Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 127 of 425
Found at i:38025113 original size:54 final size:54
Alignment explanation
Indices: 38025031--38025160 Score: 199
Period size: 54 Copynumber: 2.4 Consensus size: 54
38025021 GTCCTAGTGG
38025031 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCAGGTGA
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCAGGTGA
* * *
38025085 CTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGG
1 CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCAGGTGA
* *
38025139 CTCTACCACAA-TATCTGTATCT
1 CTATGCCACAATTATCTG-ATCT
38025161 AGTGACTTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
53 6 0.09
54 63 0.91
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
CTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCAGGTGA
Found at i:38029657 original size:41 final size:41
Alignment explanation
Indices: 38029612--38029729 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
38029602 TGAAAGATAA
38029612 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
38029653 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38029683 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38029724 ATGTAG
1 ATGTAG
38029730 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:38029668 original size:71 final size:71
Alignment explanation
Indices: 38029580--38029743 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38029570 GAGATGTATC
38029580 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38029645 AGGACA
66 AGGACA
38029651 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38029716 AGGACA
66 AGGACA
38029722 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
38029744 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:38037158 original size:41 final size:41
Alignment explanation
Indices: 38037113--38037230 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
38037103 TGAAAGATAA
38037113 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
38037154 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38037184 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
38037225 ATGTAG
1 ATGTAG
38037231 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:38037169 original size:71 final size:71
Alignment explanation
Indices: 38037081--38037244 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38037071 GAGATGTATC
38037081 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38037146 AGGACA
66 AGGACA
38037152 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
38037217 AGGACA
66 AGGACA
38037223 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
38037245 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:38040350 original size:70 final size:71
Alignment explanation
Indices: 38040267--38040429 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
38040257 CGATTTGTCT
38040267 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38040331 CTTTCA
66 CTTTCA
*
38040337 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38040402 CTTTCA
66 CTTTCA
38040408 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38040430 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38040467 original size:71 final size:70
Alignment explanation
Indices: 38040267--38040463 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
38040257 CGATTTGTCT
* * * *
38040267 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38040331 CTTTCA
65 CTTTCA
* * * *
38040337 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38040402 CTTTCA
65 CTTTCA
* *
38040408 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38040464 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38047884 original size:70 final size:71
Alignment explanation
Indices: 38047801--38047963 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
38047791 CGATTTGTCT
38047801 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38047865 CTTTCA
66 CTTTCA
*
38047871 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38047936 CTTTCA
66 CTTTCA
38047942 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38047964 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38048001 original size:71 final size:70
Alignment explanation
Indices: 38047801--38047997 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
38047791 CGATTTGTCT
* * * *
38047801 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38047865 CTTTCA
65 CTTTCA
* * * *
38047871 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38047936 CTTTCA
65 CTTTCA
* *
38047942 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38047998 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38055404 original size:26 final size:26
Alignment explanation
Indices: 38055375--38055482 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
38055365 TGGTACAAAT
38055375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38055401 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38055427 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38055453 TGATAATGGCTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38055479 TGAT
1 TGAT
38055483 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38056943 original size:28 final size:26
Alignment explanation
Indices: 38056898--38056972 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
38056888 AAAAGTAGCC
* * * *
38056898 AAATTACTATAATGCCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
*
38056926 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
38056952 AAATTA-TCGTTATACCCCTAG
1 AAATTACT-GTTATACCCCTAG
38056973 GGTTAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.02
26 22 0.54
27 1 0.02
28 17 0.41
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:38057116 original size:27 final size:26
Alignment explanation
Indices: 38057076--38057216 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
38057066 AGGAAGCGTC
*
38057076 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
38057103 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
38057130 CTGGTGGCTATGCAACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
38057157 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
38057184 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTCTGCCACATTATCT-GAT
38057211 CTGGTG
1 CTGGTG
38057217 ACTTCATCAC
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.09
27 86 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:38057158 original size:54 final size:54
Alignment explanation
Indices: 38057076--38057216 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
38057066 AGGAAGCGTC
* *
38057076 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCAACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
38057130 CTGGTGGCTATGCAACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCAACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * *
38057184 CTGGTGGCTCTGCCACAA-TATCTATATCTGGTG
1 CTGGTGGCTATGCAACAATTATCT-GATCTGGTG
38057217 ACTTCATCAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCAACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:38060269 original size:25 final size:26
Alignment explanation
Indices: 38060241--38060291 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
38060231 ATGTTGATTG
38060241 GTATGACTGTTTGTTATGTTA-TTAT
1 GTATGACTGTTTGTTATGTTACTTAT
38060266 GTATGACTGTTTGTTATGTTACTTAT
1 GTATGACTGTTTGTTATGTTACTTAT
38060292 TATTTGCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.55
Consensus pattern (26 bp):
GTATGACTGTTTGTTATGTTACTTAT
Found at i:38067409 original size:46 final size:46
Alignment explanation
Indices: 38067359--38067534 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38067349 TGGTTGAGCA
38067359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38067405 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38067450 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38067498 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38067535 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38067515 original size:93 final size:93
Alignment explanation
Indices: 38067356--38067527 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38067346 GGATGGTTGA
* *
38067356 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38067421 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38067449 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38067514 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38067528 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38067864 original size:16 final size:19
Alignment explanation
Indices: 38067828--38067864 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
38067818 GTATGACTGT
38067828 TTGTTATGTTACTGATTAC
1 TTGTTATGTTACTGATTAC
38067847 TTGTT-TGTTA-TG-TTAC
1 TTGTTATGTTACTGATTAC
38067863 TT
1 TT
38067865 AGCTTATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 5 0.28
19 5 0.28
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.59
Consensus pattern (19 bp):
TTGTTATGTTACTGATTAC
Found at i:38071406 original size:40 final size:40
Alignment explanation
Indices: 38071332--38071477 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
38071322 CCGCACCAAG
* * * * * *
38071332 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
38071372 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
38071412 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
38071452 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
38071478 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:38071492 original size:40 final size:40
Alignment explanation
Indices: 38071364--38071515 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
38071354 ATCACGATTT
* * * * *
38071364 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
38071404 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
38071444 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
38071484 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
38071516 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:38079517 original size:40 final size:40
Alignment explanation
Indices: 38079443--38079588 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
38079433 CCGCACCAAG
* * * * * *
38079443 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
38079483 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
38079523 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
38079563 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
38079589 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:38079603 original size:40 final size:40
Alignment explanation
Indices: 38079475--38079626 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
38079465 ATCACGATTT
* * * * *
38079475 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
38079515 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
38079555 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
38079595 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
38079627 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:38083274 original size:24 final size:26
Alignment explanation
Indices: 38083233--38083284 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
38083223 TCGGGACTAA
*
38083233 TTTAATATCCACATTTAA-TCCTAAAT
1 TTTAATATCCACAATTAACT-CTAAAT
38083259 TTTAATAT-CA-AATTAACTCTAAAT
1 TTTAATATCCACAATTAACTCTAAAT
38083283 TT
1 TT
38083285 CCCTAATTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 8 0.33
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTAATATCCACAATTAACTCTAAAT
Found at i:38087419 original size:21 final size:23
Alignment explanation
Indices: 38087368--38087419 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
38087358 TATTATATAT
*
38087368 TTTTATTATACTTATTATACTTA
1 TTTTATTTTACTTATTATACTTA
*
38087391 -TTT-GTTTACTTATT-TA-TTA
1 TTTTATTTTACTTATTATACTTA
38087410 TTTTATTTTA
1 TTTTATTTTA
38087420 TCTCATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
19 3 0.12
20 5 0.21
21 13 0.54
22 3 0.12
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATTTTACTTATTATACTTA
Found at i:38093067 original size:18 final size:18
Alignment explanation
Indices: 38093044--38093079 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38093034 TTTGGAAGGA
*
38093044 GATGGTGAGAAGTGGATT
1 GATGGTGAAAAGTGGATT
38093062 GATGGTGAAAAGTGGATT
1 GATGGTGAAAAGTGGATT
38093080 AATCCTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.28
Consensus pattern (18 bp):
GATGGTGAAAAGTGGATT
Found at i:38095722 original size:46 final size:46
Alignment explanation
Indices: 38095504--38095722 Score: 266
Period size: 46 Copynumber: 4.7 Consensus size: 46
38095494 AACCCGCCCC
* * *
38095504 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
38095550 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * * *
38095598 TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38095643 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38095689 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38095723 TACTCAACCA
Statistics
Matches: 149, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 4 0.03
46 101 0.68
47 28 0.19
48 2 0.01
49 2 0.01
50 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:38101451 original size:52 final size:54
Alignment explanation
Indices: 38101396--38101497 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
38101386 TATTTCACCT
* * * *
38101396 AAAAAA-GGAGAGGTCAA-GACGAAAACTCGTAAAGGGTGCTTTGAGACCTTCTA
1 AAAAAATGGAGAGGCCAAGGA-GAAAACCCCTAAAGGGCGCTTTGAGACCTTCTA
*
38101449 AAAAAATGGAGAGGCCAAGGAGAAAACCCCTAAAGGGCGTTTTGAGACC
1 AAAAAATGGAGAGGCCAAGGAGAAAACCCCTAAAGGGCGCTTTGAGACC
38101498 AAAGGGGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.14
54 34 0.81
55 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.16
Consensus pattern (54 bp):
AAAAAATGGAGAGGCCAAGGAGAAAACCCCTAAAGGGCGCTTTGAGACCTTCTA
Found at i:38102374 original size:45 final size:45
Alignment explanation
Indices: 38102306--38102394 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
38102296 TTGAGTAATC
* *
38102306 ATGGCGAATCTTATCTCCTTGAAGTTGCAATGGAGTAGATCGAAA
1 ATGGCGAAGCTTATCTCCTTGAAGTTGCAATGGAGCAGATCGAAA
* * *
38102351 ATGGCGAAGCTTATATTCC-TGAAGTTGTACTGGAGCAGATCGAA
1 ATGGCGAAGCTTAT-CTCCTTGAAGTTGCAATGGAGCAGATCGAA
38102395 GCCACCAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 35 0.92
46 3 0.08
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (45 bp):
ATGGCGAAGCTTATCTCCTTGAAGTTGCAATGGAGCAGATCGAAA
Found at i:38102633 original size:143 final size:143
Alignment explanation
Indices: 38102370--38102633 Score: 303
Period size: 143 Copynumber: 1.8 Consensus size: 143
38102360 CTTATATTCC
* * * ** * *
38102370 TGAAGTTGTACTGGAGCAGATCGAAGCCACCAGTCTTATCTCCCTAAAGTTGTAGCGGGGCAGAC
1 TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTACAGCAGAGCAGAC
* * ** ** * *
38102435 TAAAGACAGCAAATCTTATTTCTCTGAAGTTGCAGTGGAACATATTAAAGTTACAAATTATGGTG
66 TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAAATTATGGTG
38102500 ACCTTTCTCTCCT
131 ACCTTTCTCTCCT
* * * * *
38102513 TGAAGTTGCAGTGGAGCAGATTGAAACCACCAGCCTTATTTCCCTGAAGTTACAGTAGAGCAGAC
1 TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTACAGCAGAGCAGAC
** * **
38102578 TAAAGTTAGCGAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTGCAGCTACAA
66 TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAA
38102634 GTCACAATCC
Statistics
Matches: 96, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
143 96 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (143 bp):
TGAAGTTGCACTGGAGCAGATCGAAACCACCAGCCTTATCTCCCTAAAGTTACAGCAGAGCAGAC
TAAAGACAGCAAATCTCATTTCCCTGAAGCCGCAGCAGAACAGATTAAAGCTACAAATTATGGTG
ACCTTTCTCTCCT
Found at i:38102894 original size:132 final size:133
Alignment explanation
Indices: 38102682--38102946 Score: 327
Period size: 132 Copynumber: 2.0 Consensus size: 133
38102672 GATAAAAATA
* * * * * *
38102682 CACAAACTTTATCTCCTTGAAGTTACAGCGGAGCAGGTTGAAATTACCAATTTTTACCTCCTTGA
1 CACAAACCTTATCTCCCTAAAGTTACAGCGGAGCAGGTTAAAATCACCAATTCTTACCTCCTTGA
* * ** * *
38102747 AGTTCTAGCTGAGTAGATCGAAGCTACAAATCTCTT-TTTTTAAAATTACATTGGAGCATATCGA
66 AGTTCCAGCTGAGTAGATCAAAGCTACAAATCTCTTCTCCTTAAAACTACATTGGAGCAAATCGA
38102811 AGC
131 AGC
** * * * *
38102814 CACAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTAAAATCATCAATTCTTATCTCCTTTA
1 CACAAACCTTATCTCCCTAAAGTTACAGCGGAGCAGGTTAAAATCACCAATTCTTACCTCCTTGA
* *
38102879 AGTTCCAG-TGAAGTAGATCAAAGCTACAAATCTCTTCTCCTTGAAACTACATTGGAGTAAATCG
66 AGTTCCAGCTG-AGTAGATCAAAGCTACAAATCTCTTCTCCTTAAAACTACATTGGAGCAAATCG
38102943 AAGC
130 AAGC
38102947 TGCAAGTCTC
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
131 2 0.02
132 84 0.76
133 25 0.23
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (133 bp):
CACAAACCTTATCTCCCTAAAGTTACAGCGGAGCAGGTTAAAATCACCAATTCTTACCTCCTTGA
AGTTCCAGCTGAGTAGATCAAAGCTACAAATCTCTTCTCCTTAAAACTACATTGGAGCAAATCGA
AGC
Found at i:38107588 original size:40 final size:40
Alignment explanation
Indices: 38107525--38107745 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
38107515 CGGATGTAAC
* *
38107525 AACCAGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
*
38107565 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
* * *
38107605 AACCCGCACGAATACCTTCGAGATTTAACCCGGTTATAAT
1 AACCAGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
*
38107645 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
* * ** * *
38107685 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TACCTTCGGGA-CTTAACCCGGTTATAAT
* * *
38107725 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATACCTTCGG
38107746 ATCTTAGTCC
Statistics
Matches: 163, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 5 0.03
40 155 0.95
41 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
Found at i:38107743 original size:120 final size:120
Alignment explanation
Indices: 38107525--38107744 Score: 300
Period size: 120 Copynumber: 1.8 Consensus size: 120
38107515 CGGATGTAAC
* *
38107525 AACCAGCACGAATGCCTTTGGGACTTAACCCGGTTATAATAACCCGCACGAATACCTTCGGGACT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATACCTTCGGGACT
* * *
38107590 TAACCCGGTTATAATAACCCGCACGAATACCTTCGAGATTTAACCCGGTTATAAT
66 TAACCCGGATATAATAACCAGCACAAATACCTTCGAGATTTAACCCGGTTATAAT
* *
38107645 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACTAGCAC-AATTGCCTTC-GGAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAA-TACCTTCGGGA-
** * * *
38107708 CTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCG
64 CTTAACCCGGATATAATAACCAGCACAAATACCTTCG
38107745 GATCTTAGTC
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 5 0.06
120 81 0.94
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (120 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATACCTTCGGGACT
TAACCCGGATATAATAACCAGCACAAATACCTTCGAGATTTAACCCGGTTATAAT
Found at i:38112077 original size:31 final size:32
Alignment explanation
Indices: 38112042--38112110 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
38112032 TACTAATAGA
38112042 AAATAAAATGAAATTCATATATATAAATG-TT
1 AAATAAAATGAAATTCATATATATAAATGATT
*
38112073 AAATAAAATGAAATTCATATTTATAAATGATT
1 AAATAAAATGAAATTCATATATATAAATGATT
*
38112105 TAATAA
1 AAATAA
38112111 TTCTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATAAAATGAAATTCATATATATAAATGATT
Found at i:38113936 original size:46 final size:45
Alignment explanation
Indices: 38113877--38114041 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
38113867 GCCCATAAGC
*
38113877 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATA-GT
* *
38113923 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCAT-AGT
* * *
38113970 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT-AGT
38114016 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
38114042 AGATGCTCAA
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 52 0.53
47 27 0.27
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAGT
Found at i:38114035 original size:93 final size:93
Alignment explanation
Indices: 38113876--38114047 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
38113866 CGCCCATAAG
* * * *
38113876 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38113941 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
38113969 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38114034 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
38114048 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:38114063 original size:46 final size:45
Alignment explanation
Indices: 38113921--38114063 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
38113911 GCATCCATAG
*
38113921 GTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT-A
* * * * * * *
38113969 -CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTC--AGATGCTCAACCATCTA
38114014 GTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CTA
38114060 GTGA
1 GTGA
38114064 CATGTCACTT
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 10 0.14
45 1 0.01
46 30 0.41
47 28 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
GTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCTA
Found at i:38114508 original size:30 final size:31
Alignment explanation
Indices: 38114465--38114522 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
38114455 TTAACTCAAA
38114465 TTTTGGCAAATTTACAATTTTGCCCCTAAAC
1 TTTTGGCAAATTTACAATTTTGCCCCTAAAC
* *
38114496 TTTT-GCATATTTACATTTTTGCCCCTA
1 TTTTGGCAAATTTACAATTTTGCCCCTA
38114523 GGCTCGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (31 bp):
TTTTGGCAAATTTACAATTTTGCCCCTAAAC
Found at i:38122589 original size:15 final size:15
Alignment explanation
Indices: 38122571--38122600 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38122561 ATTTTTTCTC
38122571 ATCTTATCACTCCAA
1 ATCTTATCACTCCAA
38122586 ATCTTATCACTCCAA
1 ATCTTATCACTCCAA
38122601 TGTGGAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
ATCTTATCACTCCAA
Found at i:38129084 original size:131 final size:130
Alignment explanation
Indices: 38128936--38129194 Score: 412
Period size: 131 Copynumber: 2.0 Consensus size: 130
38128926 TAAAAATATA
38128936 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTT-TATTTTTTTCAACTA
1 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTATATTTTTTTCAACTA
* * *
38129000 TTTCAAAATAAAAGCTTTGATATTTAAGAAAAGTATTTTTTTTTTGGAAAAAGAGAAAGTTTAGC
66 TTTCAAAATAAAAACTTTGATATTTAAGAAAAATAGTTTTTTTTT--AAAAAGAGAAAGTTTAGC
38129065 TG
129 TG
* * * *
38129067 TTTTTTTAGTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTGATTTTTTTTTCAATT
1 TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTT-ATATTTTTTTCAACT
*
38129132 ATTTCAAAATAAAAACTTTGATCTTTAAGAAAAATAGTTTTTTTTTAAAAAGAGAAAGTTTAG
65 ATTTCAAAATAAAAACTTTGATATTTAAGAAAAATAGTTTTTTTTTAAAAAGAGAAAGTTTAG
38129195 ATTTTTAAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
131 64 0.54
133 54 0.46
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (130 bp):
TTTTTTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTATATTTTTTTCAACTA
TTTCAAAATAAAAACTTTGATATTTAAGAAAAATAGTTTTTTTTTAAAAAGAGAAAGTTTAGCTG
Found at i:38129230 original size:133 final size:129
Alignment explanation
Indices: 38128956--38129215 Score: 317
Period size: 133 Copynumber: 2.0 Consensus size: 129
38128946 CATTTTAAAG
*
38128956 GAAAATTTAAATTTTTAAAACAAAATTTTTATTTTTTTCAACTATTTCAAAATAAAAGCTTTGAT
1 GAAAATTTAAATTTTTAAAACAAAATTTTTATTTTTTTCAACTATTTCAAAATAAAAACTTTGAT
* * * ** * * ****
38129021 ATTTAAGAAAAGTATTTTTTTTTTGGAAAAAGAGAAAGTTTAGCTGTTTTTTTAGTTATTTTAAA
66 ATTTAAGAAAAATAGTTTTTTTTT-GAAAAAGAGAAAGTTTAGC-ATTTTTAAAATAAAAAAAAA
*
38129086 G
129 A
* * *
38129087 GAAAATTTAAATTTTTAAAATAAAATTTTGATTTTTTTTTCAATTATTTCAAAATAAAAACTTTG
1 GAAAATTTAAATTTTTAAAACAAAATTTT--TATTTTTTTCAACTATTTCAAAATAAAAACTTTG
*
38129152 ATCTTTAAGAAAAATAGTTTTTTTTT-AAAAAGAGAAAGTTTAG-ATTTTTAAAATAAAAAAAAA
64 ATATTTAAGAAAAATAGTTTTTTTTTGAAAAAGAGAAAGTTTAGCATTTTTAAAATAAAAAAAAA
38129215 A
129 A
38129216 TTTAGTCATT
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
129 11 0.10
131 45 0.41
133 54 0.49
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (129 bp):
GAAAATTTAAATTTTTAAAACAAAATTTTTATTTTTTTCAACTATTTCAAAATAAAAACTTTGAT
ATTTAAGAAAAATAGTTTTTTTTTGAAAAAGAGAAAGTTTAGCATTTTTAAAATAAAAAAAAAA
Found at i:38129355 original size:145 final size:143
Alignment explanation
Indices: 38129071--38129358 Score: 327
Period size: 145 Copynumber: 2.0 Consensus size: 143
38129061 TAGCTGTTTT
* * * *
38129071 TTTAGTTATTTTAAAGGAAAATTTAAATTTTTAAAATAAAATTTTGATTTTTTTTTCAATTATTT
1 TTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTGA-TTCTTTTTCAACTATTT
* *
38129136 CAAAATAAAAACTTTGATCTTTAAGAAAAATAGTTTTTTTTTAAAAAGAGAAAGTTTAGATTTTT
65 CAAAATAAAAACTTTGATCTTTAAGAAAAATAGTATTTTTTT-AAAAGAGAAACTTTAGATTTTT
*
38129201 AAAATAAAAAAAAAA
129 AAAAAAAAAAAAAAA
* *
38129216 TTTAGTCATTTTAAAGGAAAAATTTAGATTTTTTAAAACAAAGTTTTGA-TCTTTTTCAACTATT
1 TTTAGTCATTTTAAAGG-AAAATTTA-AATTTTTAAAACAAAATTTTGATTCTTTTTCAACTATT
** ** * *
38129280 TTGAAAT-AAAGTTTTGAT-TTGTAAGAGAAGTAGTGATTTTTTT-AAAGA-AAACTTT-GATTT
64 TCAAAATAAAAACTTTGATCTT-TAAGAAAAATAGT-ATTTTTTTAAAAGAGAAACTTTAGATTT
*
38129340 TGTAAAGAAAAAAAAAAA
127 T-TAAAAAAAAAAAAAAA
38129358 T
1 T
38129359 CCAGCCACCG
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
141 6 0.05
142 21 0.17
143 7 0.06
144 20 0.16
145 41 0.34
146 8 0.07
147 19 0.16
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (143 bp):
TTTAGTCATTTTAAAGGAAAATTTAAATTTTTAAAACAAAATTTTGATTCTTTTTCAACTATTTC
AAAATAAAAACTTTGATCTTTAAGAAAAATAGTATTTTTTTAAAAGAGAAACTTTAGATTTTTAA
AAAAAAAAAAAAA
Found at i:38130283 original size:27 final size:27
Alignment explanation
Indices: 38130252--38130310 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
38130242 GTAGGTGTTG
* *
38130252 CATTTTAATGAAACCATAAGTTTTTTA
1 CATTTTAATAAAACCATAAGATTTTTA
38130279 CATTTTAATAAAACCATAAGATTTTTA
1 CATTTTAATAAAACCATAAGATTTTTA
38130306 CATTT
1 CATTT
38130311 GGATTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (27 bp):
CATTTTAATAAAACCATAAGATTTTTA
Found at i:38130421 original size:52 final size:52
Alignment explanation
Indices: 38130359--38130474 Score: 187
Period size: 52 Copynumber: 2.2 Consensus size: 52
38130349 CCCTAGAAAA
38130359 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
1 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
* * *
38130411 ATTATAAATAATATGTAATATATTTTTTTGGGGTTTTAAGCTAATTCTAAAT
1 ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
* *
38130463 ATTGTATATAAT
1 ATTATAAATAAT
38130475 TATAATCTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (52 bp):
ATTATAAATAATATGTAAGATATTTTTTTAGGGTTTTAAACTAATTCTAAAT
Found at i:38132223 original size:21 final size:21
Alignment explanation
Indices: 38132197--38132239 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38132187 GTTACATGAT
38132197 AACTATGGGGTATGGTTCCTA
1 AACTATGGGGTATGGTTCCTA
38132218 AACTATGGGGTATGGTTCCTA
1 AACTATGGGGTATGGTTCCTA
38132239 A
1 A
38132240 CTTGATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (21 bp):
AACTATGGGGTATGGTTCCTA
Found at i:38134727 original size:39 final size:40
Alignment explanation
Indices: 38134522--38134741 Score: 216
Period size: 40 Copynumber: 5.5 Consensus size: 40
38134512 TATTCGAATG
* * * *
38134522 ATATCCGGGCTAAGTCCCGAAGGCTTTTATACTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
** *
38134562 ATATCCGAACTAAGATCCGAAGGCATTTGTGC-AGGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-G-TGACT
*
38134602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
38134642 ATATCCAGGTTAAGTCCCGAAGGCATTTATGCTAGTGACA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * **
38134682 ATATCCGGGCTAAGACCCGAAGTC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
38134721 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
38134742 ATACTTGGGT
Statistics
Matches: 148, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 17 0.11
40 114 0.77
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:38138492 original size:13 final size:13
Alignment explanation
Indices: 38138474--38138500 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38138464 TTAAAGTATG
38138474 ATAATATGTTAAT
1 ATAATATGTTAAT
38138487 ATAATATGTTAAT
1 ATAATATGTTAAT
38138500 A
1 A
38138501 ACTGAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (13 bp):
ATAATATGTTAAT
Found at i:38149158 original size:45 final size:45
Alignment explanation
Indices: 38149105--38149230 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 45
38149095 ATCATTTCAT
*
38149105 CGGCATTATAGCCTGCTAGGCTCGAAA-GCCCAAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCAC
* * *
38149150 CGGCATTATAGCCTGCTAGGCCCAAAGGACCGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
* *
38149195 CAGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
38149231 TAATACCAGC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 3 0.04
45 69 0.96
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:38149272 original size:38 final size:38
Alignment explanation
Indices: 38149223--38149420 Score: 245
Period size: 38 Copynumber: 5.2 Consensus size: 38
38149213 GGCTCAAAGG
* * *
38149223 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
38149261 CCCGGATATAATACTAGCACGAAGCCTGTGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
38149299 CCCGGATATATTACCAGCACGAAGCCTGCGGTATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
38149337 CTCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * **
38149375 CCCGGATATAATTCCAGCA-TATAGCCTGCGGTCTTTAA
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGGATTTAA
*
38149413 GCCGGATA
1 CCCGGATA
38149421 CAAATATCAT
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
37 1 0.01
38 138 0.99
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:38153964 original size:29 final size:28
Alignment explanation
Indices: 38153930--38154032 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
38153920 TAATCGATCA
*
38153930 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
38153959 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
38153988 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
38154017 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38154033 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 61 0.91
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:38158915 original size:93 final size:93
Alignment explanation
Indices: 38158803--38158974 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38158793 CGCCCATAAG
* *
38158803 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38158868 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
38158896 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38158961 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38158975 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:38158971 original size:46 final size:46
Alignment explanation
Indices: 38158796--38158971 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
38158786 TGTAACCCGC
* * *
38158796 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
38158842 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
38158892 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38158935 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38158972 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38163073 original size:18 final size:18
Alignment explanation
Indices: 38163050--38163092 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
38163040 TTACGAATTA
*
38163050 AATTAAATTACTTAATCT
1 AATTAAATTACTTAACCT
38163068 AATTAAATTACTTAACCT
1 AATTAAATTACTTAACCT
38163086 AAGTTAA
1 AA-TTAA
38163093 CCTAAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (18 bp):
AATTAAATTACTTAACCT
Found at i:38164341 original size:12 final size:12
Alignment explanation
Indices: 38164324--38164348 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38164314 GCTTGTTTTC
38164324 AAGAAAACAAAA
1 AAGAAAACAAAA
38164336 AAGAAAACAAAA
1 AAGAAAACAAAA
38164348 A
1 A
38164349 CAAGCAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
AAGAAAACAAAA
Found at i:38184567 original size:14 final size:14
Alignment explanation
Indices: 38184548--38184617 Score: 52
Period size: 15 Copynumber: 4.8 Consensus size: 14
38184538 ATATATTAAC
38184548 TTAATATT-TAAGTA
1 TTAATATTATAA-TA
38184562 TTAATATTATAATA
1 TTAATATTATAATA
* *
38184576 TAATATATTATTATTA
1 TTA-ATATTA-TAATA
* *
38184592 TTATTATTATTATTA
1 TTAATATTA-TAATA
*
38184607 TTATTATTATA
1 TTAATATTATA
38184618 TAAAACATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
14 14 0.29
15 29 0.59
16 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (14 bp):
TTAATATTATAATA
Found at i:38184579 original size:27 final size:27
Alignment explanation
Indices: 38184533--38184598 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
38184523 TAAAAAAATA
38184533 TATTAATA-TATTAACTTAATAT-TTAAG
1 TATTAATATTA-TAACTTAATATATT-AG
*
38184560 TATTAATATTATAA-TATAATATATTAT
1 TATTAATATTATAACT-TAATATATTAG
*
38184587 TATTATTATTAT
1 TATTAATATTAT
38184599 TATTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 29 0.85
28 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TATTAATATTATAACTTAATATATTAG
Found at i:38184589 original size:3 final size:3
Alignment explanation
Indices: 38184581--38184616 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
38184571 TAATATAATA
38184581 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38184617 ATAAAACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38186199 original size:29 final size:30
Alignment explanation
Indices: 38186146--38186203 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
38186136 TGGAAGTTTT
38186146 GGCACTAAGTGTACGATTTAAACTAGCTTG
1 GGCACTAAGTGTACGATTTAAACTAGCTTG
*
38186176 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTACGATTTAAACTAGCTT
38186204 CGGCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTACGATTTAAACTAGCTTG
Found at i:38195781 original size:46 final size:46
Alignment explanation
Indices: 38195731--38195900 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
38195721 TGGTTGAGCA
38195731 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38195777 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38195822 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38195869 CCCGAGCTCATTGA-TTGAGTCCGA-TTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38195901 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 9 0.09
44 13 0.12
45 14 0.13
46 29 0.28
47 32 0.30
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38200893 original size:40 final size:40
Alignment explanation
Indices: 38200834--38201002 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
38200824 CGGGACTTTA
* * *
38200834 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
38200874 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
38200914 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
38200954 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
38200994 CCCGGATAT
1 CCCGGATAT
38201003 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:38206560 original size:35 final size:35
Alignment explanation
Indices: 38206505--38206571 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
38206495 TGGCAAATAA
*
38206505 CCTAAAATTTGTCCATACGGGTAGACACACGATAG
1 CCTAAAATTTGTCCACACGGGTAGACACACGATAG
* *
38206540 CCTAAAATTTTTCCACACGGGTAGACAGACGA
1 CCTAAAATTTGTCCACACGGGTAGACACACGA
38206572 GCGTGTGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (35 bp):
CCTAAAATTTGTCCACACGGGTAGACACACGATAG
Found at i:38206925 original size:20 final size:20
Alignment explanation
Indices: 38206880--38206930 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
38206870 CGGGCTGAGG
*
38206880 ACAC-GGCGTGTCCCAAGTC
1 ACACGGGCGTGTCCCAAGCC
*
38206899 ACGCGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
* *
38206919 ATACGGGTGTGT
1 ACACGGGCGTGT
38206931 GTAGCCACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:38219235 original size:71 final size:71
Alignment explanation
Indices: 38219151--38219314 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38219141 CGATTTGTCT
38219151 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38219216 CTTTCA
66 CTTTCA
38219222 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38219287 CTTTCA
66 CTTTCA
38219293 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38219315 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38219352 original size:71 final size:70
Alignment explanation
Indices: 38219151--38219348 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38219141 CGATTTGTCT
* * * *
38219151 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38219216 CTTTCA
65 CTTTCA
* * * *
38219222 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38219287 CTTTCA
65 CTTTCA
* *
38219293 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38219349 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38223712 original size:13 final size:13
Alignment explanation
Indices: 38223694--38223719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38223684 TGAGGTAGCA
38223694 TGTAGCTACATTT
1 TGTAGCTACATTT
38223707 TGTAGCTACATTT
1 TGTAGCTACATTT
38223720 GATGCACTAT
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:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TGTAGCTACATTT
Found at i:38229031 original size:12 final size:12
Alignment explanation
Indices: 38229014--38229051 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
38229004 CATCTACTCT
*
38229014 TCCTAAAGTCAC
1 TCCTAAAATCAC
38229026 TCCTAAAATCAC
1 TCCTAAAATCAC
*
38229038 TCCTAAGATCAC
1 TCCTAAAATCAC
38229050 TC
1 TC
38229052 AACCAAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.26
Consensus pattern (12 bp):
TCCTAAAATCAC
Found at i:38230893 original size:37 final size:37
Alignment explanation
Indices: 38230841--38230985 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
38230831 GCTCAGACGA
*
38230841 AATCTCCACACGTAGTTATCGGGTCTCACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTCACCCGGACAT
* * * *
38230878 ACTCTCCATACGTAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTCACCCGGACAT
* * *
38230915 AATCTCCACACATAGTCACCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTCACCCGGACAT
38230952 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
38230986 ATATATTTCC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTCACCCGGACAT
Found at i:38231106 original size:48 final size:48
Alignment explanation
Indices: 38231030--38231253 Score: 358
Period size: 48 Copynumber: 4.7 Consensus size: 48
38231020 TGTTACAACA
* *
38231030 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATAT
* *
38231078 TTCACATTAGCCATTCGGCTTTATCACATATACACATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATAT
* * *
38231126 TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATAT
* *
38231174 TTCACATTAGCCATTCGGCTTTATCACATATACACATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATAT
*
38231222 TTCACATTGGCCATTCGGCTTTATCACATATA
1 TTCACATTAGCCATTCGGCTTTATCACATATA
38231254 TGCATGTTCA
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 161 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATAT
Found at i:38231194 original size:96 final size:96
Alignment explanation
Indices: 38231030--38231253 Score: 430
Period size: 96 Copynumber: 2.3 Consensus size: 96
38231020 TGTTACAACA
*
38231030 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
38231095 GCTTTATCACATATACACATCTCATATATAT
66 GCTTTATCACATATACACATCTCATATATAT
38231126 TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
38231191 GCTTTATCACATATACACATCTCATATATAT
66 GCTTTATCACATATACACATCTCATATATAT
*
38231222 TTCACATTGGCCATTCGGCTTTATCACATATA
1 TTCACATTGGCCATTCGGCTTTACCACATATA
38231254 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 126 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (96 bp):
TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
GCTTTATCACATATACACATCTCATATATAT
Found at i:38231293 original size:47 final size:47
Alignment explanation
Indices: 38231079--38231369 Score: 236
Period size: 48 Copynumber: 6.1 Consensus size: 47
38231069 CACATATATT
* * ** *
38231079 TCACATTAGCCATTCGGCTTTATCACATATACACAT-CTCATATAT-A
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT-TCA
* * * *
38231125 TTTCACATTGGCCATTCGGCTTTACCACATATA--CATATCACACATAT-A
1 --TCACATTGGCCATTCGGCCTTATCACATATATGCAT-GCTCACAT-TCA
* * ** *
38231173 TTTCACATTAGCCATTCGGCTTTATCACATATACACAT-CTCATATAT-A
1 --TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT-TCA
* * *
38231221 TTTCACATTGGCCATTCGGCTTTATCACATATATGCATGTTCATATTCA
1 --TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
38231270 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* ***
38231317 TCACATTGGCCATTCGGCCTCATCACATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
38231364 TCACAT
1 TCACAT
38231370 AAAATCCTAA
Statistics
Matches: 214, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.01
47 89 0.42
48 112 0.52
49 7 0.03
50 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:38231313 original size:144 final size:142
Alignment explanation
Indices: 38231028--38231347 Score: 398
Period size: 144 Copynumber: 2.2 Consensus size: 142
38231018 TGTGTTACAA
* *
38231028 CATTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATT
1 CATTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATATTTCACATTAGCCATT
* *
38231093 CGGCTTTATCACATATACACATCTCATATATATTTCACATTGGCCATTCGGCTTTACCACATATA
66 CGGCTTTATCACATATACACATCTCATATATA-TCCACATTGGCCATTCGGCCTTACCACATATA
*
38231158 CATATCACACATAT
130 CATAGCACACAT-T
* * *
38231172 -ATTTCACATTAGCCATTCGGCTTTATCACATATACACATCTCATATATATTTCACATTGGCCAT
1 CA-TTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATATTTCACATTAGCCAT
** *
38231236 TCGGCTTTATCACATATATGCATGTTCATAT-TCA-CCACATTGGCCATTCGGCCTTATCACACA
65 TCGGCTTTATCACATATACACAT-CTCATATAT-ATCCACATTGGCCATTCGGCCTTA-C-CACA
* *
38231299 TATGCAT-GCTCACATT
126 TATACATAGCACACATT
* * *
38231315 CA-TCACATTGGCCATTCGGCCTCATCACATATA
1 CATTCACATTAGCCATTCGGCTTTATCACATATA
38231348 TGCACATTCA
Statistics
Matches: 154, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
142 28 0.18
143 22 0.14
144 87 0.56
145 17 0.11
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (142 bp):
CATTCACATTAGCCATTCGGCTTTATCACATATACACATCACACATATATTTCACATTAGCCATT
CGGCTTTATCACATATACACATCTCATATATATCCACATTGGCCATTCGGCCTTACCACATATAC
ATAGCACACATT
Found at i:38235277 original size:26 final size:26
Alignment explanation
Indices: 38235247--38235297 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
38235237 TACAGACAGA
*
38235247 TGCTTAACCAATGAACCAGTAGGCTT
1 TGCTTAACCAATGAACCAGCAGGCTT
* *
38235273 TGCTTAACTAGTGAACCAGCAGGCT
1 TGCTTAACCAATGAACCAGCAGGCT
38235298 CATTCTTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (26 bp):
TGCTTAACCAATGAACCAGCAGGCTT
Found at i:38237254 original size:6 final size:6
Alignment explanation
Indices: 38237245--38237337 Score: 75
Period size: 6 Copynumber: 15.2 Consensus size: 6
38237235 ACTTACAGTT
* *
38237245 TCAGTA TCAGAA -CTAGAA TCAGAA TCAGAA TCAGAA TCAG-G TGACAGAA
1 TCAGAA TCAGAA TC-AGAA TCAGAA TCAGAA TCAGAA TCAGAA T--CAGAA
* * *
38237294 TCAGAA TCATAA TCAGTA TCAGGTAA -CAGAA TCAAAA TCAGAA T
1 TCAGAA TCAGAA TCAGAA TCA-G-AA TCAGAA TCAGAA TCAGAA T
38237338 GTGAATACAA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.06
6 57 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.20
Consensus pattern (6 bp):
TCAGAA
Found at i:38237294 original size:31 final size:31
Alignment explanation
Indices: 38237259--38237337 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
38237249 TATCAGAACT
*
38237259 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
38237290 AGAATCAGAATCATAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
38237321 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
38237338 GTGAATACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:38237533 original size:27 final size:27
Alignment explanation
Indices: 38237452--38237533 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
38237442 AGCATTACTG
* * *
38237452 CCAGAA-CAGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAAAGCCA
38237478 CCAG-ATACAGATATTTGTGGCATAA-CCA
1 CCAGAAT-CAGATA-TTGTGGCA-AAGCCA
*
38237506 CCAGAATCAGATACTGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGGCAAAGCCA
38237533 C
1 C
38237534 TTAATAGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.02
26 6 0.13
27 17 0.37
28 19 0.41
29 3 0.07
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAAAGCCA
Found at i:38238145 original size:27 final size:27
Alignment explanation
Indices: 38238127--38238420 Score: 417
Period size: 27 Copynumber: 10.9 Consensus size: 27
38238117 GTATCTTGGC
*
38238127 AATTCTACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * * * *
38238154 ATTTCTACCATACAAGGGCATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
38238181 AATTCTACCCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
38238208 AATTCTACCCTACAGGTGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
38238235 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
38238262 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
38238289 AATTCTACCTTACAAGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * **
38238316 AATTCTACCTTATAGGGGGGTTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
38238343 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
38238370 AATTCTACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
38238397 AATTCTACCTTACAGGGGTATTTC
1 AATTCTACCCTACAGGGGTATTTC
38238421 GATAATTTTG
Statistics
Matches: 235, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 235 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:38238496 original size:27 final size:27
Alignment explanation
Indices: 38238466--38238776 Score: 344
Period size: 27 Copynumber: 11.6 Consensus size: 27
38238456 TGTAAATCGG
* **
38238466 GGGTACTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* ***
38238493 GGGT-TTTTAGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * **
38238519 GGGTATTTTAGTAATTTTGCAAACTGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * * *
38238546 -GGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
38238572 GGGTATTTTGGCAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
38238599 -GGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
38238625 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*
38238652 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
38238679 GGGTATTTTGGTAATTTTACAAATCC-A
1 GGGTATTTTGGTAATTTTACAAA-CCAA
**
38238706 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
38238733 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAACCAA
38238759 GAGGTATTTTGGTAATTT
1 G-GGTATTTTGGTAATTT
38238777 GGTAAACTAA
Statistics
Matches: 242, Mismatches: 36, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
26 65 0.27
27 175 0.72
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:38238782 original size:54 final size:54
Alignment explanation
Indices: 38238448--38238783 Score: 349
Period size: 53 Copynumber: 6.3 Consensus size: 54
38238438 AGGGTAAAAC
* * ** * * *
38238448 GGTAATTCTGTAAATCGGGGGTACTTTGGTAATTTTACAAGTCAAG-GGT-TTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAA-ACTAGAGGTATTTT
* ** *** * * *
38238501 AGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGCAAACT-GAGGTATTTC
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTT
* *** * * *
38238554 GATAATTTCACAAATCAGGGGTATTTTGGCAATTTTACAAACTA-AGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTT
* *
38238607 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTT
** * *
38238661 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCCAG-GGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA-CTAGAGGTATTTT
38238715 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTT
*
38238769 GGTAATTTGGTAAAC
1 GGTAATTTTGTAAAC
38238784 TAAAGTATTC
Statistics
Matches: 238, Mismatches: 39, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
51 1 0.00
52 4 0.02
53 115 0.48
54 114 0.48
55 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTT
Found at i:38242958 original size:40 final size:40
Alignment explanation
Indices: 38242898--38243059 Score: 263
Period size: 40 Copynumber: 4.1 Consensus size: 40
38242888 CGGATGTAAC
* *
38242898 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
38242938 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTAT-AT
1 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
* * *
38242977 AGCCTGCACGAATACCTTCGGGATTTAACCCGGTTATAAT
1 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
*
38243017 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
38243057 AAC
1 AAC
38243060 TAGCACAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 36 0.32
40 76 0.68
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATACCTTCGGGACTTAACCCGGTTATAAT
Found at i:38243035 original size:79 final size:79
Alignment explanation
Indices: 38242903--38243054 Score: 277
Period size: 79 Copynumber: 1.9 Consensus size: 79
38242893 GTAACAACCA
*
38242903 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATACCTTCGGGACTTAACC
1 GCACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATACCTTCGGGACTTAACC
38242968 CGGTTATATAGCCT
66 CGGTTATATAGCCT
* *
38242982 GCACGAATACCTTCGGGATTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACC
1 GCACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATACCTTCGGGACTTAACC
38243047 CGGTTATA
66 CGGTTATA
38243055 ATAACTAGCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
GCACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGCACGAATACCTTCGGGACTTAACC
CGGTTATATAGCCT
Found at i:38243076 original size:40 final size:40
Alignment explanation
Indices: 38242902--38243117 Score: 242
Period size: 40 Copynumber: 5.4 Consensus size: 40
38242892 TGTAACAACC
*
38242902 AGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACC
1 AGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACT
* * *
38242942 CGCACGAATACCTTCGGGACTTAACCCGGTTAT-ATAGCCT
1 AGCACGAATGCCTTCGGGACTTAACCCGGTTATAATA-ACT
* * *
38242982 -GCACGAATACCTTCGGGATTTAACCCGGTTATAATAACC
1 AGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACT
*
38243021 CGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACT
1 AGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACT
* ** * * *
38243061 AGCAC-AATTGGCTTC-GGATCTTAGTCTGGATATAGTAACT
1 AGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAATAACT
*
38243101 AGCACAAATGCCTTCGG
1 AGCACGAATGCCTTCGG
38243118 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 40 0.26
40 108 0.72
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
AGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACT
Found at i:38243118 original size:40 final size:40
Alignment explanation
Indices: 38243006--38243133 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
38242996 GGGATTTAAC
* ** * **
38243006 CCGGTTATAATAACCCGCACGAATGCCTTCGGGA-CTTAAC
1 CCGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGT
* * *
38243046 CCGGTTATAATAACTAGCACAATTGGCTTCGGATCTTAGT
1 CCGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGT
* *
38243086 CTGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGT
38243126 CCGGATAT
1 CCGGATAT
38243134 CATCTGAATA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.04
40 71 0.96
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGT
Found at i:38251196 original size:39 final size:40
Alignment explanation
Indices: 38251077--38251231 Score: 258
Period size: 40 Copynumber: 3.9 Consensus size: 40
38251067 AACAACCAGT
* *
38251077 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCAC
1 ACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGC
*
38251117 AAGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGC
1 ACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGC
*
38251157 ACGAATACCTTCGGGATTTAACCC-GTTATAATAACCCGC
1 ACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGC
*
38251196 ACGAATGCCTTCGGGACTTAACCCGGTTATAATAAC
1 ACGAATACCTTCGGGACTTAACCCGGTTATAATAAC
38251232 TAGCACAATT
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 37 0.35
40 70 0.65
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (40 bp):
ACGAATACCTTCGGGACTTAACCCGGTTATAATAACCCGC
Found at i:38251245 original size:40 final size:40
Alignment explanation
Indices: 38251070--38251288 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
38251060 CGGATGTAAC
*
38251070 AACCAGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
38251110 AACCCA-CAAGAATACCTTCGGGACTTAACCCGGTTATAAT
1 AA-CCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
38251150 AACCCGCACGAATACCTTCGGGATTTAACCC-GTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
38251189 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
38251229 AACTAGCAC-AATTGCCTTC--GATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
38251268 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
38251289 ATCTTAGTCT
Statistics
Matches: 157, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 70 0.45
40 82 0.52
41 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:38251247 original size:79 final size:80
Alignment explanation
Indices: 38251070--38251248 Score: 263
Period size: 79 Copynumber: 2.2 Consensus size: 80
38251060 CGGATGTAAC
*
38251070 AACCAGTACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCACAAGAATACCTTCGGGACT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCACAAGAATACCTTCGGGACT
38251135 TAACCCGGTTATAAT
66 TAACCCGGTTATAAT
* * * * * *
38251150 AACCCGCACGAATACCTTCGGGATTTAACCC-GTTATAATAACCCGCACGAATGCCTTCGGGACT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCACAAGAATACCTTCGGGACT
38251214 TAACCCGGTTATAAT
66 TAACCCGGTTATAAT
*
38251229 AACTAGCAC-AATTGCCTTCG
1 AACCAGCACGAA-TGCCTTCG
38251249 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 2 0.02
79 59 0.67
80 27 0.31
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (80 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCACAAGAATACCTTCGGGACT
TAACCCGGTTATAAT
Found at i:38251274 original size:39 final size:40
Alignment explanation
Indices: 38251183--38251304 Score: 140
Period size: 40 Copynumber: 3.1 Consensus size: 40
38251173 TTTAACCCGT
** * ** *
38251183 TATAATAACCCGCACGAATGCCTTCGGGA-CTTAACCCGGT
1 TATAATAACTAGCACAAATGCCTTC-GGATCTTAGTCCGGA
*
38251223 TATAATAACTAGCACAATTGCCTTC-GATCTTAGTCCGGA
1 TATAATAACTAGCACAAATGCCTTCGGATCTTAGTCCGGA
* *
38251262 TATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCTGGA
1 TATAATAACTAGCACAAATGCCTTCGGATCTTAGTCCGGA
38251302 TAT
1 TAT
38251305 CATCCGAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 31 0.44
40 37 0.53
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (40 bp):
TATAATAACTAGCACAAATGCCTTCGGATCTTAGTCCGGA
Found at i:38251282 original size:79 final size:78
Alignment explanation
Indices: 38251070--38251288 Score: 203
Period size: 79 Copynumber: 2.8 Consensus size: 78
38251060 CGGATGTAAC
* * * * *
38251070 AACCAGTACGAATGCCTTCGGGACTTAACCCGGTTATAATAACC--CACAAGAATACCTTCGGGA
1 AACCAGCACGAATACCTTC-GGATTTAACCC-GATATAATAACCAGCAC-A-AATGCCTTCGGGA
38251133 CTTAACCCGGTTATAAT
62 CTTAACCCGGTTATAAT
* * * *
38251150 AACCCGCACGAATACCTTCGGGATTTAACCCGTTATAATAACCCGCACGAATGCCTTCGGGACTT
1 AACCAGCACGAATACCTTC-GGATTTAACCCGATATAATAACCAGCACAAATGCCTTCGGGACTT
38251215 AACCCGGTTATAAT
65 AACCCGGTTATAAT
* * * * * *
38251229 AACTAGCAC-AATTGCCTTC-GATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCGG
1 AACCAGCACGAA-TACCTTCGGAT-TTA-ACCCGATATAATAACCAGCACAAATGCCTTCGG
38251289 ATCTTAGTCT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
77 3 0.03
78 5 0.04
79 80 0.68
80 27 0.23
81 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (78 bp):
AACCAGCACGAATACCTTCGGATTTAACCCGATATAATAACCAGCACAAATGCCTTCGGGACTTA
ACCCGGTTATAAT
Found at i:38258777 original size:40 final size:40
Alignment explanation
Indices: 38258722--38258931 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
38258712 AACATTGGAA
38258722 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
38258762 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
38258802 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
38258842 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
38258881 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
38258922 CTATATCCGG
1 ATATATCCGG
38258932 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:38263452 original size:29 final size:29
Alignment explanation
Indices: 38263420--38263522 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
38263410 GTGACGAGAT
* *
38263420 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* *
38263449 TGGCACTAAGTGTGCGAGCTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
38263478 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
38263507 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38263523 CGGTCGAGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.03
29 61 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:38271388 original size:29 final size:29
Alignment explanation
Indices: 38271356--38271458 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
38271346 GTGACGAGAT
* *
38271356 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* *
38271385 TGGCACTAAGTGTGCGAGCTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
38271414 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
38271443 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38271459 CGGTCGAGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.03
29 61 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:38275811 original size:2 final size:2
Alignment explanation
Indices: 38275804--38275834 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38275794 GCTTCGCCAC
38275804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38275835 GCTGTTCTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38278563 original size:13 final size:13
Alignment explanation
Indices: 38278545--38278576 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38278535 TTACCAAAGG
*
38278545 GACACGGCCATTT
1 GACACGGCCATGT
38278558 GACACGGCCATGT
1 GACACGGCCATGT
38278571 GACACG
1 GACACG
38278577 CCCGTGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.31, G:0.28, T:0.16
Consensus pattern (13 bp):
GACACGGCCATGT
Found at i:38281792 original size:40 final size:39
Alignment explanation
Indices: 38281627--38281810 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
38281617 AAATTGAATG
* * *
38281627 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
38281667 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
38281707 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
38281747 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
38281786 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
38281811 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:38281835 original size:80 final size:81
Alignment explanation
Indices: 38281667--38281855 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
38281657 GCTGGAAATT
* * * *
38281667 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
38281732 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
38281748 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
38281811 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
38281827 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
38281856 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:38289907 original size:40 final size:39
Alignment explanation
Indices: 38289742--38289925 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
38289732 AAATTGAATG
* * *
38289742 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
38289782 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
38289822 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
38289862 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
38289901 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
38289926 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:38289950 original size:80 final size:81
Alignment explanation
Indices: 38289782--38289970 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
38289772 GCTGGAAATT
* * * *
38289782 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
38289847 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
38289863 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
38289926 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
38289942 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
38289971 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:38302507 original size:14 final size:14
Alignment explanation
Indices: 38302488--38302516 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38302478 TCAACCAATT
38302488 GAATGCTCATCCTA
1 GAATGCTCATCCTA
38302502 GAATGCTCATCCTA
1 GAATGCTCATCCTA
38302516 G
1 G
38302517 TTTGTTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (14 bp):
GAATGCTCATCCTA
Found at i:38306035 original size:21 final size:21
Alignment explanation
Indices: 38306009--38306059 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
38305999 CATTCATTTC
* *
38306009 TCGGAATGACCGCTGAACCGT
1 TCGGAATCACCACTGAACCGT
* *
38306030 TCGGAATCCCCATTGAACCGT
1 TCGGAATCACCACTGAACCGT
38306051 TCGGAATCA
1 TCGGAATCA
38306060 TAAGGATACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (21 bp):
TCGGAATCACCACTGAACCGT
Found at i:38306162 original size:43 final size:42
Alignment explanation
Indices: 38306094--38306211 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
38306084 AGCTCGTACA
38306094 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATA-CG
* * ***
38306137 ATGCCACTGTCCCAGACAG-GATCTTACACAAAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATACG
*
38306179 ATGCCAATGTCCCTGACGTGGTCTTACATGTAA
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAA
38306212 AACATAAGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 33 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATACG
Found at i:38308466 original size:15 final size:14
Alignment explanation
Indices: 38308438--38308464 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38308428 CATGATCATC
38308438 TGAAGAAAAAAAAT
1 TGAAGAAAAAAAAT
38308452 TGAAGAAAAAAAA
1 TGAAGAAAAAAAA
38308465 ATGATAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (14 bp):
TGAAGAAAAAAAAT
Found at i:38308904 original size:41 final size:43
Alignment explanation
Indices: 38308812--38308925 Score: 178
Period size: 41 Copynumber: 2.7 Consensus size: 43
38308802 AAAAAATGTC
* *
38308812 GCTAAAGAACATGACCTTTAGTGGCGCTTTCACCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTCACCACAAACGCA
*
38308855 GCTAAAGAACATGACCTTTAGCGACGCTTTCA-C-CAAACGCA
1 GCTAAAGAACATGACCTTTAGCGGCGCTTTCACCACAAACGCA
*
38308896 GCTAAAGAACATGTCCTTTAGCGGCGCTTT
1 GCTAAAGAACATGACCTTTAGCGGCGCTTT
38308926 TTGTCACAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 35 0.53
42 1 0.02
43 30 0.45
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGCGCTTTCACCACAAACGCA
Found at i:38311108 original size:38 final size:38
Alignment explanation
Indices: 38311017--38311166 Score: 158
Period size: 38 Copynumber: 3.9 Consensus size: 38
38311007 CGAGGTATAA
* * * * *
38311017 AACCCAAACATAACACCAGCACGAAGCCTACGAGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * * *
38311056 AAACTCAGATATAATACCAGCACTAGGCCTTCGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
38311095 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
* *
38311133 AACCCAGATATAATTCCAGCA-TATAGCCTGCGGG
1 AACCCAGATATAATACCAGCACGA-AGCCTGCGGG
38311167 TCTTTAAGCC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 62 0.67
39 3 0.03
40 27 0.29
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:38311179 original size:78 final size:78
Alignment explanation
Indices: 38311026--38311182 Score: 194
Period size: 78 Copynumber: 2.0 Consensus size: 78
38311016 AAACCCAAAC
* * *
38311026 ATAACACCAGCACGAAGCCTACGAGACTTTAAACTCAGATATAATACCAGCACTAGGCCTTCGGG
1 ATAACACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACTAAGCCTGCGGG
38311091 ATTTAACCCGGAT
66 ATTTAACCCGGAT
* * * *
38311104 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCAGATATAATTCCAGCA-TATAGCCTGCGG
1 ATAACACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACTA-AGCCTGCGG
*
38311166 GTCTTTAAGCCCGGAT
65 G-ATTTAA-CCCGGAT
38311182 A
1 A
38311183 CACATCAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.03
76 27 0.40
77 8 0.12
78 31 0.46
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (78 bp):
ATAACACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACTAAGCCTGCGGG
ATTTAACCCGGAT
Found at i:38315358 original size:12 final size:12
Alignment explanation
Indices: 38315343--38315368 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38315333 ATCATCCTCT
38315343 TCATCAGATTCA
1 TCATCAGATTCA
38315355 TCATCAGATTCA
1 TCATCAGATTCA
38315367 TC
1 TC
38315369 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:38320120 original size:9 final size:9
Alignment explanation
Indices: 38320106--38320280 Score: 148
Period size: 9 Copynumber: 19.6 Consensus size: 9
38320096 TATTTATGTA
38320106 TTATGTAAG
1 TTATGTAAG
*
38320115 TTATGTGAG
1 TTATGTAAG
*
38320124 TTATGTGA-
1 TTATGTAAG
*
38320132 TGTATGTGAG
1 T-TATGTAAG
38320142 TTATGTAAG
1 TTATGTAAG
38320151 TTATGTAAG
1 TTATGTAAG
*
38320160 TTATGTGAG
1 TTATGTAAG
38320169 TTATGTAAG
1 TTATGTAAG
*
38320178 TTATGATATG
1 TTATG-TAAG
* *
38320188 ATACATATAAG
1 -T-TATGTAAG
38320199 TTAT-TAAG
1 TTATGTAAG
38320207 TTATGTAAG
1 TTATGTAAG
* *
38320216 TTGTGTGAG
1 TTATGTAAG
*
38320225 TTATGTGAG
1 TTATGTAAG
38320234 TTATG--A-
1 TTATGTAAG
38320240 -TATGATATA-
1 TTATG-TA-AG
38320249 TTATGTAAG
1 TTATGTAAG
*
38320258 TTATGTAAA
1 TTATGTAAG
38320267 TTATGTAAG
1 TTATGTAAG
38320276 TTATG
1 TTATG
38320281 AAATTTAAAC
Statistics
Matches: 140, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
5 4 0.03
7 1 0.01
8 10 0.07
9 110 0.79
10 9 0.06
11 4 0.03
12 2 0.01
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:38320223 original size:56 final size:59
Alignment explanation
Indices: 38320140--38320280 Score: 216
Period size: 56 Copynumber: 2.4 Consensus size: 59
38320130 GATGTATGTG
38320140 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATACA-TA-TA
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATACATTAGTA
* * *
38320197 AGTTAT-TAAGTTATGTAAGTTGTGTGAGTTATGTGAGTTATGATATGATATATTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATACATTA-GTA
*
38320256 AGTTATGTAAATTATGTAAGTTATG
1 AGTTATGTAAGTTATGTAAGTTATG
38320281 AAATTTAAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
56 43 0.57
57 8 0.11
59 8 0.11
60 16 0.21
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (59 bp):
AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATACATTAGTA
Found at i:38321066 original size:24 final size:24
Alignment explanation
Indices: 38321034--38321086 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
38321024 AGTGTTTTAT
38321034 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
38321058 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
38321082 AATAT
1 AATAT
38321087 TATAACATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:38323169 original size:122 final size:123
Alignment explanation
Indices: 38322974--38323196 Score: 324
Period size: 122 Copynumber: 1.8 Consensus size: 123
38322964 CTATTGCGGT
* * *
38322974 GTTTATAACCTAGTGCCACTAATTTCACTACCTCGCCACTTAAAACGACGCTGTTTTCATTCAAT
1 GTTTATAACCTAGCGCCACTAATTCCACTACCCCGCCACTTAAAACGACGCTGTTTTCATTCAAT
38323039 TTCTCATATTTTTAGCAGC-ATTTTTAATAAGCGCCGCTAATACTGATATATTGTAGC
66 TTCTCATATTTTTAGCAGCGATTTTTAATAAGCGCCGCTAATACTGATATATTGTAGC
* * * *
38323096 GTTTATGACCTAGCGCCGCTAATTCCACTACCCCGCCACTTAAAACGATG-TCGTTTTCATTTAA
1 GTTTATAACCTAGCGCCACTAATTCCACTACCCCGCCACTTAAAACGACGCT-GTTTTCATTCAA
* * * *
38323160 TTTCTCATATTTTTTGCGGCGTTTTTTACTAAGCGCC
65 TTTCTCATATTTTTAGCAGCGATTTTTAATAAGCGCC
38323197 ACAAAGTCCA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 1 0.01
122 73 0.83
123 14 0.16
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (123 bp):
GTTTATAACCTAGCGCCACTAATTCCACTACCCCGCCACTTAAAACGACGCTGTTTTCATTCAAT
TTCTCATATTTTTAGCAGCGATTTTTAATAAGCGCCGCTAATACTGATATATTGTAGC
Found at i:38323235 original size:84 final size:84
Alignment explanation
Indices: 38323119--38323280 Score: 227
Period size: 84 Copynumber: 1.9 Consensus size: 84
38323109 CGCCGCTAAT
* * * * *
38323119 TCCACTACCCCGCCACTTAAAACGATGTCGTTTTCATTTAATTTCTCATATTTTTTGCGGCGTTT
1 TCCACTACCCCGCCACTTAAAACGACGGCGTTTTCATTCAATTTCCCATATTTTTAGCGGCGTTT
38323184 TTTACTAA-GCGCCACAAAG
66 TTTAC-AATGCGCCACAAAG
* * * *
38323203 TCCACTACCGCGCCACTTCAAACGACGGCGTTTTTATTCAATTTCCCATATTTTTAGTGGCGTTT
1 TCCACTACCCCGCCACTTAAAACGACGGCGTTTTCATTCAATTTCCCATATTTTTAGCGGCGTTT
38323268 TTTACAATGCGCC
66 TTTACAATGCGCC
38323281 GCTAATACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.03
84 66 0.97
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (84 bp):
TCCACTACCCCGCCACTTAAAACGACGGCGTTTTCATTCAATTTCCCATATTTTTAGCGGCGTTT
TTTACAATGCGCCACAAAG
Found at i:38323403 original size:7 final size:7
Alignment explanation
Indices: 38323391--38323470 Score: 54
Period size: 7 Copynumber: 11.4 Consensus size: 7
38323381 TTTTTATAGA
38323391 CTAAACC
1 CTAAACC
38323398 CTAAACC
1 CTAAACC
* **
38323405 CTATAGA
1 CTAAACC
38323412 CTAAACC
1 CTAAACC
*
38323419 TTAAACC
1 CTAAACC
38323426 C-AATACC
1 CTAA-ACC
*
38323433 ATAAACC
1 CTAAACC
*
38323440 CTAAAGC
1 CTAAACC
* * **
38323447 TTATAGA
1 CTAAACC
38323454 CTAAACC
1 CTAAACC
38323461 CTAAACC
1 CTAAACC
38323468 CTA
1 CTA
38323471 TAGACTAAGT
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
6 2 0.04
7 49 0.92
8 2 0.04
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:38323411 original size:21 final size:21
Alignment explanation
Indices: 38323385--38323478 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
38323375 CACAAATTTT
38323385 TATAGACTAAACCCTAAACCC
1 TATAGACTAAACCCTAAACCC
*
38323406 TATAGACTAAACCTTAAACCC
1 TATAGACTAAACCCTAAACCC
* * * *
38323427 AATA-CCATAAACCCTAAAGCT
1 TATAGAC-TAAACCCTAAACCC
38323448 TATAGACTAAACCCTAAACCC
1 TATAGACTAAACCCTAAACCC
38323469 TATAGACTAA
1 TATAGACTAA
38323479 GTCTTACACC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.21
Consensus pattern (21 bp):
TATAGACTAAACCCTAAACCC
Found at i:38323712 original size:21 final size:21
Alignment explanation
Indices: 38323680--38323720 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
38323670 CAAACAATTT
38323680 AAAAAACTAAACCCTAAACCC
1 AAAAAACTAAACCCTAAACCC
38323701 AAAATAAC-AAACCCTAAACC
1 AAAA-AACTAAACCCTAAACC
38323721 ATAAACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.10
Consensus pattern (21 bp):
AAAAAACTAAACCCTAAACCC
Found at i:38323982 original size:14 final size:15
Alignment explanation
Indices: 38323963--38323997 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
38323953 GGCTTATGTT
38323963 TTTAGAATTT-AGGG
1 TTTAGAATTTAAGGG
38323977 TTTAGAATTTAAGGG
1 TTTAGAATTTAAGGG
38323992 TTTAGA
1 TTTAGA
38323998 GAAAACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (15 bp):
TTTAGAATTTAAGGG
Found at i:38324375 original size:41 final size:40
Alignment explanation
Indices: 38324323--38324515 Score: 197
Period size: 41 Copynumber: 4.7 Consensus size: 40
38324313 TTTTTACGGT
* *
38324323 GTTTGTAACAAAAATGCCGCTATTGCTTAGTTTTTTAGTGGC
1 GTTTG-AACAAAAACGCCGCTATTGCTCAG-TTTTTAGTGGC
* * * ** *
38324365 GTTTGGACAAAAACGCTGCTATTTCTTTGTTTTTAGCGGC
1 GTTTGAACAAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
* **
38324405 GTTTAAACAAAAAACGCCGCTAAAGCTCAGTTTTTAGTGGC
1 GTTTGAAC-AAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
* * **
38324446 GTTTGGACTAGAAACGCCGCTATTGCTCAGTTTTTAGTAAC
1 GTTTGAAC-AAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
*
38324487 GTTTGAAACAAAAACGACGCTATTGCTCA
1 GTTTG-AACAAAAACGCCGCTATTGCTCA
38324516 AATTTTTTGT
Statistics
Matches: 123, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
40 16 0.13
41 100 0.81
42 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (40 bp):
GTTTGAACAAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
Found at i:38324418 original size:82 final size:82
Alignment explanation
Indices: 38324323--38324515 Score: 228
Period size: 82 Copynumber: 2.4 Consensus size: 82
38324313 TTTTTACGGT
* * * *
38324323 GTTTGTAACAAAAATGCCGCTATTGCTTAGTTTTTTAGTGGCGTTTGGAC-AAAAACGCTGCTAT
1 GTTTGAAACAAAAACGCCGCTATTGCTCAG-TTTTTAGTGGCGTTTGGACTAAAAACGCCGCTAT
* ** **
38324387 TTCTTTGTTTTTAGCGGC
65 TGCTCAGTTTTTAGCAAC
** *
38324405 GTTT-AAACAAAAAACGCCGCTAAAGCTCAGTTTTTAGTGGCGTTTGGACTAGAAACGCCGCTAT
1 GTTTGAAAC-AAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTGGACTAAAAACGCCGCTAT
*
38324469 TGCTCAGTTTTTAGTAAC
65 TGCTCAGTTTTTAGCAAC
*
38324487 GTTTGAAACAAAAACGACGCTATTGCTCA
1 GTTTGAAACAAAAACGCCGCTATTGCTCA
38324516 AATTTTTTGT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 22 0.24
82 66 0.72
83 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (82 bp):
GTTTGAAACAAAAACGCCGCTATTGCTCAGTTTTTAGTGGCGTTTGGACTAAAAACGCCGCTATT
GCTCAGTTTTTAGCAAC
Found at i:38326226 original size:26 final size:26
Alignment explanation
Indices: 38326196--38326247 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38326186 TTCTACAGAA
38326196 TTAGGCGTCTGTTTTTAAGCCTTAGG
1 TTAGGCGTCTGTTTTTAAGCCTTAGG
38326222 TTAGGCGTCTGTTTTTAAGCCTTAGG
1 TTAGGCGTCTGTTTTTAAGCCTTAGG
38326248 AAATTACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (26 bp):
TTAGGCGTCTGTTTTTAAGCCTTAGG
Found at i:38326872 original size:3 final size:3
Alignment explanation
Indices: 38326852--38326904 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
38326842 TCCTCAAGAC
* *
38326852 CAT CAC CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
38326900 CAT CA
1 CAT CA
38326905 CTTGATAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (3 bp):
CAT
Found at i:38329463 original size:12 final size:12
Alignment explanation
Indices: 38329448--38329472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38329438 TTAATTGTGT
38329448 ATTTAAAAATTA
1 ATTTAAAAATTA
38329460 ATTTAAAAATTA
1 ATTTAAAAATTA
38329472 A
1 A
38329473 AAATATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTAAAAATTA
Found at i:38333541 original size:86 final size:86
Alignment explanation
Indices: 38333396--38333568 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
38333386 TGGGGAATAA
38333396 CTCAACCCACCCAACCAAAACTCTCCACTGGCAGCATAGCTGCTTTATCATATAACTGGAGGCCT
1 CTCAACCCACCCAACCAAAACTCTCCACTGGCAGCATAGCTGCTTTATCATATAACTGGAGGCCT
38333461 AGCCTATTTTAATAACTGGGG
66 AGCCTATTTTAATAACTGGGG
38333482 CTCAACCCACCCAACCAAAACTCTCCACTGGCAGCATAGCTGCTTTATCATATAACTGGAGGCCT
1 CTCAACCCACCCAACCAAAACTCTCCACTGGCAGCATAGCTGCTTTATCATATAACTGGAGGCCT
38333547 AGCCTATTTTAATAACTGGGG
66 AGCCTATTTTAATAACTGGGG
38333568 C
1 C
38333569 AAAGCCTTTT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (86 bp):
CTCAACCCACCCAACCAAAACTCTCCACTGGCAGCATAGCTGCTTTATCATATAACTGGAGGCCT
AGCCTATTTTAATAACTGGGG
Found at i:38333587 original size:24 final size:24
Alignment explanation
Indices: 38333547--38333619 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 24
38333537 CTGGAGGCCT
*
38333547 AGCCTATTTTAAT-AACTGGGGCAA
1 AGCCT-TTTTGATAAACTGGGGCAA
38333571 AGCCTTTTTGATAAACTGGGGCAAA
1 AGCCTTTTTGATAAACTGGGGC-AA
* *
38333596 AGCCCTTTTCGGTAAACTGGGGCA
1 AG-CCTTTTTGATAAACTGGGGCA
38333620 CCCAACCCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.14
24 14 0.33
25 5 0.12
26 18 0.42
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (24 bp):
AGCCTTTTTGATAAACTGGGGCAA
Found at i:38333611 original size:26 final size:25
Alignment explanation
Indices: 38333560--38333619 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
38333550 CTATTTTAAT
*
38333560 AACTGGGGC-AAAGCCTTTTTGATA
1 AACTGGGGCAAAAGCCTTTTCGATA
*
38333584 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAG-CCTTTTCGATA
38333610 AACTGGGGCA
1 AACTGGGGCA
38333620 CCCAACCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 9 0.28
25 4 0.12
26 19 0.59
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCTTTTCGATA
Found at i:38333667 original size:9 final size:9
Alignment explanation
Indices: 38333653--38333729 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
38333643 ACATCATGTG
38333653 CATATCATA
1 CATATCATA
*
38333662 CATATCATGTG
1 CATATCA--TA
*
38333673 CATATCGTA
1 CATATCATA
*
38333682 CATATCATGTG
1 CATATCA--TA
38333693 CATATCATA
1 CATATCATA
*
38333702 CATATCATGTG
1 CATATCA--TA
38333713 CATATCATA
1 CATATCATA
38333722 CATATCAT
1 CATATCAT
38333730 GTATATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Done.