAAAATATTTAAGAATTA
1 AAATCTTCAAAAATATATAAAAATTA
6287482 AAATCTTCAAAAA-ATATAAAAATT
1 AAATCTTCAAAAATATATAAAAATT
6287506 CACAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATCTTCAAAAATATATAAAAATTA
Found at i:6287624 original size:20 final size:20
Alignment explanation
Indices: 6287579--6287627 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6287569 GAAAATATAA
6287579 AAATTC-AAAAATATTTAAC
1 AAATTCAAAAAATATTTAAC
* *
6287598 AAA-TCAAAAAATATTTTAG
1 AAATTCAAAAAATATTTAAC
6287617 AAATTCAAAAA
1 AAATTCAAAAA
6287628 GTAAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATTCAAAAAATATTTAAC
Found at i:6287701 original size:19 final size:21
Alignment explanation
Indices: 6287662--6287703 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6287652 ATGATTTTAA
*
6287662 TTTTATATTTTTCTAAGTTTT
1 TTTTATAGTTTTCTAAGTTTT
6287683 TTTTATAGTTTTC-AA-TTTT
1 TTTTATAGTTTTCTAAGTTTT
6287702 TT
1 TT
6287704 GTAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTATAGTTTTCTAAGTTTT
Found at i:6287747 original size:15 final size:17
Alignment explanation
Indices: 6287727--6287760 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
6287717 ATTTTAAATA
6287727 TATTTTTAA-A-ATTTT
1 TATTTTTAACATATTTT
6287742 TATTTTTAACATATTTT
1 TATTTTTAACATATTTT
6287759 TA
1 TA
6287761 AAATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTAACATATTTT
Found at i:6288319 original size:15 final size:14
Alignment explanation
Indices: 6288282--6288323 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
6288272 CTAATTTTGA
6288282 GTTAATTATGATTAAT
1 GTTAATTA--ATTAAT
6288298 GTTAATTAATTAAT
1 GTTAATTAATTAAT
6288312 GTTTAATTAATT
1 G-TTAATTAATT
6288324 CATTAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 10 0.40
16 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
GTTAATTAATTAAT
Found at i:6288323 original size:19 final size:18
Alignment explanation
Indices: 6288299--6288339 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
6288289 ATGATTAATG
*
6288299 TTAATTAATTAATGTTTAA
1 TTAATTAATTAAAG-TTAA
*
6288318 TTAATTCATTAAAGTTAA
1 TTAATTAATTAAAGTTAA
6288336 TTAA
1 TTAA
6288340 GGTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAAAGTTAA
Found at i:6294616 original size:25 final size:25
Alignment explanation
Indices: 6294585--6294653 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
6294575 CTCTCGAGCC
6294585 ATATAACGGGAAGCTCATAT-GAGCT
1 ATATAACGGGAAGCTCATATAG-GCT
* * * *
6294610 ATGTAACGGGAAACTTATCTAGGCT
1 ATATAACGGGAAGCTCATATAGGCT
*
6294635 TTATAACGGGAAGCTCATA
1 ATATAACGGGAAGCTCATA
6294654 AGAGTCATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATATAGGCT
Found at i:6294821 original size:25 final size:27
Alignment explanation
Indices: 6294759--6294822 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
6294749 AGCAAGCCTT
6294759 ATCGGGAAGCTCACAAAGAGCCAATTA
1 ATCGGGAAGCTCACAAAGAGCCAATTA
6294786 A-CGGGAAGCTCA-AGAAGAGCC-A-TA
1 ATCGGGAAGCTCACA-AAGAGCCAATTA
6294810 ATCGGGAAGCTCA
1 ATCGGGAAGCTCA
6294823 TAAGAGCAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 3 0.09
25 13 0.37
26 18 0.51
27 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.12
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCAATTA
Found at i:6295690 original size:31 final size:31
Alignment explanation
Indices: 6295652--6295711 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6295642 AAGAAAGTAC
*
6295652 GATGTGATGGTAAATATAGAATAGACAGTTT
1 GATGTGATGGTAAATACAGAATAGACAGTTT
*
6295683 GATGTGATGGTAAATACATAATAGACAGT
1 GATGTGATGGTAAATACAGAATAGACAGT
6295712 GCACCGGGGC
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:0.05, G:0.25, T:0.30
Consensus pattern (31 bp):
GATGTGATGGTAAATACAGAATAGACAGTTT
Found at i:6299362 original size:18 final size:18
Alignment explanation
Indices: 6299339--6299391 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
6299329 ATATAAGATG
6299339 TCTTGATGATTTGGTATC
1 TCTTGATGATTTGGTATC
6299357 TCTTGATGATTTGGTATC
1 TCTTGATGATTTGGTATC
6299375 T-TATGATGATTTGGTAT
1 TCT-TGATGATTTGGTAT
6299392 TTTGATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 1 0.03
18 33 0.97
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.51
Consensus pattern (18 bp):
TCTTGATGATTTGGTATC
Found at i:6301020 original size:9 final size:9
Alignment explanation
Indices: 6301006--6301173 Score: 71
Period size: 10 Copynumber: 18.0 Consensus size: 9
6300996 CATGTGACAA
6301006 AAAAATTAT
1 AAAAATTAT
6301015 AAAAA-TA-
1 AAAAATTAT
* *
6301022 AAAACTAAT
1 AAAAATTAT
*
6301031 AAAACTTAT
1 AAAAATTAT
*
6301040 AAAACTTATT
1 AAAAATTA-T
*
6301050 AAAATTTAAT
1 AAAAATT-AT
6301060 AAAAATTA-
1 AAAAATTAT
*
6301068 AAAATTTAAT
1 AAAAATT-AT
*
6301078 AAAAA-AAT
1 AAAAATTAT
6301086 ACAAATATT-T
1 A-AAA-ATTAT
*
6301096 AAAATTTATT
1 AAAAATTA-T
*
6301106 AAAAATTAGAA
1 AAAAATT--AT
6301117 AAAAATTAT
1 AAAAATTAT
6301126 -AAAATCGTA-
1 AAAAAT--TAT
6301135 AAAAATATAT
1 AAAAAT-TAT
*
6301145 AAAATTTAAT
1 AAAAATT-AT
*
6301155 AAAAATCAT
1 AAAAATTAT
6301164 AAAAAATTAT
1 -AAAAATTAT
6301174 CAAATGCATA
Statistics
Matches: 122, Mismatches: 18, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.03
8 19 0.16
9 35 0.29
10 55 0.45
11 8 0.07
12 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6301052 original size:10 final size:9
Alignment explanation
Indices: 6301022--6301081 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
6301012 TATAAAAATA
*
6301022 AAAACTAAT
1 AAAACTTAT
6301031 AAAACTTAT
1 AAAACTTAT
6301040 AAAACTTATT
1 AAAACTTA-T
*
6301050 AAAATTTAAT
1 AAAACTT-AT
*
6301060 AAAAATTA-
1 AAAACTTAT
*
6301068 AAAATTTAAT
1 AAAACTT-AT
6301078 AAAA
1 AAAA
6301082 AAATACAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.14
9 18 0.42
10 18 0.42
11 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAACTTAT
Found at i:6301073 original size:18 final size:19
Alignment explanation
Indices: 6301018--6301167 Score: 98
Period size: 19 Copynumber: 7.8 Consensus size: 19
6301008 AAATTATAAA
* *
6301018 AATAAAAACTAATAAAACTT
1 AATAAAAA-TTATAAAATTT
*
6301038 -ATAAAACTTATTAAAATTT
1 AATAAAAATTA-TAAAATTT
6301057 AATAAAAATTA-AAAATTT
1 AATAAAAATTATAAAATTT
*
6301075 AATAAAAA-AATACAAATATT
1 AATAAAAATTATA-AAAT-TT
* *
6301095 --TAAAATTTATTAAAAATT
1 AATAAAAATTA-TAAAATTT
* *
6301113 AGAAAAAAATTATAAAATCGT
1 A-ATAAAAATTATAAAAT-TT
6301134 -A-AAAAATATATAAAATTT
1 AATAAAAAT-TATAAAATTT
*
6301152 AATAAAAATCATAAAA
1 AATAAAAATTATAAAA
6301168 AATTATCAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
17 1 0.01
18 32 0.31
19 37 0.36
20 24 0.24
21 8 0.08
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (19 bp):
AATAAAAATTATAAAATTT
Found at i:6301095 original size:21 final size:18
Alignment explanation
Indices: 6301050--6301097 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
6301040 AAAACTTATT
*
6301050 AAAATTTAATAAAAATTA
1 AAAATTTAATAAAAAATA
6301068 AAAATTTAATAAAAAAATA
1 AAAATTTAAT-AAAAAATA
6301087 CAAATATTTAA
1 -AAA-ATTTAA
6301098 AATTTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 3 0.12
21 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTTAATAAAAAATA
Found at i:6301129 original size:19 final size:19
Alignment explanation
Indices: 6301103--6301150 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
6301093 TTTAAAATTT
6301103 ATTA-AAAATTAGAAAAAA
1 ATTATAAAATTAGAAAAAA
* *
6301121 ATTATAAAA-TCGTAAAAA
1 ATTATAAAATTAGAAAAAA
6301139 ATATATAAAATT
1 AT-TATAAAATT
6301151 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 13 0.52
19 11 0.44
20 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
ATTATAAAATTAGAAAAAA
Found at i:6301148 original size:49 final size:49
Alignment explanation
Indices: 6301088--6301187 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
6301078 AAAAAAATAC
* * * *
6301088 AAATATTTAAAATTTATTAAAAATTAGAAAAAAATTATAAAAT-CGTAAA
1 AAATATATAAAATTTAATAAAAATCA-AAAAAAATTATAAAATGCATAAA
* *
6301137 AAATATATAAAATTTAATAAAAATCATAAAAAATTATCAAATGCATAAA
1 AAATATATAAAATTTAATAAAAATCAAAAAAAATTATAAAATGCATAAA
6301186 AA
1 AA
6301188 GACCTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
48 14 0.32
49 30 0.68
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (49 bp):
AAATATATAAAATTTAATAAAAATCAAAAAAAATTATAAAATGCATAAA
Found at i:6304020 original size:42 final size:42
Alignment explanation
Indices: 6303912--6304021 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
6303902 GTCAAGTAGC
* * *
6303912 ACACGGCCTGACACATGGGTTTGTGAAGCTATTTCGAGAGTT
1 ACACGGCCTGACACATCGGTGTGTGAAGCTATTACGAGAGTT
* * ** *
6303954 ACACGACCTGACACA-CGGGCGTGTGGGGTTATTACGAGAGTT
1 ACACGGCCTGACACATC-GGTGTGTGAAGCTATTACGAGAGTT
*
6303996 ACATGGCCTGACACATCGGTGTGTGA
1 ACACGGCCTGACACATCGGTGTGTGA
6304022 CACGATCGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (42 bp):
ACACGGCCTGACACATCGGTGTGTGAAGCTATTACGAGAGTT
Found at i:6314470 original size:49 final size:49
Alignment explanation
Indices: 6314411--6314570 Score: 144
Period size: 49 Copynumber: 3.2 Consensus size: 49
6314401 CACAAAAACA
6314411 CTTATTTCCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
1 CTTATTTCCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
* ** * * * * * **
6314460 CTTATTTCCAGGCGGTG-TACTGGAACAGATTGAAGCTACAACGGTGAAT
1 CTTATTTCCAGACATTGCAACT-CAAAAGATTGAGGCCACAACGGCAAAT
* * *
6314509 CTCATCTTCCCCA-ACATTGCAACTCAAAAGATTGAGGCCACAATGTCAAAT
1 CTTAT-TT--CCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
*
6314560 ATTATTTCCAG
1 CTTATTTCCAG
6314571 GTGGTACAGT
Statistics
Matches: 80, Mismatches: 25, Indels: 12
0.68 0.21 0.10
Matches are distributed among these distances:
48 6 0.08
49 39 0.49
50 4 0.05
51 25 0.31
52 6 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (49 bp):
CTTATTTCCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
Found at i:6314609 original size:100 final size:100
Alignment explanation
Indices: 6314422--6314610 Score: 288
Period size: 100 Copynumber: 1.9 Consensus size: 100
6314412 TTATTTCCAG
* **
6314422 ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATCTTATTTCCAGGCGGTGTACTGGAACA
1 ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATATTATTTCCAGGCGGTACACTGGAACA
*
6314487 GATTGAAGCTACAACGGTGAATCTCATCTTCCCCA
66 GATTGAAGCTACAACGGCGAATCTCATCTTCCCCA
* * * *
6314522 ACATTGCAACTCAAAAGATTGAGGCCACAATGTCAAATATTATTTCCAGGTGGTACAGTGGAACA
1 ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATATTATTTCCAGGCGGTACACTGGAACA
* *
6314587 GATTGAAGCTACGATGGCGAATCT
66 GATTGAAGCTACAACGGCGAATCT
6314611 AGTTTCCCCG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATATTATTTCCAGGCGGTACACTGGAACA
GATTGAAGCTACAACGGCGAATCTCATCTTCCCCA
Found at i:6315939 original size:2 final size:2
Alignment explanation
Indices: 6315932--6315960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6315922 TTATAAATGG
6315932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6315961 GTGTGTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6316999 original size:41 final size:41
Alignment explanation
Indices: 6316954--6317223 Score: 450
Period size: 41 Copynumber: 6.6 Consensus size: 41
6316944 GGTTTTAAAA
*
6316954 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
6316995 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
**
6317036 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* *
6317077 CCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
6317118 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* *
6317159 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* * *
6317200 CCTAACAAGCTAAGTGCCAGTGAA
1 CCTAGCAGGCTAAGTGCCGGTGAA
6317224 TCTGTTTAAA
Statistics
Matches: 216, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 216 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
Found at i:6320001 original size:3 final size:3
Alignment explanation
Indices: 6319993--6320076 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
6319983 TTTTAACTAT
6319993 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
6320041 TTA TTA TTA TTA TTA TTA TTA CTA CTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6320077 ATTACTCATT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6321891 original size:98 final size:98
Alignment explanation
Indices: 6321745--6321939 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
6321735 CAATAAAACT
* *
6321745 TTTAAAAGAACATCCACTTATCCCAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
6321810 TTTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTAC
* *
6321843 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACAATTCT
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
6321908 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
6321940 TTATTTTTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:6322489 original size:17 final size:16
Alignment explanation
Indices: 6322456--6322495 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6322446 ATTCGCATTC
*
6322456 GTATATATTTAAATAT
1 GTATATATGTAAATAT
6322472 GTATATATGTACAATAT
1 GTATATATGTA-AATAT
*
6322489 GTGTATA
1 GTATATA
6322496 AAATAATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (16 bp):
GTATATATGTAAATAT
Found at i:6322819 original size:12 final size:12
Alignment explanation
Indices: 6322808--6322851 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
6322798 AGTACAATAG
*
6322808 TAATAATGATAG
1 TAATAATGATAA
6322820 TAAATAATG-TAA
1 T-AATAATGATAA
*
6322832 TAATAATAATAA
1 TAATAATGATAA
6322844 TAATAATG
1 TAATAATG
6322852 GTATAATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.22
12 14 0.52
13 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
TAATAATGATAA
Found at i:6334094 original size:20 final size:20
Alignment explanation
Indices: 6334069--6334129 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
6334059 TATTGCTGCA
6334069 CCACCATGCTGCTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
*
6334089 CCACCATGCTGTTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
* *
6334109 CCACCAGGCTGCTCTCCCTT
1 CCACCATGCTGCTGTCCCTT
6334129 C
1 C
6334130 AATGAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.46, G:0.15, T:0.30
Consensus pattern (20 bp):
CCACCATGCTGCTGTCCCTT
Found at i:6334213 original size:13 final size:13
Alignment explanation
Indices: 6334195--6334219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6334185 GTATCCACCG
6334195 AAAGAGAGAAAGA
1 AAAGAGAGAAAGA
6334208 AAAGAGAGAAAG
1 AAAGAGAGAAAG
6334220 GAGAAGAAAA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAAGAGAGAAAGA
Found at i:6334979 original size:18 final size:19
Alignment explanation
Indices: 6334956--6334995 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
6334946 TATTTGATTT
*
6334956 TTTATTTATTTA-AAAATG
1 TTTATTGATTTATAAAATG
6334974 TTTATTGATTTATTAAAATG
1 TTTATTGATTTA-TAAAATG
6334994 TT
1 TT
6334996 GATTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTATTGATTTATAAAATG
Found at i:6335005 original size:21 final size:22
Alignment explanation
Indices: 6334959--6335001 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
6334949 TTGATTTTTT
* *
6334959 ATTTATTTAAAAATGTTTATTG
1 ATTTATTTAAAAATGTTGATTA
6334981 ATTTA-TT-AAAATGTTGATTA
1 ATTTATTTAAAAATGTTGATTA
6335001 A
1 A
6335002 ATTTGTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 2 0.11
22 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATTTAAAAATGTTGATTA
Found at i:6336845 original size:6 final size:6
Alignment explanation
Indices: 6336822--6336863 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
6336812 GCATCATGCA
* * *
6336822 CCAGAG CCAGAA CCAGAG CCAGAG CCGGAG CCGGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
6336864 GCAGGGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.36, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:6337093 original size:33 final size:33
Alignment explanation
Indices: 6337011--6337102 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
6337001 CATCCTAGCT
** * *
6337011 CGTATCCACCTCAGCACTCCGCTTCTTCCGGCT
1 CGTATCCACCTCAATACTCCGCTCCTTCCGGCC
* *
6337044 TGTATCCACCTCAATACTCTGCTCCTTCCGGCC
1 CGTATCCACCTCAATACTCCGCTCCTTCCGGCC
*
6337077 CGTATCCACCGT-AATACTCCACTCCT
1 CGTATCCACC-TCAATACTCCGCTCCT
6337103 CTCGGCTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 48 0.98
34 1 0.02
ACGTcount: A:0.16, C:0.43, G:0.12, T:0.28
Consensus pattern (33 bp):
CGTATCCACCTCAATACTCCGCTCCTTCCGGCC
Found at i:6340598 original size:27 final size:27
Alignment explanation
Indices: 6340554--6340616 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
6340544 GCCCCACCAT
* *
6340554 TCGCGCCTCTGAGTTAGGCACAACTAG
1 TCGCGCCTCTCAGATAGGCACAACTAG
* *
6340581 TCGCGCCTGTCAGATAGGCTCAACTAG
1 TCGCGCCTCTCAGATAGGCACAACTAG
6340608 TCGCGCCTC
1 TCGCGCCTC
6340617 GTATCTATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.22
Consensus pattern (27 bp):
TCGCGCCTCTCAGATAGGCACAACTAG
Found at i:6341281 original size:22 final size:21
Alignment explanation
Indices: 6341256--6341303 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
6341246 TTTTATAATC
*
6341256 TTTTAATAA-TTTTTAGAAATAA
1 TTTTAATAACTTCTTAG-AAT-A
6341278 TTTT-ATAACTTCTTAGAATA
1 TTTTAATAACTTCTTAGAATA
6341298 TTTTAA
1 TTTTAA
6341304 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 8 0.35
22 10 0.43
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTTAATAACTTCTTAGAATA
Found at i:6345709 original size:16 final size:17
Alignment explanation
Indices: 6345676--6345709 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6345666 GTAAGGAAAG
6345676 AGGGATGTGAGAGAGTT
1 AGGGATGTGAGAGAGTT
*
6345693 AGGGATG-GAGAGGGTT
1 AGGGATGTGAGAGAGTT
6345709 A
1 A
6345710 TTTCCGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.50, T:0.21
Consensus pattern (17 bp):
AGGGATGTGAGAGAGTT
Found at i:6348189 original size:20 final size:20
Alignment explanation
Indices: 6348166--6348203 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6348156 TTTAAAAGGG
6348166 TGAGGCATACAATAAATACA
1 TGAGGCATACAATAAATACA
**
6348186 TGAGGCATTGAATAAATA
1 TGAGGCATACAATAAATA
6348204 AAGGGGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (20 bp):
TGAGGCATACAATAAATACA
Found at i:6358034 original size:24 final size:24
Alignment explanation
Indices: 6357997--6358043 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6357987 TATATATACC
6357997 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
6358021 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
6358044 TCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:6358424 original size:18 final size:19
Alignment explanation
Indices: 6358398--6358433 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6358388 TAAACTAGAT
*
6358398 TTAACTCTCT-AATTTCAC
1 TTAAATCTCTAAATTTCAC
6358416 TTAAATCTCTAAATTTCA
1 TTAAATCTCTAAATTTCA
6358434 AAATTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATCTCTAAATTTCAC
Found at i:6358750 original size:25 final size:24
Alignment explanation
Indices: 6358718--6358765 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
6358708 TTTCTCCTTC
** *
6358718 TTTCTTTCTTTTTTTTTCTTTTTG
1 TTTCTTTCACTTTGTTTCTTTTTG
6358742 TTTCGTTTCACTTTGTTTCTTTTT
1 TTTC-TTTCACTTTGTTTCTTTTT
6358766 CTATTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (24 bp):
TTTCTTTCACTTTGTTTCTTTTTG
Found at i:6363355 original size:26 final size:25
Alignment explanation
Indices: 6363326--6363421 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
6363316 TTCATATTCA
6363326 GGAATGCTCATACGAGCACATA-AACG
1 GGAA-GCTCATACGAGC-CATATAACG
* *
6363352 GGAAGCTCATTCGAGCCATATAATG
1 GGAAGCTCATACGAGCCATATAACG
** *
6363377 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATACGAGCCATATAACG
*
6363402 GGAAGCTTATGA-GAGCCATA
1 GGAAGCTCAT-ACGAGCCATA
6363422 ATCAGGAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 4 0.07
25 51 0.86
26 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCATATAACG
Found at i:6363698 original size:24 final size:25
Alignment explanation
Indices: 6363642--6363689 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
6363632 GGGAAGCTTG
*
6363642 TGAGAGCTAAATATCAGGATGCTCA
1 TGAGAGCTAAATAACAGGATGCTCA
6363667 TGAGAGCT-AATAACAGGATGCTC
1 TGAGAGCTAAATAACAGGATGCTC
6363690 TTTCGAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (25 bp):
TGAGAGCTAAATAACAGGATGCTCA
Found at i:6371210 original size:25 final size:25
Alignment explanation
Indices: 6371169--6371315 Score: 108
Period size: 25 Copynumber: 5.9 Consensus size: 25
6371159 ATTCTTATAC
*
6371169 GAGCACATA-AACAGGAAGCTCAT-T
1 GAGC-CATATAACGGGAAGCTCATGT
*
6371193 CGAGCTATATAACGGGAAGCTCATGT
1 -GAGCCATATAACGGGAAGCTCATGT
* *
6371219 GAGCCATGTAACGGGAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCATGT
* ** * *
6371244 GAGCCATA-ATCGGGAAATTAAAGT
1 GAGCCATATAACGGGAAGCTCATGT
* *
6371268 GAGCCA-ATATCGGGAAGCTCCA-GA
1 GAGCCATATAACGGGAAGCT-CATGT
6371292 GAGCCA-ATTAATCGGGAAGCTCAT
1 GAGCCATA-TAA-CGGGAAGCTCAT
6371316 AAAAGAGCCT
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.01
24 36 0.37
25 51 0.52
26 10 0.10
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:6373901 original size:9 final size:9
Alignment explanation
Indices: 6373883--6373939 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
6373873 ATTAGTATAT
*
6373883 CATAAAATA
1 CATAACATA
6373892 CATAACATA
1 CATAACATA
*
6373901 CATAATATA
1 CATAACATA
6373910 TCAT-ACAATA
1 -CATAAC-ATA
6373920 CATAACATA
1 CATAACATA
*
6373929 CATAATATA
1 CATAACATA
6373938 CA
1 CA
6373940 CACTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (9 bp):
CATAACATA
Found at i:6373913 original size:28 final size:28
Alignment explanation
Indices: 6373878--6373937 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
6373868 TCCATATTAG
6373878 TATATCATAAAATACATAACATACATAA
1 TATATCATAAAATACATAACATACATAA
*
6373906 TATATCATACAATACATAACATACATAA
1 TATATCATAAAATACATAACATACATAA
6373934 TATA
1 TATA
6373938 CACACTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (28 bp):
TATATCATAAAATACATAACATACATAA
Found at i:6373929 original size:14 final size:14
Alignment explanation
Indices: 6373883--6373930 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
6373873 ATTAGTATAT
*
6373883 CATAAAATACATAA
1 CATACAATACATAA
6373897 CATAC-ATA-ATATA
1 CATACAATACATA-A
6373910 TCATACAATACATAA
1 -CATACAATACATAA
6373925 CATACA
1 CATACA
6373931 TAATATACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 3 0.10
13 4 0.14
14 15 0.52
15 4 0.14
16 3 0.10
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (14 bp):
CATACAATACATAA
Found at i:6373947 original size:28 final size:28
Alignment explanation
Indices: 6373878--6373947 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
6373868 TCCATATTAG
* *
6373878 TATATCATAAAATACATAACATACATAA
1 TATATCACACAATACATAACATACATAA
*
6373906 TATATCATACAATACATAACATACATAA
1 TATATCACACAATACATAACATACATAA
6373934 TATA-CACACTAATA
1 TATATCACAC-AATA
6373948 TATCATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 4 0.10
28 35 0.90
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (28 bp):
TATATCACACAATACATAACATACATAA
Found at i:6373950 original size:68 final size:67
Alignment explanation
Indices: 6373851--6373981 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 67
6373841 AGGGTCTGAC
* * * * *
6373851 ACATACCATACATAATATCCATATTAGTATATCATAAAATACATAACATACA-TAATATATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAAT--ATAACATACACTAATATATCATA
6373915 CAAT
64 CAAT
* *
6373919 ACATAACATACATAATATACACACTAATATATCATAACATATAACATACACTAATGTATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATA
6373982 TCATTTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
66 10 0.18
67 11 0.20
68 34 0.62
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (67 bp):
ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATACA
AT
Found at i:6383058 original size:19 final size:18
Alignment explanation
Indices: 6383034--6383088 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
6383024 CAATTTTTTA
6383034 TTTATTATCGTTATTATTT
1 TTTATT-TCGTTATTATTT
6383053 TTTATTCTCGTTA-T-TTT
1 TTTATT-TCGTTATTATTT
*
6383070 ATTATTTC-TTATTATTT
1 TTTATTTCGTTATTATTT
6383087 TT
1 TT
6383089 GATATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 12 0.39
18 1 0.03
19 12 0.39
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTATTTCGTTATTATTT
Found at i:6383220 original size:38 final size:39
Alignment explanation
Indices: 6383162--6383235 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
6383152 AATTACATCA
*
6383162 TTTATTTATTATTATCATGAT-ATGATTATTAATATTAAT
1 TTTATTTATTATAATCATGATGATGATTA-TAATATTAAT
* *
6383201 TTTA-TTATTATAATGATGATGATTATTATAATATT
1 TTTATTTATTATAATCATGATGATGATTATAATATT
6383236 CTTTCATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 21 0.68
39 10 0.32
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (39 bp):
TTTATTTATTATAATCATGATGATGATTATAATATTAAT
Found at i:6383225 original size:18 final size:17
Alignment explanation
Indices: 6383169--6383232 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
6383159 TCATTTATTT
*
6383169 ATTATTATCATGATATG
1 ATTATTATAATGATATG
* * * *
6383186 ATTATTAATATTAATTTT
1 ATTATT-ATAATGATATG
6383204 ATTATTATAATGATGATG
1 ATTATTATAATGAT-ATG
6383222 ATTATTATAAT
1 ATTATTATAAT
6383233 ATTCTTTCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTATTATAATGATATG
Found at i:6385853 original size:15 final size:15
Alignment explanation
Indices: 6385835--6385864 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6385825 ATAAAGATTA
6385835 TAATAATAATAAAAG
1 TAATAATAATAAAAG
6385850 TAATAATAATAAAAG
1 TAATAATAATAAAAG
6385865 AAAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:6385872 original size:15 final size:15
Alignment explanation
Indices: 6385839--6385873 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6385829 AGATTATAAT
* *
6385839 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
6385854 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
6385869 AATAA
1 AATAA
6385874 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:6385872 original size:18 final size:18
Alignment explanation
Indices: 6385834--6385873 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6385824 TATAAAGATT
*
6385834 ATAATAATAATAAAAGTA
1 ATAATAATAAAAAAAGTA
6385852 ATAATAATAAAAGAAAG-A
1 ATAATAATAAAA-AAAGTA
6385870 ATAA
1 ATAA
6385874 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAATAATAAAAAAAGTA
Found at i:6393970 original size:7 final size:7
Alignment explanation
Indices: 6393953--6393985 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
6393943 AAATTTAATA
6393953 TACATAAT
1 TACA-AAT
6393961 TACAAAT
1 TACAAAT
6393968 TACAAAT
1 TACAAAT
6393975 TACAAAT
1 TACAAAT
6393982 TACA
1 TACA
6393986 GATATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
TACAAAT
Found at i:6396346 original size:13 final size:13
Alignment explanation
Indices: 6396330--6396358 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6396320 GATGATTGAA
6396330 ATTAATGAATGGG
1 ATTAATGAATGGG
6396343 ATTAATGAATGGG
1 ATTAATGAATGGG
6396356 ATT
1 ATT
6396359 GTTATGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (13 bp):
ATTAATGAATGGG
Found at i:6398187 original size:46 final size:46
Alignment explanation
Indices: 6398131--6398285 Score: 211
Period size: 46 Copynumber: 3.4 Consensus size: 46
6398121 TTACTTATTT
* * * * *
6398131 GGGTTAAACCTACACGAATCGGATAATACTACCTGGTCACCCGTTA
1 GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
* * *
6398177 GGGTTGAACCTACACAAATCAGATAATAGTGTCTGATCACCTGTTA
1 GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
* *
6398223 GGGTTGAACCTACACAAATCATATAATACTGCCTAGTCACCTGTTA
1 GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
*
6398269 GGGCTGAACCTACACAA
1 GGGTTGAACCTACACAA
6398286 CAAATAGTCT
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (46 bp):
GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
Found at i:6401194 original size:23 final size:23
Alignment explanation
Indices: 6401168--6401212 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6401158 TTTCTTACTG
* *
6401168 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGAGATATTACAA
6401191 TAGTAATTTTCGAGATATTACA
1 TAGTAATTTTCGAGATATTACA
6401213 TGTGTGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGAGATATTACAA
Found at i:6401391 original size:26 final size:26
Alignment explanation
Indices: 6401361--6401413 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6401351 AATTGTAAAT
*
6401361 ATTAAGATATT-TTAAATTAAACTTTA
1 ATTAAGATATTAGT-AATTAAACTTTA
**
6401387 ATTAATCTATTAGTAATTAAACTTTA
1 ATTAAGATATTAGTAATTAAACTTTA
6401413 A
1 A
6401414 ACATGATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
ATTAAGATATTAGTAATTAAACTTTA
Found at i:6403949 original size:300 final size:300
Alignment explanation
Indices: 6403407--6404010 Score: 1199
Period size: 300 Copynumber: 2.0 Consensus size: 300
6403397 TCTAAATTGA
6403407 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
1 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
6403472 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
66 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
6403537 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
131 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
6403602 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
196 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
6403667 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
261 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
6403707 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
1 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
6403772 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
66 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
6403837 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
131 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
*
6403902 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAAGATTA
196 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
6403967 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
261 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
6404007 TTCT
1 TTCT
6404011 GGAACATGAA
Statistics
Matches: 303, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 303 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (300 bp):
TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
Found at i:6404356 original size:18 final size:18
Alignment explanation
Indices: 6404333--6404374 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
6404323 TCTTCTTGGC
6404333 AGTGGATCTTTCAGATGA
1 AGTGGATCTTTCAGATGA
6404351 AGTGGATCTTTCAGATGA
1 AGTGGATCTTTCAGATGA
6404369 AGTGGA
1 AGTGGA
6404375 GTTCACAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (18 bp):
AGTGGATCTTTCAGATGA
Found at i:6413018 original size:31 final size:31
Alignment explanation
Indices: 6412980--6413070 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
6412970 ACATTCTTGA
*
6412980 GGTTATTTCAGATTCTTGATCACCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
*
6413011 -GTGTATTT--TATTCTTGATCATCAAAACTT
1 GGT-TATTTCAGATTCTTGATCATCAAAACTT
*
6413040 GGTTCTTTCAGATTCTTGATCATCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
6413071 TTGTTGTGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
29 23 0.44
30 4 0.08
31 25 0.48
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (31 bp):
GGTTATTTCAGATTCTTGATCATCAAAACTT
Found at i:6413024 original size:29 final size:29
Alignment explanation
Indices: 6412991--6413070 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 29
6412981 GTTATTTCAG
*
6412991 ATTCTTGATCACCAAAACTTGTGTAT-TTT-
1 ATTCTTGATCATCAAAACTTG-GT-TCTTTA
6413020 ATTCTTGATCATCAAAACTTGGTTCTTTCA
1 ATTCTTGATCATCAAAACTTGGTTCTTT-A
6413050 GATTCTTGATCATCAAAACTT
1 -ATTCTTGATCATCAAAACTT
6413071 TTGTTGTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 20 0.43
31 20 0.43
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (29 bp):
ATTCTTGATCATCAAAACTTGGTTCTTTA
Found at i:6419716 original size:17 final size:17
Alignment explanation
Indices: 6419694--6419736 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6419684 TAAAAATTCT
6419694 AAAAATTCAAATAT-TAA
1 AAAAATTCAAAT-TGTAA
*
6419711 AAAAATTAAAATTGTAA
1 AAAAATTCAAATTGTAA
*
6419728 AAATATTCA
1 AAAAATTCA
6419737 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATTCAAATTGTAA
Found at i:6419765 original size:11 final size:12
Alignment explanation
Indices: 6419725--6419757 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6419715 ATTAAAATTG
*
6419725 TAAAAATATTCA
1 TAAAAATATTAA
6419737 TAAAAA-ATTAA
1 TAAAAATATTAA
6419748 TAAAAATATT
1 TAAAAATATT
6419758 TTAAAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAATATTAA
Found at i:6419870 original size:22 final size:24
Alignment explanation
Indices: 6419836--6419880 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
6419826 ATAAAATTTT
*
6419836 AAAAATTAAAAAGGTTA-TAAAAC
1 AAAAATTAAAAAGATTATTAAAAC
*
6419859 AAAAA-TAGAAAGATTATTAAAA
1 AAAAATTAAAAAGATTATTAAAA
6419881 TACAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (24 bp):
AAAAATTAAAAAGATTATTAAAAC
Found at i:6421380 original size:19 final size:17
Alignment explanation
Indices: 6421356--6421390 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
6421346 GAACATGTTA
6421356 TATATAAAGAAGAGAAAAT
1 TATATAAA-AAGA-AAAAT
6421375 TATATAAAAAGAAAAA
1 TATATAAAAAGAAAAA
6421391 GAGATAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (17 bp):
TATATAAAAAGAAAAAT
Found at i:6423524 original size:19 final size:20
Alignment explanation
Indices: 6423500--6423541 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6423490 AAGTAACTTA
6423500 TATATTAATTAAA-AATTAC
1 TATATTAATTAAATAATTAC
* *
6423519 TATATTTATTAAATATTTAC
1 TATATTAATTAAATAATTAC
6423539 TAT
1 TAT
6423542 TTTATTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTAATTAAATAATTAC
Found at i:6423778 original size:39 final size:39
Alignment explanation
Indices: 6423735--6423838 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 39
6423725 TTCTTTATGA
6423735 TATTACAATTCTATTTCATTCAACCAAATACAACAATAT
1 TATTACAATTCTATTTCATTCAACCAAATACAACAATAT
* *
6423774 TATTACAATTCTATTCCATTCTATTCAACTAAATACAATAATAT
1 TATTACAATTCTA-T---TTC-ATTCAACCAAATACAACAATAT
* * *
6423818 TACTACAACTCTATTCCATTC
1 TATTACAATTCTATTTCATTC
6423839 TATTCAACCA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 17 0.31
40 3 0.05
43 4 0.07
44 31 0.56
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.38
Consensus pattern (39 bp):
TATTACAATTCTATTTCATTCAACCAAATACAACAATAT
Found at i:6423817 original size:44 final size:44
Alignment explanation
Indices: 6423752--6423850 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
6423742 ATTCTATTTC
* *
6423752 ATTCAACCAAATACAACAATATTATTACAATTCTATTCCATTCT
1 ATTCAACCAAATACAACAATATTACTACAACTCTATTCCATTCT
* *
6423796 ATTCAACTAAATACAATAATATTACTACAACTCTATTCCATTCT
1 ATTCAACCAAATACAACAATATTACTACAACTCTATTCCATTCT
6423840 ATTCAACCAAA
1 ATTCAACCAAA
6423851 CAATTAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.34
Consensus pattern (44 bp):
ATTCAACCAAATACAACAATATTACTACAACTCTATTCCATTCT
Found at i:6425612 original size:26 final size:26
Alignment explanation
Indices: 6425576--6425633 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
6425566 CATTTTTATA
6425576 ATATATATATACACGCATATACATAT
1 ATATATATATACACGCATATACATAT
* * * *
6425602 ATATATATATATACTCATATTCTTAT
1 ATATATATATACACGCATATACATAT
6425628 ATATAT
1 ATATAT
6425634 GTTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (26 bp):
ATATATATATACACGCATATACATAT
Found at i:6448097 original size:7 final size:7
Alignment explanation
Indices: 6448083--6448128 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
6448073 AGTTCAGACT
6448083 AAAAAA-
1 AAAAAAC
*
6448089 AACAAA-
1 AAAAAAC
6448095 AAAAAAC
1 AAAAAAC
*
6448102 AAAAATC
1 AAAAAAC
6448109 AAAAAAC
1 AAAAAAC
6448116 AAAAAAC
1 AAAAAAC
6448123 AAAAAA
1 AAAAAA
6448129 AATAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
6 10 0.29
7 25 0.71
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:6448117 original size:24 final size:24
Alignment explanation
Indices: 6448084--6448143 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
6448074 GTTCAGACTA
6448084 AAAAAAACAAAAAA-AAACAAAAAT
1 AAAAAAACAAAAAACAAA-AAAAAT
*
6448108 CAAAAAACAAAAAACAAAAAAAAT
1 AAAAAAACAAAAAACAAAAAAAAT
6448132 AAAAAAATCAAA
1 AAAAAAA-CAAA
6448144 GTCAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (24 bp):
AAAAAAACAAAAAACAAAAAAAAT
Found at i:6449002 original size:17 final size:17
Alignment explanation
Indices: 6448982--6449016 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6448972 ACTTTGAGTC
*
6448982 AAAAAA-AAAAGATGAA
1 AAAAAAGAAAAAATGAA
6448998 AAAAAAGAAAAAATGAA
1 AAAAAAGAAAAAATGAA
6449015 AA
1 AA
6449017 TGGAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAAAGAAAAAATGAA
Found at i:6451386 original size:46 final size:46
Alignment explanation
Indices: 6450269--6451369 Score: 1547
Period size: 46 Copynumber: 23.9 Consensus size: 46
6450259 ACGAAGTTAT
* * **
6450269 AGATCTTATCTTCCTGTATTTGGCAGCAGAGGGGATCGAAGATATT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * * * *
6450315 AGATCTTGTCTTCCTGAATTTGGCAGCGAAAGGGATTGAAGATATC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
6450361 AGATCTTGTTTTCCTGTATTTGGCAGCGGAGAGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450407 AGATCTTGTCTTCCTGTATCTGGCAGCGAAGGGGATCGAAGATATC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
6450453 AAATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGGTAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450499 AGATCTTGTCTTCCTGTATTTGGTAGCGGAAGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450545 AGATCTTGTCTTCCTGTATTTGGCAGCGGAAGGGATCAAAGATATC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
*
6450591 AGATCTTGTCTTCTTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450637 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATTGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450683 GGATCTTGTCTTCCTGTATTTGGCCGCGGAGGGGAACGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450729 AAATCTTGTCTTCATGTATTTGGCAGGGGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
6450775 AGATCTTGTGTTCCTGTATTTGG-AGCGGATGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * * * *
6450820 AGATCTTGTATTCTTGTATTTGGCAGCAGAGGGGATCTAAGATATC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450866 AGATCTTGTCTTCCTATATTTGGCAGCGAAGGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6450912 AGATCATGTCTTCCTGTATTTAGCAGCGGAGGGGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * **
6450958 AGATCATGTTTTCCTGTATTTGGCAGCGGGAGGATATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGC-GGAGGGGATCGAAGATAGC
* *
6451005 AGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGAGCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
6451051 AGATCTTGTCTTCCTGTATTTGGTAGCGGAGCGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
6451097 AGATCTTGTCTTCCTGTAATTGGCAGCGGAAGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
*
6451143 AGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
6451189 AGATCTTGTCTTCCTGTATTTGGCAGCAGAAGGGATCAAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * * *
6451235 AGATCTTATCTTCATGTATTTGGTAGCGGAGGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * ** *
6451281 AGATGTTATCTTTATGTATTTGGCAGCGGAGGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* **
6451327 AGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGAT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
6451370 GGTGAATCTT
Statistics
Matches: 935, Mismatches: 118, Indels: 4
0.88 0.11 0.00
Matches are distributed among these distances:
45 41 0.04
46 853 0.91
47 41 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (46 bp):
AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
Found at i:6451764 original size:44 final size:44
Alignment explanation
Indices: 6451422--6452154 Score: 238
Period size: 44 Copynumber: 16.7 Consensus size: 44
6451412 GCCATTAGTC
* ** * *
6451422 CTATCACCCTAAGCAGTAGTGAAATAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* ** * * * *
6451466 CTGTCACCCTAAATAGTAGTGGGGCAGATCGAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* * * * * *
6451509 CTTATCTTCCC-AATACAGTAGCGAAGCAGATTTAAGCCATT-T-G-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGTAGATT
* * * **
6451554 CTATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* * * * * *
6451598 CTGTCACCCGAAGTAGTAGTGGAGCAGATCGAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
** * * * * * * * *
6451641 CTTATCTTCCTAATACAGCAGAGAAGCAAATTTATGCCA-T-TAG-TC
1 C-TATCACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGTAGATT
* * * *
6451686 CTATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTTTAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* * * *
6451730 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* * * * * * *
6451773 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGTAGATT
* * * * *
6451818 CTATCATCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* * * *
6451862 CTGTCACCCTAAGCAGTAGTGGAGCAGATCGAA-AGTGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGA-TTGTAGATT
* * * * * * *
6451905 CTTATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 C-TATC-ACCCTAA-GCAGTAGTGGAGCAGATTGAAG--ATTGTAGATT
** * *
6451950 CTATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
* * * * *
6451994 CTGTCACCCTAAGCAGTAGTGGGGCAGATCGAAGATGGT-GAAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
** * * * * * *
6452037 CTTATC-TTCTCAATACAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TC
1 C-TATCACCCT-AA-GCAGTAGTGGAGCAGATTGAAG--ATTGTAGATT
* * * *
6452082 CTATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATT
1 CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
*
6452126 CTATCCCCCTAAGCAGTAGTGGAGCAGAT
1 CTATCACCCTAAGCAGTAGTGGAGCAGAT
6452155 CAACAATAAC
Statistics
Matches: 469, Mismatches: 171, Indels: 98
0.64 0.23 0.13
Matches are distributed among these distances:
41 7 0.01
42 4 0.01
43 110 0.23
44 241 0.51
45 95 0.20
46 6 0.01
47 5 0.01
48 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
CTATCACCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATT
Found at i:6452172 original size:132 final size:132
Alignment explanation
Indices: 6451359--6452155 Score: 1317
Period size: 132 Copynumber: 6.0 Consensus size: 132
6451349 GCAGCAGAGT
*
6451359 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* * ** *
6451424 ATCACCCTAAGCAGTAGTGAAATAGGTTGAAGATTGCAGATTCTGTCACCCTAAATAGTAGTGGG
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
6451489 GC
131 GC
* * *
6451491 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGCGAAGCAGATTTAAGCCATTTGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* * * *
6451556 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
6451621 GC
131 GC
* ** * *
6451623 AGATCGAAGATGGTGAATCTTATCTTCCTAATACAGCAGAGAAGCAAATTTATGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* **
6451688 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTTTAGATTCTGTCACCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
6451753 GC
131 GC
6451755 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* *
6451820 ATCATCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTCTGTCACCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
6451885 GC
131 GC
6451887 AGATCGAA-AGTGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
1 AGATCGAAGA-TGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
6451951 TATCACCCTAAGCAGTAGTGGAATAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
65 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
*
6452016 GGC
130 AGC
*
6452019 AGATCGAAGATGGTGAATCTTATCTTCTCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
* * *
6452084 ATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTATCCCCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
6452149 GC
131 GC
6452151 AGATC
1 AGATC
6452156 AACAATAACG
Statistics
Matches: 622, Mismatches: 41, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 620 1.00
133 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
ATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGA
GC
Found at i:6453642 original size:26 final size:25
Alignment explanation
Indices: 6453609--6453658 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
6453599 TATATACACC
*
6453609 TTATTATAAATATCTTTATATCTTA
1 TTATTATAAATATCTATATATCTTA
* *
6453634 TTATGTATATATATCTATATCTCTT
1 TTAT-TATAAATATCTATATATCTT
6453659 TTTAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTATAAATATCTATATATCTTA
Found at i:6459956 original size:20 final size:20
Alignment explanation
Indices: 6459916--6459967 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6459906 TAAATTTTTT
6459916 TATTTCCTCATAGTTTTTGA
1 TATTTCCTCATAGTTTTTGA
*
6459936 TATTTCCTCGTA-TTTTATGA
1 TATTTCCTCATAGTTTT-TGA
*
6459956 TACTTCCTCATA
1 TATTTCCTCATA
6459968 ATTATTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (20 bp):
TATTTCCTCATAGTTTTTGA
Found at i:6460109 original size:21 final size:22
Alignment explanation
Indices: 6460060--6460101 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6460050 TTGGTACACC
6460060 CTCAT-AA-TTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
6460080 CTCATAAATTTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
6460102 TTTGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (22 bp):
CTCATAAATTTTTTTGTATGGT
Found at i:6460533 original size:20 final size:20
Alignment explanation
Indices: 6460493--6460533 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6460483 GCTAAAATTT
*
6460493 AATTTTGAAAGCATACCAAA
1 AATTTTGAAAGCATACAAAA
*
6460513 AATTTTGAAAGCATATAAAA
1 AATTTTGAAAGCATACAAAA
6460533 A
1 A
6460534 TGATGTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (20 bp):
AATTTTGAAAGCATACAAAA
Found at i:6461745 original size:33 final size:33
Alignment explanation
Indices: 6461719--6461897 Score: 137
Period size: 33 Copynumber: 5.4 Consensus size: 33
6461709 GAGAAAGTTC
* * * *
6461719 GCTAGAACAGTAAATACAAAATAGAGATAGCCT
1 GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
* * *
6461752 GCTAGGACAGTAAACATAGAACAGAGAAAGTCC-
1 GCTAGGACAGTAAACACAAAATAGAGAAAG-CCG
* * * *
6461785 GTTGGGACAGTAAACACAAAATAGAGATAGTCG
1 GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
* * *
6461818 GCTAGGACAGTAAACATAGAACAGAGAAAGTCC-
1 GCTAGGACAGTAAACACAAAATAGAGAAAG-CCG
** * * * *
6461851 TTTGGGACAATAAACACAAAATAGAGATAGCCT
1 GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
*
6461884 GCTAGGACATTAAA
1 GCTAGGACAGTAAA
6461898 AACAGAGAAT
Statistics
Matches: 110, Mismatches: 32, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
32 3 0.03
33 104 0.95
34 3 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (33 bp):
GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
Found at i:6461814 original size:66 final size:66
Alignment explanation
Indices: 6461725--6461936 Score: 309
Period size: 66 Copynumber: 3.2 Consensus size: 66
6461715 GTTCGCTAGA
*
6461725 ACAGTAAATACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
6461790 G
66 G
* * *
6461791 ACAGTAAACACAAAATAGAGATAGTCGGCTAGGACAGTAAACATAGAACAGAGAAAGTCCTTTGG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
6461856 G
66 G
* * * * * * *
6461857 ACAATAAACACAAAATAGAGATAGCCTGCTAGGACATTAAAAACAGAGA-ATAGATAGTTCGTTG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGA-ACAGAGAAAGTCCGTTG
6461921 GG
65 GG
6461923 ACAGTAAACACAAA
1 ACAGTAAACACAAA
6461937 TAAAGTTCGT
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
66 129 0.99
67 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (66 bp):
ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
G
Found at i:6485025 original size:11 final size:11
Alignment explanation
Indices: 6485003--6485033 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
6484993 TCATGGATTA
6485003 TCTCTGTTTATT
1 TCTCT-TTTATT
6485015 TCTCTTTTATT
1 TCTCTTTTATT
6485026 TCTCTTTT
1 TCTCTTTT
6485034 TCCACCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (11 bp):
TCTCTTTTATT
Found at i:6488563 original size:94 final size:94
Alignment explanation
Indices: 6488433--6488611 Score: 331
Period size: 94 Copynumber: 1.9 Consensus size: 94
6488423 AAAAATTATT
*
6488433 TTAAATTATATTTTATAGTGTTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
*
6488498 TAAGAATTTTATTAAATTATATATTTTTA
66 TAACAATTTTATTAAATTATATATTTTTA
*
6488527 TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
6488592 TAACAATTTTATTAAATTAT
66 TAACAATTTTATTAAATTAT
6488612 GTTAAAATAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (94 bp):
TTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
TAACAATTTTATTAAATTATATATTTTTA
Found at i:6488636 original size:94 final size:94
Alignment explanation
Indices: 6488433--6488632 Score: 310
Period size: 94 Copynumber: 2.1 Consensus size: 94
6488423 AAAAATTATT
*
6488433 TTAAATTATATTTTATAGTGTTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
* * * * *
6488498 TAAGAATTTTATTAAATTATATATTTTTA
66 TAACAATTTTATTAAATTATAAAATATGA
*
6488527 TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
6488592 TAACAATTTTATTAAATTATGTTAAAATATGA
66 TAACAATTTTATTAAATTA---TAAAATATGA
6488624 TTAAATTAT
1 TTAAATTAT
6488633 TTATTATTTA
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
94 81 0.84
97 15 0.16
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (94 bp):
TTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATAT
TAACAATTTTATTAAATTATAAAATATGA
Found at i:6496612 original size:33 final size:33
Alignment explanation
Indices: 6496574--6496641 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
6496564 AATTAATGGG
*
6496574 AAAAGATGGTTTGGTAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
6496607 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
6496640 AA
1 AA
6496642 GTGGATTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (33 bp):
AAAAGATGGTTTGATAGATTAAGGTATGGGATA
Found at i:6510986 original size:153 final size:152
Alignment explanation
Indices: 6510250--6511368 Score: 1518
Period size: 153 Copynumber: 7.3 Consensus size: 152
6510240 TTTGGTGTGT
* * *
6510250 TTTTTATTGAAAGTAATAAAATC-CGATAAAAAATACGAACAAAGGACCGAAATAAGGGTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGA-AAAAAATACGAACAAAGG-CCGAAATAA-TGATTTTT
* * * * * *
6510314 TTTAACTCATTTATAAAACACACTAAATGAATACACTTCAAACATAATCTACTAAAATAATGTAA
63 TTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
6510379 AATAATAAAATTAGAAAATATTATA
128 AATAATAAAATTAGAAAATAATATA
* * * *
6510404 -TTTT-TTAAAAGTAATAAAATTCGGGGAAAAAAATACGAACAAAAGGCCAAAATAATGGTTTTT
1 TTTTTATTGAAAGTAATAAAA-TC-TGGAAAAAAATACGAAC-AAAGGCCGAAATAATGATTTTT
* * *
6510467 CTTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATGATGTA
63 -TTAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
6510532 AAATAATAAAATTAGAAAATAATATA
127 AAATAATAAAATTAGAAAATAATATA
* * * *
6510558 TTTTTATTGAAAGTAATAAAATTTGGAAAAAAA-A--TA-AAGGGCCGAAATAAGGATTTTTGTA
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAATACGAACAAAGGCCGAAATAATGATTTTT-T-
* *
6510619 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAAAGTACTAAAATAATGTAAA
64 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
6510684 GTAATAAAATTAGAAAATAATATA
129 ATAATAAAATTAGAAAATAATATA
*
6510708 TTTTTATTGAAAGTAATAAAATCTGGGAAAAAAAT----A-AATGGCCGAAATAA-GAATTTTTT
1 TTTTTATTGAAAGTAATAAAATCT-GGAAAAAAATACGAACAAAGGCCGAAATAATG-ATTTTTT
* * *
6510767 TAAATTTTATTTAAAAAACAGACTAAATGAATATATTTCAAACATAATGTACTAAAATAATATAA
64 TAAA-TTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
6510832 AATAATAAAATTAGAAAATAATATA
128 AATAATAAAATTAGAAAATAATATA
*
6510857 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAAATACGAACAAAGGTCGAAATAATGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGG-AAAAAAATACGAACAAAGGCCGAAATAATGATTTTTTT
* *
6510922 AAATTTATTTAAAAAACAGACTAAATGAATAAATTTCAAACATAATGTACTAAAATAATGTAAAA
65 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
6510987 TAATAAAATTAGAAAATAATATA
130 TAATAAAATTAGAAAATAATATA
* *
6511010 TTTTTATTGAAAGTAATAAAATCT-GAGAAAAATACGAACAAAGGGCCGGAATAATGATTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAATACGAACAAA-GGCCGAAATAATGATTTTTTT
* * * * *
6511074 TAATTTATTTAAAAAACACAGTAAATTAATAAATTTCAAATATAATGTACTAAAATAATGTAAAA
65 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
6511139 TAATAAAA-TATGAAAATAATATA
130 TAATAAAATTA-GAAAATAATATA
*
6511162 TTTTTATTGAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAA-GAGTTTTTT
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAATACGAACAAA-GGCCGAAATAATGA--TTTTT
**
6511226 TTAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
63 TT-AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
* *
6511291 AAAAAATAAAATTAGAAAATAGTATA
127 AAATAATAAAATTAGAAAATAATATA
* * *
6511317 -TTTT-TTAAAAGCAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATA
1 TTTTTATTGAAAGTAATAAAATCTGGAAAAAAATACGAACAAA-GGCCGAAATA
6511369 CGAACAATTG
Statistics
Matches: 875, Mismatches: 64, Indels: 53
0.88 0.06 0.05
Matches are distributed among these distances:
148 5 0.01
149 133 0.15
150 126 0.14
151 28 0.03
152 139 0.16
153 195 0.22
154 144 0.16
155 89 0.10
156 16 0.02
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (152 bp):
TTTTTATTGAAAGTAATAAAATCTGGAAAAAAATACGAACAAAGGCCGAAATAATGATTTTTTTA
AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAAATTAGAAAATAATATA
Found at i:6511693 original size:23 final size:24
Alignment explanation
Indices: 6511634--6511695 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
6511624 ACTTTTTTCT
6511634 AATA-TTAAATTATGATAAATTATTTA
1 AATATTTAAA-TAT-AT-AATTATTTA
6511660 AATATTTAAATATATAATT-TTTA
1 AATATTTAAATATATAATTATTTA
6511683 AAT-TTTAAA-ATAT
1 AATATTTAAATATAT
6511696 TATCTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 7 0.20
24 4 0.11
25 2 0.06
26 7 0.20
27 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATTTAAATATATAATTATTTA
Found at i:6514598 original size:5 final size:6
Alignment explanation
Indices: 6514580--6514610 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6514570 CACTTCAACA
6514580 TAAAAT TAAAAT T-AAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TA
6514611 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:6514598 original size:11 final size:11
Alignment explanation
Indices: 6514582--6514606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6514572 CTTCAACATA
6514582 AAATTAAAATT
1 AAATTAAAATT
6514593 AAATTAAAATT
1 AAATTAAAATT
6514604 AAA
1 AAA
6514607 ATTAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:6519658 original size:2 final size:2
Alignment explanation
Indices: 6519651--6519687 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
6519641 CAACACTGTC
* *
6519651 TA TA TA TA TA TA TA TA TA CA CA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6519688 CTTCACCATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:6533459 original size:105 final size:105
Alignment explanation
Indices: 6533318--6533722 Score: 492
Period size: 105 Copynumber: 3.8 Consensus size: 105
6533308 AAATAAAATT
* *
6533318 CGTGATAGTGTTACCGTTAATTAACAAAATAAAATTATAATTTAAATTACTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
* * *
6533383 TTTGTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAA
66 TCTCTGAAAAGGAGATATTGTAAGCTTTCTTTTATTTGAA
* * * *
6533423 CGTGATAGTATCACTGTTAATTAACAAATTATAATTATAATTTAAATTATTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
** * **
6533488 TCTCTGAAAATAAGATATTGTAAACTGACTTTTATTTGAA
66 TCTCTGAAAAGGAGATATTGTAAGCTTTCTTTTATTTGAA
* * *
6533528 -GATGATAGTATTACCGTTAATTAATAAAATAAAATTATAATTTAAATCATTAATTCGTTTTTGT
1 CG-TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGT
* * * * *
6533592 TTCTCTGGAAATGAGATGTTGTAAGGTTTTTTTTTTATTTGAA
65 TTCTCTGAAAAGGAGATATTGTAA-G-CTTTCTTTTATTTGAA
* * * * *
6533635 GGTGATAGTATTATTC-TAAATTAACAAAATAAAATTATAATTTTAATTATTAATTCTTTTTTAT
1 CGTGATAGTATTA-CCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGT
*
6533699 TTCTCTG-AAAGTGAGATGTTGTAA
65 TTCTCTGAAAAG-GAGATATTGTAA
6533723 TAAGAATGAG
Statistics
Matches: 257, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
104 1 0.00
105 167 0.65
106 3 0.01
107 84 0.33
108 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (105 bp):
CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
TCTCTGAAAAGGAGATATTGTAAGCTTTCTTTTATTTGAA
Found at i:6533704 original size:212 final size:210
Alignment explanation
Indices: 6533320--6533722 Score: 563
Period size: 212 Copynumber: 1.9 Consensus size: 210
6533310 ATAAAATTCG
* * * *
6533320 TGATAGTGTTACCGTTAATTAACAAAATAAAATTATAATTTAAATTACTAATTCTTTTTTGTTTT
1 TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATCACTAATTCGTTTTTGTTTC
* * *
6533385 TGTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAACGTGATAGTATCACTGTTAATTAACAA
66 TCTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAACGTGATAGTATCACTCTAAATTAACAA
* * *
6533450 ATTATAATTATAATTTAAATTATTAATTCTTTTTTGTTTCTCTGAAAATAAGATATTGTAAACTG
131 AATAAAATTATAATTTAAATTATTAATTCTTTTTTATTTCTCTGAAAATAAGATATTGTAAACTG
6533515 ACTTTTATTTGAAGA
196 ACTTTTATTTGAAGA
* *
6533530 TGATAGTATTACCGTTAATTAATAAAATAAAATTATAATTTAAATCATTAATTCGTTTTTGTTTC
1 TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATCACTAATTCGTTTTTGTTTC
* * * * * * * * *
6533595 TCTGGAAATGAGATGTTGTAAGGTTTTTTTTTTATTTGAAGGTGATAGTATTATTCTAAATTAAC
66 TCTGAAAAGGAGATATTGTAA-G-CTTTCTTTAATTTGAACGTGATAGTATCACTCTAAATTAAC
* * * *
6533660 AAAATAAAATTATAATTTTAATTATTAATTCTTTTTTATTTCTCTGAAAGTGAGATGTTGTAA
129 AAAATAAAATTATAATTTAAATTATTAATTCTTTTTTATTTCTCTGAAAATAAGATATTGTAA
6533723 TAAGAATGAG
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
210 76 0.46
211 1 0.01
212 89 0.54
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (210 bp):
TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATCACTAATTCGTTTTTGTTTC
TCTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAACGTGATAGTATCACTCTAAATTAACAA
AATAAAATTATAATTTAAATTATTAATTCTTTTTTATTTCTCTGAAAATAAGATATTGTAAACTG
ACTTTTATTTGAAGA
Found at i:6542821 original size:19 final size:19
Alignment explanation
Indices: 6542794--6542833 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6542784 GTCCAAGTGT
* *
6542794 ATAACTAGTATTACACTAC
1 ATAACTAGTACTACACCAC
*
6542813 ATAATTAGTACTACACCAC
1 ATAACTAGTACTACACCAC
6542832 AT
1 AT
6542834 TAAAGCATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAC
Found at i:6544788 original size:22 final size:22
Alignment explanation
Indices: 6544763--6544804 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6544753 CCATTAGTTG
6544763 CTACAA-CCATTCAACAAAACTA
1 CTACAAGCC-TTCAACAAAACTA
6544785 CTACAAGCCTTCAACAAAAC
1 CTACAAGCCTTCAACAAAAC
6544805 ACAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (22 bp):
CTACAAGCCTTCAACAAAACTA
Found at i:6547430 original size:23 final size:23
Alignment explanation
Indices: 6547402--6547446 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6547392 CATTTTAAAA
*
6547402 TTTTAAAAATTTAAAATAATTAT
1 TTTTAAAAATTAAAAATAATTAT
*
6547425 TTTTAAAAATTAAAAATCATTA
1 TTTTAAAAATTAAAAATAATTA
6547447 AAATTACGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAAATTAAAAATAATTAT
Found at i:6555016 original size:11 final size:11
Alignment explanation
Indices: 6555000--6555029 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
6554990 TTATATAAAG
6555000 CTTCCCTTTCC
1 CTTCCCTTTCC
6555011 CTTCCCTTTCC
1 CTTCCCTTTCC
6555022 CTTCCCTT
1 CTTCCCTT
6555030 ACACTGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTTCCCTTTCC
Done.