Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 241 of 279
Found at i:78360209 original size:30 final size:29
Alignment explanation
Indices: 78360170--78360230 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
78360160 GTAGCCGAAG
78360170 CTAGTTAAATCACACACTTAGTGCCAAAA
1 CTAGTTAAATCACACACTTAGTGCCAAAA
*
78360199 CTAGTTTAAATCGCACACTTAGTGCCAAAA
1 CTAG-TTAAATCACACACTTAGTGCCAAAA
78360229 CT
1 CT
78360231 TCCGTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (29 bp):
CTAGTTAAATCACACACTTAGTGCCAAAA
Found at i:78365749 original size:40 final size:39
Alignment explanation
Indices: 78365680--78365816 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 39
78365670 CCAGTTTGGT
* *
78365680 ACCCAGTGCCTCATCGGA-TAATTCAAAGTAATAATTTGAC
1 ACCCAGTGCCTCATC-GACTAAATCGAAGTAATAA-TTGAC
*
78365720 ACCCAGT-CTCTCATCGACTAAATCGAAGT-A-AATTGGC
1 ACCCAGTGC-CTCATCGACTAAATCGAAGTAATAATTGAC
* * * *
78365757 ACCCAGTGCCTCATCCAATTAATCCGAAGTAGTAAATTGAC
1 ACCCAGTGCCTCATCGACTAAAT-CGAAGTAAT-AATTGAC
* *
78365798 ACCTAGTGTCTCATCGACT
1 ACCCAGTGCCTCATCGACT
78365817 CGAAGTCGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
37 22 0.28
38 9 0.12
39 4 0.05
40 22 0.28
41 21 0.27
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (39 bp):
ACCCAGTGCCTCATCGACTAAATCGAAGTAATAATTGAC
Found at i:78367277 original size:23 final size:23
Alignment explanation
Indices: 78367243--78367286 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
78367233 CGACATGATC
*
78367243 GGTGCAAATGAAAGTGGCACTTT
1 GGTGCAAATGAAAGTGACACTTT
* *
78367266 GGTGCAATTGAATGTGACACT
1 GGTGCAAATGAAAGTGACACT
78367287 AATGGCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (23 bp):
GGTGCAAATGAAAGTGACACTTT
Found at i:78374173 original size:43 final size:43
Alignment explanation
Indices: 78374090--78374216 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 43
78374080 TTCAGGCCTC
* * *
78374090 GGCCTAGCAAGCTTTAA-GCTGGTGAACAATATTATCGGGCTACG
1 GGCCTAGCAGGCTATAATGCTGGTG-A-AATAATATCGGGCTACG
* *
78374134 GGCCTAGCAGGCTATAATG-TCGGTGAGATAATATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCT-GGTGAAATAATATCGGGCTACG
*
78374177 GGCCTAGCAGGCTATAATGCTGGTGAAATGATATCGGGCT
1 GGCCTAGCAGGCTATAATGCTGGTGAAATAATATCGGGCT
78374217 TCAAGCATAG
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
43 50 0.68
44 18 0.25
45 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCTGGTGAAATAATATCGGGCTACG
Found at i:78374228 original size:43 final size:43
Alignment explanation
Indices: 78374138--78374230 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
78374128 GCTACGGGCC
* ** *
78374138 TAGCAGGCTATAATGTCGGTGAGATAATATCGGGCTTCGGGCC
1 TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
*
78374181 TAGCAGGCTATAATG-CTGGTGAAATGATATCGGGCTTCAAGCA
1 TAGCAGGCTATAATGTC-GGTGAAATAATATCGGGCTTCAAGCA
78374224 TAGCAGG
1 TAGCAGG
78374231 TGAAATGCCG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 43 0.98
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
Found at i:78386180 original size:19 final size:20
Alignment explanation
Indices: 78386150--78386192 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
78386140 CCACAAACCC
*
78386150 CTTAATAAATTCGTTGTTAT
1 CTTAATAAATTCGTTATTAT
78386170 CTTAA-AAATTCGTTATTAT
1 CTTAATAAATTCGTTATTAT
78386189 CTTA
1 CTTA
78386193 GGTTGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (20 bp):
CTTAATAAATTCGTTATTAT
Found at i:78386852 original size:40 final size:39
Alignment explanation
Indices: 78386775--78386856 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 39
78386765 TTTTAATTAA
78386775 TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTT
1 TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTT
**
78386814 TTTATGGAAGACATTAC-TAAGGATTATCATTCGCTTTTTT
1 TTTATGGAAGACATTACTTAA--ATTATCATTCAATTTTTT
78386854 TTT
1 TTT
78386857 TTATTAAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
38 3 0.08
39 17 0.44
40 19 0.49
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (39 bp):
TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTT
Found at i:78391147 original size:16 final size:16
Alignment explanation
Indices: 78391128--78391160 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78391118 AAACGAAATG
78391128 ATGAAAAT-AAAAGAAA
1 ATGAAAATGAAAA-AAA
78391144 ATGAAAATGAAAAAAA
1 ATGAAAATGAAAAAAA
78391160 A
1 A
78391161 AATCTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAATGAAAAAAA
Found at i:78391395 original size:18 final size:16
Alignment explanation
Indices: 78391348--78391387 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
78391338 AAAAGAAAAT
78391348 AAAATGAAATTTTTGA
1 AAAATGAAATTTTTGA
78391364 AAAATGAAATTTTTGA
1 AAAATGAAATTTTTGA
78391380 AAAATGAA
1 AAAATGAA
78391388 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AAAATGAAATTTTTGA
Found at i:78397951 original size:24 final size:23
Alignment explanation
Indices: 78397918--78397964 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
78397908 CTATAAATGC
*
78397918 CAAACAGAATACACTACAAAGGT
1 CAAACAGAATACACCACAAAGGT
*
78397941 CAAACTAGAATACACCATAAAGGT
1 CAAAC-AGAATACACCACAAAGGT
78397965 GACATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (23 bp):
CAAACAGAATACACCACAAAGGT
Found at i:78398134 original size:23 final size:23
Alignment explanation
Indices: 78398108--78398152 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
78398098 CACAAAATGC
* *
78398108 CAAACAAAATTTGCCATAAAGGT
1 CAAACAAAATATGCCACAAAGGT
* *
78398131 CAAATAGAATATGCCACAAAGG
1 CAAACAAAATATGCCACAAAGG
78398153 CACATATAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
CAAACAAAATATGCCACAAAGGT
Found at i:78400076 original size:43 final size:43
Alignment explanation
Indices: 78400012--78400183 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
78400002 CATAGGATTT
78400012 TCGATATGTG-TTCTC-ATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATT-TCGA-GTAAGACCACGTCTAGGACGTTGGCA
* * * * * *
78400055 TCGATATGTAATTTCGAGTAAGACTATGTTTGGGACATTGGCA
1 TCGATATGTGATTTCGAGTAAGACCACGTCTAGGACGTTGGCA
*
78400098 TCG-TAATTGTGA-TTCGTGTAAGACC-CTGTC-AGGACAG-TGGCA
1 TCGAT-A-TGTGATTTCGAGTAAGACCAC-GTCTAGGAC-GTTGGCA
* * *
78400140 TCGACATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCGA-GTAAGACCACGTCTAGGACGTTGGCA
78400183 T
1 T
78400184 TGTACGATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
41 5 0.05
42 28 0.28
43 60 0.60
44 7 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCGAGTAAGACCACGTCTAGGACGTTGGCA
Found at i:78405945 original size:12 final size:12
Alignment explanation
Indices: 78405928--78405957 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78405918 CTCACACGCT
78405928 CGTGTGCTAGGC
1 CGTGTGCTAGGC
*
78405940 CGTGTGCTAGGT
1 CGTGTGCTAGGC
78405952 CGTGTG
1 CGTGTG
78405958 AAAACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.43, T:0.30
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:78409658 original size:16 final size:16
Alignment explanation
Indices: 78409637--78409670 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
78409627 ATATATAGTT
78409637 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
78409653 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
78409669 AA
1 AA
78409671 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:78409866 original size:53 final size:53
Alignment explanation
Indices: 78409786--78409907 Score: 174
Period size: 53 Copynumber: 2.3 Consensus size: 53
78409776 ATGTGCCAAC
* * *
78409786 TACTGTTACTGTTACTGTTTCAGATTTGTTCCGATAAGTTACTCTGTGTACCG
1 TACTGTTACTGTTACTATTTCAGATTTGTTCCGATAAGGTACTCTATGTACCG
* *
78409839 TACTGTTACTGTTACTA-TTCTGAATTTGTTCCGATGAGGTACTCTATGTACCG
1 TACTGTTACTGTTACTATTTCAG-ATTTGTTCCGATAAGGTACTCTATGTACCG
*
78409892 TACTGCTACTGTTACT
1 TACTGTTACTGTTACT
78409908 GTTACTGTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
52 4 0.06
53 58 0.94
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (53 bp):
TACTGTTACTGTTACTATTTCAGATTTGTTCCGATAAGGTACTCTATGTACCG
Found at i:78410060 original size:19 final size:19
Alignment explanation
Indices: 78410038--78410089 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
78410028 AAAGATTGAC
78410038 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * *
78410057 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAATTTAAT
*
78410075 TTTTACTGAATAATT
1 TGTTACTGAATAATT
78410090 CACTGTTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:78410098 original size:18 final size:18
Alignment explanation
Indices: 78410036--78410105 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
78410026 GGAAAGATTG
78410036 ACTGTTACTGAATAATTTA
1 ACTGTTACTGAATAA-TTA
* * *
78410055 ATTGTTACTGTAT-ATCTG
1 ACTGTTACTGAATAAT-TA
* * *
78410073 ATTTTTACTGAATAATTC
1 ACTGTTACTGAATAATTA
*
78410091 ACTGTTACTAAATAA
1 ACTGTTACTGAATAA
78410106 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 1 0.03
18 26 0.65
19 13 0.32
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (18 bp):
ACTGTTACTGAATAATTA
Found at i:78410146 original size:18 final size:18
Alignment explanation
Indices: 78410125--78410185 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
78410115 TGATTGATAC
78410125 TGAATAACTGATTATTAT
1 TGAATAACTGATTATTAT
* * *
78410143 TGAATAATTGATTGTTAC
1 TGAATAACTGATTATTAT
* *
78410161 CGAATAACTGACTATTAT
1 TGAATAACTGATTATTAT
*
78410179 TAAATAA
1 TGAATAA
78410186 ATAATTGTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
TGAATAACTGATTATTAT
Found at i:78410166 original size:36 final size:36
Alignment explanation
Indices: 78410112--78410194 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
78410102 ATAACCGATC
* * * *
78410112 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
78410148 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
1 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
* *
78410184 AAATAATTGTT
1 AATTGATTGTT
78410195 CTGATTGACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTATTAAAT
Found at i:78416240 original size:4 final size:4
Alignment explanation
Indices: 78416231--78416273 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
78416221 TATAAACCAA
* * *
78416231 ATAC ATAC ATAC ATAC ATAC ATCC AGAC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
78416274 TATGAACATC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:78416402 original size:95 final size:95
Alignment explanation
Indices: 78416239--78416561 Score: 646
Period size: 95 Copynumber: 3.4 Consensus size: 95
78416229 AAATACATAC
78416239 ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
1 ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
78416304 GCCATATCAAATAGTATTTGGTTTATAGAA
66 GCCATATCAAATAGTATTTGGTTTATAGAA
78416334 ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
1 ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
78416399 GCCATATCAAATAGTATTTGGTTTATAGAA
66 GCCATATCAAATAGTATTTGGTTTATAGAA
78416429 ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
1 ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
78416494 GCCATATCAAATAGTATTTGGTTTATAGAA
66 GCCATATCAAATAGTATTTGGTTTATAGAA
78416524 ATACATACATACATCCAGACATACATATATACATATAT
1 ATACATACATACATCCAGACATACATATATACATATAT
78416562 ACATATATAC
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 228 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (95 bp):
ATACATACATACATCCAGACATACATATATACATATATGAACATCACGAATAAAAGTTGCATTGC
GCCATATCAAATAGTATTTGGTTTATAGAA
Found at i:78416533 original size:4 final size:4
Alignment explanation
Indices: 78416524--78416571 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
78416514 GTTTATAGAA
* * * * *
78416524 ATAC ATAC ATAC ATCC AGAC ATAC ATAT ATAC ATAT ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
78416572 TATTTGATGG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:78427890 original size:122 final size:122
Alignment explanation
Indices: 78427738--78427970 Score: 457
Period size: 122 Copynumber: 1.9 Consensus size: 122
78427728 ATTTGGTTGG
*
78427738 AATGTAAGATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
1 AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
78427803 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTTTTGATTGACAA
66 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTTTTGATTGACAA
78427860 AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
1 AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
78427925 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTT
66 ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTT
78427971 CCAAGAGACA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 110 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (122 bp):
AATGTAAAATTATGGCTCCGTTTGTTTGCAGGGAAACATTTTCCATAAAATGTTTTCCTGATTTT
ACGGTGTTTGGAAGCTTGAAAATATTTTACATTTGGAAAATATTTTTTGATTGACAA
Found at i:78428134 original size:34 final size:34
Alignment explanation
Indices: 78428096--78428162 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
78428086 TTTTCATCTT
78428096 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
1 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
78428130 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTC
1 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTC
78428163 TTCGCAGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.36, G:0.06, T:0.42
Consensus pattern (34 bp):
CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
Found at i:78430221 original size:29 final size:28
Alignment explanation
Indices: 78430179--78430252 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
78430169 TTTCTATTTA
* *
78430179 TATTTATTTTTTTATTCTAATAATATTAT
1 TATTTATCTATTTATT-TAATAATATTAT
** *
78430208 TATTTATCTATTTATATTTCTACTATTAT
1 TATTTATCTATTTAT-TTAATAATATTAT
78430237 TATATT-TCTATTTATT
1 TAT-TTATCTATTTATT
78430253 ATATTTCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 34 0.89
30 3 0.08
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTATCTATTTATTTAATAATATTAT
Found at i:78430233 original size:15 final size:16
Alignment explanation
Indices: 78430201--78430261 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 16
78430191 TATTCTAATA
*
78430201 ATATTATTATTTAT-CT
1 ATATTA-TATTTCTACT
78430217 AT-TTATATTTCTACT
1 ATATTATATTTCTACT
78430232 ATTATTATATTTCTA-T
1 A-TATTATATTTCTACT
*
78430248 TTATTATATTTCTA
1 ATATTATATTTCTA
78430262 TTTCTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.15
15 19 0.47
16 4 0.10
17 11 0.28
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTATATTTCTACT
Found at i:78430238 original size:32 final size:32
Alignment explanation
Indices: 78430193--78430261 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
78430183 TATTTTTTTA
78430193 TTCTAATAATATTAT-TATT-TATCTATTTATAT
1 TTCTAATAATATTATAT-TTCTATCTA-TTATAT
* * *
78430225 TTCTACTATTATTATATTTCTATTTATTATAT
1 TTCTAATAATATTATATTTCTATCTATTATAT
78430257 TTCTA
1 TTCTA
78430262 TTTCTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (32 bp):
TTCTAATAATATTATATTTCTATCTATTATAT
Found at i:78430262 original size:15 final size:15
Alignment explanation
Indices: 78430219--78430264 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
78430209 ATTTATCTAT
78430219 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
78430236 TTATATTTCTATTTA
1 TTATATTTCTATTTA
78430251 TTATATTTCTATTT
1 TTATATTTCTATTT
78430265 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:78430412 original size:3 final size:3
Alignment explanation
Indices: 78430404--78430558 Score: 124
Period size: 3 Copynumber: 50.7 Consensus size: 3
78430394 TTTAAAACTT
78430404 TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA
* * *
78430448 TT- TATA TTTA TGTA TTA ATA TCA TTA TT- TTT TTA TATA TTA TATA
1 TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA
* * * *
78430493 TTA TTA TTA TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
78430539 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
78430559 TATAGTATAT
Statistics
Matches: 125, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
2 9 0.07
3 97 0.78
4 18 0.14
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:78438312 original size:19 final size:19
Alignment explanation
Indices: 78438287--78438377 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
78438277 ATAATCATTA
78438287 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
78438306 GTGATATGCAACCTTAGAT
1 ATGATATGCAATCTTAGAT
*
78438325 GTGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
78438342 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
78438360 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
78438378 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.22
18 16 0.25
19 35 0.54
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:78438358 original size:35 final size:37
Alignment explanation
Indices: 78438287--78438384 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 37
78438277 ATAATCATTA
*
78438287 ATGATATGCAATCTTAGATGTGATATGCAACCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAACCTTAGAT
* *
78438325 GTGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAACCTTAGAT
78438360 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
78438385 ATTTTGTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
35 20 0.38
36 18 0.34
37 10 0.19
38 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAACCTTAGAT
Found at i:78438403 original size:22 final size:22
Alignment explanation
Indices: 78438338--78438400 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
78438328 ATACAATCTT
78438338 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
78438356 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
78438378 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
78438401 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:78443221 original size:1 final size:1
Alignment explanation
Indices: 78443215--78443292 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
78443205 CTTCTATTTT
** * * * * * * * *
78443215 AAAAAAAAAAGGAAAAAAAAGAAAAAAAAAAGAGAAAAAAAAGAAAAAGAAAAAAGAGAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
78443280 AAAAAAGAAAAAA
1 AAAAAAAAAAAAA
78443293 TGGAGAGGCC
Statistics
Matches: 57, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:78443232 original size:11 final size:11
Alignment explanation
Indices: 78443215--78443290 Score: 84
Period size: 11 Copynumber: 6.9 Consensus size: 11
78443205 CTTCTATTTT
78443215 AAAAAAAAAAG
1 AAAAAAAAAAG
*
78443226 -GAAAAAAAAG
1 AAAAAAAAAAG
78443236 AAAAAAAAAAG
1 AAAAAAAAAAG
*
78443247 AGAAAAAAAAG
1 AAAAAAAAAAG
78443258 AAAAAGAAAAA-
1 AAAAA-AAAAAG
* *
78443269 AGAGAAAAAAG
1 AAAAAAAAAAG
78443280 AAAAAAGAAAA
1 AAAAAA-AAAA
78443291 AATGGAGAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
10 14 0.26
11 30 0.57
12 9 0.17
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:78443239 original size:7 final size:7
Alignment explanation
Indices: 78443229--78443292 Score: 76
Period size: 7 Copynumber: 8.9 Consensus size: 7
78443219 AAAAAAGGAA
78443229 AAAAAAG
1 AAAAAAG
78443236 AAAAAA-
1 AAAAAAG
*
78443242 AAAAGAG
1 AAAAAAG
*
78443249 AAAAAAA
1 AAAAAAG
78443256 AGAAAAAG
1 A-AAAAAG
78443264 AAAAAAGAG
1 -AAAAA-AG
78443273 AAAAAAG
1 AAAAAAG
78443280 AAAAAAG
1 AAAAAAG
78443287 AAAAAA
1 AAAAAA
78443293 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
6 5 0.10
7 27 0.55
8 14 0.29
9 3 0.06
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:78443245 original size:23 final size:22
Alignment explanation
Indices: 78443215--78443292 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
78443205 CTTCTATTTT
*
78443215 AAAAAAAAAAGGAAAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
*
78443237 AAAAAAAAAGAGAAAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
* *
78443259 AAAAGAAAAAAGAGAAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
78443281 AAAAAGAAAAAA
1 AAAAA-AAAAAA
78443293 TGGAGAGGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
22 43 0.88
23 6 0.12
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAAAAGA
Found at i:78443292 original size:9 final size:9
Alignment explanation
Indices: 78443217--78443278 Score: 65
Period size: 9 Copynumber: 6.7 Consensus size: 9
78443207 TCTATTTTAA
78443217 AAAAAAAAGG
1 AAAAAAAA-G
78443227 AAAAAAAAG
1 AAAAAAAAG
78443236 AAAAAAAA-
1 AAAAAAAAG
78443244 AAGAGAAAAA-
1 AA-A-AAAAAG
78443254 AAAGAAAAAG
1 AAA-AAAAAG
*
78443264 AAAAAAGAG
1 AAAAAAAAG
78443273 AAAAAA
1 AAAAAA
78443279 GAAAAAAGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
8 2 0.04
9 28 0.58
10 18 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:78444251 original size:44 final size:44
Alignment explanation
Indices: 78444202--78444523 Score: 450
Period size: 44 Copynumber: 7.3 Consensus size: 44
78444192 CAGTAGGGGA
78444202 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
*
78444246 GCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAG-GG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* * *
78444289 AGCAGGTCGAAGATAGTAGATTTGGCGTCTCTGTATTGTTAGAGG
1 -GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
*
78444334 GCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGTCAG-GG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
78444377 AGAAGATCGAAAATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
1 -GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* ** * * **
78444422 GCAGATTGAAGATAGCAGATTTGGCACCTCTGTATCGTTAGACA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
78444466 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
78444510 GCAAATTGAAGATA
1 GCAGATCGAAGATA
78444524 TAACAGATTT
Statistics
Matches: 248, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
43 4 0.02
44 240 0.97
45 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (44 bp):
GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
Found at i:78444742 original size:78 final size:78
Alignment explanation
Indices: 78444613--78444940 Score: 505
Period size: 78 Copynumber: 4.2 Consensus size: 78
78444603 CGAAGAAATA
* * * * * **
78444613 GATTTAGCATCTCTATATTCGAC-GAAGAGCAGATCGAAGACATAGTAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACAG-GGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGA
*
78444677 AGCAGATCTAAGAT
65 AGCAGATCCAAGAT
* *
78444691 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
78444756 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
78444769 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
78444834 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
78444847 GATTTGGCATCTCTGTATTAGACAGGGAGTAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
*
78444912 GCAGATCCAAGAG
66 GCAGATCCAAGAT
78444925 GATTTGGCATCTCTGT
1 GATTTGGCATCTCTGT
78444941 CTGTATTAGA
Statistics
Matches: 231, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 230 1.00
79 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:78445056 original size:45 final size:45
Alignment explanation
Indices: 78444992--78445191 Score: 224
Period size: 45 Copynumber: 4.5 Consensus size: 45
78444982 TTTACATCGA
* * * *
78444992 AGCAGATCCAAGATGACAGATTTGGCATCTTTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** * *
78445037 AAAAAATCGAAGATAACAGATTTGACATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * * *
78445082 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACTGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
78445126 AGCAGGTCGAAGATAACAGATTTGGCGTC-CATGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTC-TGTATTAGACGGGG
* *
78445171 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
78445192 ATCGCCTTCC
Statistics
Matches: 128, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
44 38 0.30
45 90 0.70
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:78445136 original size:89 final size:89
Alignment explanation
Indices: 78445011--78445177 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
78445001 AAGATGACAG
*
78445011 ATTTGGCATCTTTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATCTC-TGTATTA
1 ATTTGGCATCTCTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATC-CATGTATTA
78445075 GACGGGGAGCAGATTGAAGAAGCAA
65 GACGGGGAGCAGATTGAAGAAGCAA
* * ** ** * *
78445100 ATTTGGCGTCTCTGTATTAGACTGGGAGCAGGTCGAAGATAACAGATTTGGCGTCCATGTATTAG
1 ATTTGGCATCTCTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATCCATGTATTAG
78445165 ACGGGGAGCAGAT
66 ACGGGGAGCAGAT
78445178 CAAAGATAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
88 1 0.01
89 67 0.99
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACAGGGAAAAAATCGAAGATAACAGATTTGACATCCATGTATTAG
ACGGGGAGCAGATTGAAGAAGCAA
Found at i:78446708 original size:78 final size:78
Alignment explanation
Indices: 78446566--78446916 Score: 546
Period size: 78 Copynumber: 4.5 Consensus size: 78
78446556 ATGGAAGTAA
* ** * *
78446566 ATCCAAGATGATTTGGCATC-CTTGCATT-GACAAGGAGCAGATCGAAGATACAGTAGATCTGAC
1 ATCCAAGATGATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGAC
*
78446629 CTTCATTGAAGTAG
65 CTTCATTGAAGCAG
78446643 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
1 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
78446708 TTCATTGAAGCAG
66 TTCATTGAAGCAG
* * *
78446721 ACCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAGTAGATCGAAGACACAGCAGATCTGACC
1 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
78446786 TTCATTGAAGCAG
66 TTCATTGAAGCAG
* * *
78446799 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGAC
1 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GAC
78446863 CTTCATTGAAGCAG
65 CTTCATTGAAGCAG
*
78446877 ATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCA
1 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCA
78446917 TAGCAGATCT
Statistics
Matches: 255, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
77 26 0.10
78 229 0.90
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (78 bp):
ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACC
TTCATTGAAGCAG
Found at i:78447013 original size:45 final size:45
Alignment explanation
Indices: 78446958--78447083 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 45
78446948 AAGCAGATCC
* *
78446958 AAGATGACAGATTTGGCATCTTTGTATTAGACAGGGAAAAAATCG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACAGGGAAAAAATCG
* * ** * *
78447003 AAGATAACAGATTTGACATCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACAGGGAAAAAATCG
* * * *
78447048 AAGA-AGCAAATTTGGCGTCTCTGTATTAGACTGGGA
1 AAGATAACAGATTTGGCATCTCTGTATTAGACAGGGA
78447084 GCAGNNNNNN
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 27 0.40
45 41 0.60
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (45 bp):
AAGATAACAGATTTGGCATCTCTGTATTAGACAGGGAAAAAATCG
Found at i:78449366 original size:46 final size:46
Alignment explanation
Indices: 78449261--78449392 Score: 115
Period size: 46 Copynumber: 2.8 Consensus size: 46
78449251 TCAATTGATT
* * * * *
78449261 GAAGAAGCCACAAATCCTATACCTCTGAGTTGCAGTGGGATAGATT
1 GAAGAAACCACAAATCTTATACCCCTGAGTTGCAGTGGAATAGATA
**** *
78449307 GAAGATTGTACAAATCTTATACCCCTGAGTTGTC-GTGGAATGGATA
1 GAAGAAACCACAAATCTTATACCCCTGAGTTG-CAGTGGAATAGATA
* *
78449353 GAAGAAACCACAAATTTTAT-CTCCCTGAAGATGCAGTGGA
1 GAAGAAACCACAAATCTTATAC-CCCTG-AGTTGCAGTGGA
78449393 GTAAACCAGC
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 56 0.84
47 10 0.15
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (46 bp):
GAAGAAACCACAAATCTTATACCCCTGAGTTGCAGTGGAATAGATA
Found at i:78449774 original size:45 final size:45
Alignment explanation
Indices: 78449708--78450490 Score: 452
Period size: 45 Copynumber: 17.5 Consensus size: 45
78449698 GAATCCATAG
* * * *
78449708 ATCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
78449753 ACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAGTAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * *
78449797 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGA-CTGAAGATAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCAA
* * * *
78449842 GTCTTATCTCCCTGAAGTTGCAG-AGGAGCAGA-CTGAAGATATCAG
1 ATCTTATCTCCCTGAAGTTGCAGTA-GAACAGATC-GAAGATAGCAA
* ** *
78449887 ATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * * * *
78449932 ACCTTATCTCTCTGGAGTTGCAATAGAGCAGGTTGAAG-TAGTAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
78449976 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAGATAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCAA
* * * * *
78450021 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
78450066 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * ** * *
78450110 GTCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-CTGAAGATAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCAA
* * * * *
78450155 A-CTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGAAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * *
78450199 ATATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAG-TAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * * *
78450243 GTCTTATCTCTCTGAAGTTGTAGTGGAGCA-AACTGAAGACCA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATC-GAAGA-TAGCAA
* * * * *
78450288 GTCTTATCTCCTTGAAGTTGCAGT-GAAGCAGGTTGAA-ATTACCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAA-CAGATCGAAGA-TAGCAA
* * * * * ** *
78450333 CTCTTACCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * * * **
78450377 ATCTCT-TCTCCCTGAAATTACATTGGAGCAGATCAAAGCCA-C-A
1 ATCT-TATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
* * * * *
78450420 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGAT-AAAAATACACAA
1 AT-CTTATCTCCCTGAAGTTGCAGTAGAACA-GATCGAAGATA-GCAA
* *
78450467 ACCTTATTTCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
78450491 GGAGTAGATT
Statistics
Matches: 571, Mismatches: 140, Indels: 53
0.75 0.18 0.07
Matches are distributed among these distances:
43 4 0.01
44 236 0.41
45 304 0.53
46 25 0.04
47 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAACAGATCGAAGATAGCAA
Found at i:78449860 original size:89 final size:88
Alignment explanation
Indices: 78449709--78450392 Score: 513
Period size: 89 Copynumber: 7.7 Consensus size: 88
78449699 AATCCATAGA
* * ** * * *
78449709 TCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCTTATCTCCCTGAAGTTGC
*
78449774 AGTAGAACAGGTTGAAGTAGTAAG
65 AGTAGAGCAGGTTGAAGTAGTAAG
**
78449798 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
** *
78449863 AG-AGGAGCAGACTGAAGATA-TCAG
65 AGTA-GAGCAGGTTGAAG-TAGTAAG
* * * * * *
78449887 ATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGGAGTTG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCTTATCTCCCTGAAGTTG
*
78449952 CAATAGAGCAGGTTGAAGTAGTAAG
64 CAGTAGAGCAGGTTGAAGTAGTAAG
* * * * *
78449977 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAGATCTTATCTCCCTAAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* ** * * *
78450042 AGTGGAATAGATTGAAGATAGCAAA
65 AGTAGAGCAGGTTGAAG-TAGTAAG
* * * * * * *
78450067 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCAAGTCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAACA-GATGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* * **
78450131 AGTGGAGTAGACTGAAG-A-TAACAG
65 AGTAGAGCAGGTTGAAGTAGT-A-AG
* * * ** * * * * *
78450155 ACTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAATATTATCTCTCTGAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCTTATCTCCCTGAAGTTGC
*
78450220 AGTAGAGCAGGTTGAAGTAGCAAG
65 AGTAGAGCAGGTTGAAGTAGTAAG
* * * * * * *
78450244 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAACTGAAGACCA-CAAGTCTTATCTCCTTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TGAAGA-TAGCAAATCTTATCTCCCTGAAGTTG
* ** *
78450308 CAGT-GAAGCAGGTTGAAATTACCAAC
64 CAGTAG-AGCAGGTTG-AAGTAGTAAG
* * * ** *
78450334 TCTTACCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTA-CAAATCTCT-TCTCCCTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGAT-GAAGATAGCAAATCT-TATCTCCCTGAA
78450393 ATTACATTGG
Statistics
Matches: 468, Mismatches: 105, Indels: 44
0.76 0.17 0.07
Matches are distributed among these distances:
87 4 0.01
88 28 0.06
89 286 0.61
90 148 0.32
91 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATGAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
GTAGAGCAGGTTGAAGTAGTAAG
Found at i:78449980 original size:134 final size:133
Alignment explanation
Indices: 78449799--78450306 Score: 678
Period size: 134 Copynumber: 3.8 Consensus size: 133
78449789 AGTAGTAAGT
* * * ** *
78449799 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTGAAGTTGCA
* **
78449864 GAGGAGCAGACTGAAGATATCAGATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAG
65 GTGGAGCAGACTGAAGATA-CAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAG
78449929 CAAAC
129 CAAAC
* * *
78449934 CTTATCTCTCTGGAGTTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
78449999 TGGAGCAGACTAAAGATAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGC
66 TGGAGCAGACTGAAGATA-CAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGC
78450064 AAAC
130 AAAC
* *
78450068 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
* * * *
78450133 TGGAGTAGACTGAAGATAACAGA-CTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGA
66 TGGAGCAGACTGAAGAT-ACAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGC
*
78450197 AAAT
130 AAAC
* * * *
78450201 ATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCTCTGAAGTTGTAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
* * *
78450266 TGGAGCAAACTGAAGACCACA-AGTCTTATCTCCTTGAAGTT
66 TGGAGCAGACTGAAGA-TACAGA-TCTTATCTCCCTGAAGTT
78450307 GCAGTGAAGC
Statistics
Matches: 327, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
132 1 0.00
133 114 0.35
134 182 0.56
135 30 0.09
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (133 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTGAAGATACAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGCA
AAC
Found at i:78450017 original size:179 final size:179
Alignment explanation
Indices: 78449706--78450088 Score: 586
Period size: 179 Copynumber: 2.1 Consensus size: 179
78449696 GTGAATCCAT
*
78449706 AGATCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
1 AGATCTTATCTCACTGAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
* *
78449771 TGCAGTAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGA
66 TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA
* * * * *
78449836 TAGCAGGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATATC
131 TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
* * * *
78449885 AGATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGGAGT
1 AGATCTTATCTCACTGAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
* *
78449950 TGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGA
66 TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA
* * *
78450015 TAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGC
131 TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
* * *
78450064 AAACCTTATCTCTCTGAAGTTGCAG
1 AGATCTTATCTCACTGAAGTTGCAG
78450089 TAGAGCAGGT
Statistics
Matches: 183, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
179 183 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (179 bp):
AGATCTTATCTCACTGAAGTTGCAGCAGAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAGT
TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA
TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
Found at i:78450439 original size:267 final size:266
Alignment explanation
Indices: 78449755--78450408 Score: 610
Period size: 267 Copynumber: 2.4 Consensus size: 266
78449745 GATAGCAAAC
* * * * * * ** * * *
78449755 CTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAGTAAGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGCAAACCTTACCTCTCTGAAGTTCCA
* * ** * * * * *
78449819 GTGGAACAGA-CTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATA
66 GTAGAGCAGATC-GAA-ATAGCAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGACA
* ** * * * *
78449883 TCAGATCTTATCTCCCTGAAGTTGTAGCGGAATAGATCGAAGATAGCAAACCTTATCTCTCTGGA
129 ACAGA-CTTATCT-CCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAACATTATCTCTCTGAA
* *
78449948 GTTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
192 GTTGCAATAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAA
*
78450013 GATAGCAGAT
257 GACAGCAGAT
* * *
78450023 CTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGCAAACCTTACCTCTCTGAAGTTCCA
* * * * * * *
78450088 GTAGAGCAGGTTGAAATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAAC
66 GTAGAGCAGATCGAAATAGCAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGACAAC
*
78450153 AGACTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAATATTATCTCTCTGAAGTT
131 AGACTTATCT-CCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAACATTATCTCTCTGAAGTT
* * * * *
78450218 GTAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAAACTGAAGAC
195 GCAATAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGA-
78450283 CA-CA-AGT
259 CAGCAGA-T
* * * * *
78450290 CTTATCTCCTTGAAGTTGCAGT-GAAGCAGGTTGAA-ATTA-CCAACTCTTACCTC-CTTGAAGT
1 CTTATCTCCCTAAAGTTACAGTGGAA-CAGATTGAAGA-TAGCAAAC-CTTACCTCTC-TGAAGT
* * * *
78450351 TCCAGTGGAGTAGATCGAAGCTA-CAAATCTCT-TCTCCCTGAAA-TTACATTGGAGCAGA
62 TCCAGTAGAGCAGATCGAA-ATAGCAAATCT-TATCTCCCT-AAAGTTACAGTGGAGCAGA
78450409 TCAAAGCCAC
Statistics
Matches: 323, Mismatches: 52, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
266 10 0.03
267 194 0.60
268 85 0.26
269 34 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (266 bp):
CTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGATAGCAAACCTTACCTCTCTGAAGTTCCA
GTAGAGCAGATCGAAATAGCAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGACAAC
AGACTTATCTCCTGAAGTTACAGCAGAATAGATCGAAGATAGAAAACATTATCTCTCTGAAGTTG
CAATAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGACA
GCAGAT
Found at i:78450450 original size:44 final size:45
Alignment explanation
Indices: 78450383--78450499 Score: 110
Period size: 46 Copynumber: 2.6 Consensus size: 45
78450373 ACAAATCTCT
* * * * * * *
78450383 TCTCCCTGAAATTACATTGGAGCAGAT-CAAAGCCACAATCCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCAGATAAAAAGACACAAACCTTA
* *
78450427 TCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCA-GATAAAAAGACACAAACCTTA
* * *
78450473 TTTCCCTGAAGTTGCAGTGGAGTAGAT
1 TCTCCCTGAAGTTGCAGTAGAGCAGAT
78450500 TGAAATTACC
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 19 0.33
45 6 0.10
46 33 0.57
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (45 bp):
TCTCCCTGAAGTTGCAGTAGAGCAGATAAAAAGACACAAACCTTA
Found at i:78451567 original size:15 final size:14
Alignment explanation
Indices: 78451511--78451625 Score: 60
Period size: 15 Copynumber: 8.1 Consensus size: 14
78451501 TTATTATGTT
*
78451511 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
78451525 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
78451539 TACTATTATTATTTA
1 T-CTATTTTTATTTA
78451554 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
78451569 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
78451583 TACTATTATTA-TT-
1 T-CTATTTTTATTTA
*
78451596 TCTATTTATTCTATT-
1 TCTATTT-TTAT-TTA
*
78451611 TCTATTTCTATTTA
1 TCTATTTTTATTTA
78451625 T
1 T
78451626 ATACTAATAT
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
12 11 0.14
13 7 0.09
14 20 0.26
15 31 0.40
16 2 0.03
17 7 0.09
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:78451580 original size:29 final size:28
Alignment explanation
Indices: 78451511--78451581 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
78451501 TTATTATGTT
78451511 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
78451539 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
78451569 TCTATTTATATTT
1 TCTATTTATATTT
78451582 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:78451601 original size:21 final size:22
Alignment explanation
Indices: 78451566--78451626 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
78451556 TAATTTTTAT
* *
78451566 TTATCTATTTATATTTCTACTA
1 TTATCTATTTCTATTTATACTA
*
78451588 TTAT-TATTTCTATTTATTCTA
1 TTATCTATTTCTATTTATACTA
78451609 TT-TCTATTTCTATTTATA
1 TTATCTATTTCTATTTATA
78451627 TACTAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.85
22 4 0.12
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATCTATTTCTATTTATACTA
Found at i:78451765 original size:3 final size:3
Alignment explanation
Indices: 78451757--78451788 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
78451747 TTTAAAACTT
78451757 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
78451789 TATAGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:78451841 original size:18 final size:18
Alignment explanation
Indices: 78451818--78451855 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
78451808 AATTGCTCCC
78451818 TTAATTTTATT-TTATATT
1 TTAA-TTTATTCTTATATT
*
78451836 TTAATTTATTCTTCTATT
1 TTAATTTATTCTTATATT
78451854 TT
1 TT
78451856 TAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTAATTTATTCTTATATT
Found at i:78455622 original size:32 final size:32
Alignment explanation
Indices: 78455576--78455656 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 32
78455566 AAATTTTAGT
78455576 TTGTTGGATT-TTGAAATTATTATGTCTTGAAT-
1 TTGTTGG-TTATTGAAATTATTATGT-TTGAATC
* *
78455608 TTGTTAGG-TATTGAATTTATTATGTTTTAATC
1 TTGTT-GGTTATTGAAATTATTATGTTTGAATC
78455640 TTGTTGGTTATTGAAAT
1 TTGTTGGTTATTGAAAT
78455657 GATTGACAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 8 0.19
32 32 0.76
33 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.54
Consensus pattern (32 bp):
TTGTTGGTTATTGAAATTATTATGTTTGAATC
Found at i:78457376 original size:6 final size:6
Alignment explanation
Indices: 78457365--78457399 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
78457355 ACCAACCAGT
* *
78457365 ATTATA ATTATA ATTATA ATCATA ATCATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTAT
78457400 TATATTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTATA
Found at i:78457841 original size:15 final size:16
Alignment explanation
Indices: 78457818--78457856 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
78457808 TTATGGATAC
*
78457818 AAAATAATAAGAT-TT
1 AAAAGAATAAGATGTT
78457833 AAAAGAATAAGATGTT
1 AAAAGAATAAGATGTT
78457849 -AAAGAATA
1 AAAAGAATA
78457857 TATCATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
AAAAGAATAAGATGTT
Found at i:78465632 original size:3 final size:3
Alignment explanation
Indices: 78465626--78465665 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
78465616 ATTATTATTA
78465626 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
78465666 CGGAACCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:78466461 original size:131 final size:131
Alignment explanation
Indices: 78466164--78466518 Score: 432
Period size: 131 Copynumber: 2.7 Consensus size: 131
78466154 CTTAGAAAAT
** * *
78466164 ATGAGTGAAATTCCGAAGGGATATTCGATTATTTGATA-CAAACGAGAGATTGCAACCCAGCACG
1 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTA-AGCAAACGAGAAATTGCAACCCAGCACG
* * * ** ** *
78466228 ATAGGGCACTACTCCCTGAATTGCCAAACATCGAGTATTTCCTTTGTTTTAAAGAGTTTTTAGAA
65 TTAGGGCACAATTCCC-GAATTGCCAAACATCGAGTATCGCCTTTCATTTAAAGAGTTTTTAAAA
78466293 GAC
129 GAC
* *
78466296 ATGAATGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGT
** *
78466361 TAGGGCACAATTCCGCGAATTGCCAAATTTCGCA-TATCGCC-TTCATTT-AAGGGATTTTTAAA
66 TAGGGCACAATTCC-CGAATTGCCAAACATCG-AGTATCGCCTTTCATTTAAAGAG-TTTTTAAA
78466423 AGAC
128 AGAC
* *
78466427 ATTG-GTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAGCACG
1 A-TGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACG
*
78466491 TTAGGGCACGATTCCACGAATTGCCAAA
65 TTAGGGCACAATTCC-CGAATTGCCAAA
78466519 ATATCAAATC
Statistics
Matches: 195, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
130 4 0.02
131 100 0.51
132 89 0.46
133 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (131 bp):
ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGT
TAGGGCACAATTCCCGAATTGCCAAACATCGAGTATCGCCTTTCATTTAAAGAGTTTTTAAAAGA
C
Found at i:78469940 original size:132 final size:133
Alignment explanation
Indices: 78469651--78470002 Score: 521
Period size: 132 Copynumber: 2.7 Consensus size: 133
78469641 GTTAAGGCAA
* * * * * **
78469651 TGGCTTGAATCTGCTTCACTGCAACTTCAAGAAGACTAGATTCATCATCTTTGATCTGCTCTTCT
1 TGGCTTAAATCTGCTTCACTGCAATTTCAGGAAGCCTAGATTCATCGTCTTTGATCTGCTCCACT
*
78469716 GCAACTTCAGGGAGATA-G-GATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAG
66 GCAACTTCAGGGA-A-ACGAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAG
*
78469779 GTCGG
129 GTCAG
78469784 TGGCTTAAATCTGCTTCACTGCAATTTCAGGAAGCCTAGATTCATCGTCTTTGATCTGCTCCACT
1 TGGCTTAAATCTGCTTCACTGCAATTTCAGGAAGCCTAGATTCATCGTCTTTGATCTGCTCCACT
*
78469849 GCAACTTCAGGGAAACGAGATCTAAAAT-TTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGT
66 GCAACTTCAGGGAAACGAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGT
*
78469913 TAG
131 CAG
* * * * *
78469916 TGGTTTAAATCTGTTTTACTGCAATTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACT
1 TGGCTTAAATCTGCTTCACTGCAATTTCAGGAAGCCTAGATTCATCGTCTTTGATCTGCTCCACT
78469981 GCAACTTCAGGGAAACGAGATC
66 GCAACTTCAGGGAAACGAGATC
78470003 CGTAGGATTC
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
131 1 0.00
132 120 0.60
133 80 0.40
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
TGGCTTAAATCTGCTTCACTGCAATTTCAGGAAGCCTAGATTCATCGTCTTTGATCTGCTCCACT
GCAACTTCAGGGAAACGAGATCTAAAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGT
CAG
Found at i:78470176 original size:64 final size:64
Alignment explanation
Indices: 78470075--78470195 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
78470065 TGTATCTGTG
* *
78470075 TATGTCAAATAATTAGGATGCTATGATCGAGATGAATCAAATG-TCCCTAACTAAATGTGGTGTT
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCT-CCTAACTAAATGTGGTGTT
* * *
78470139 TATGTCAAATAATTAGAATGCTATGATTGAAATGAATCAAGTGCTCCTGACTAAATG
1 TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATG
78470196 AATGATTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (64 bp):
TATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGGTGTT
Found at i:78470905 original size:3 final size:3
Alignment explanation
Indices: 78470897--78470925 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
78470887 CTCTCCATCT
78470897 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
78470926 TTGAGCGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:78475622 original size:40 final size:40
Alignment explanation
Indices: 78475567--78475646 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
78475557 TAATTCTGAT
*
78475567 TCAGTTGGAAGTCAGTGTAGTCAGATCAGGACCATATGTG
1 TCAGTTAGAAGTCAGTGTAGTCAGATCAGGACCATATGTG
*
78475607 TCAGTTAGAAGTCAGTGTAGTCAGATCAGGACCGTATGTG
1 TCAGTTAGAAGTCAGTGTAGTCAGATCAGGACCATATGTG
78475647 AGTTTTCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (40 bp):
TCAGTTAGAAGTCAGTGTAGTCAGATCAGGACCATATGTG
Found at i:78475629 original size:20 final size:20
Alignment explanation
Indices: 78475567--78475630 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
78475557 TAATTCTGAT
*
78475567 TCAGTTGGAAGTCAGTGTAG
1 TCAGTTAGAAGTCAGTGTAG
* * * *
78475587 TCAGATCAGGA-CCATATGT-G
1 TCAG-TTAGAAGTCA-GTGTAG
78475607 TCAGTTAGAAGTCAGTGTAG
1 TCAGTTAGAAGTCAGTGTAG
78475627 TCAG
1 TCAG
78475631 ATCAGGACCG
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
19 7 0.23
20 18 0.58
21 6 0.19
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (20 bp):
TCAGTTAGAAGTCAGTGTAG
Found at i:78480443 original size:23 final size:23
Alignment explanation
Indices: 78480413--78480499 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
78480403 GCTTTACTGA
* *
78480413 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
78480436 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
78480457 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
78480479 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
78480500 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:78482719 original size:235 final size:235
Alignment explanation
Indices: 78482308--78482778 Score: 942
Period size: 235 Copynumber: 2.0 Consensus size: 235
78482298 AAGCCATTAG
78482308 CGTGTGTCCCACAGACGCCTTCATGGACTTCTTCCAAGATTTTCTTAGCCTCTACAGCATCTACG
1 CGTGTGTCCCACAGACGCCTTCATGGACTTCTTCCAAGATTTTCTTAGCCTCTACAGCATCTACG
78482373 CATCTTAATAGTACTTGATCCTTTCTTCTTTTGTATAGGATCTCCCCATCTAAGACATAGTCGAT
66 CATCTTAATAGTACTTGATCCTTTCTTCTTTTGTATAGGATCTCCCCATCTAAGACATAGTCGAT
78482438 GGCCAATCTTCTCAGCGTCCTTTTGTCATTCTCGCTTGCCTGGTCTGGGTATTCACGATTCTTCA
131 GGCCAATCTTCTCAGCGTCCTTTTGTCATTCTCGCTTGCCTGGTCTGGGTATTCACGATTCTTCA
78482503 CGTATTGTGATATATCGTGATACCAAGAGTGATCATCTTT
196 CGTATTGTGATATATCGTGATACCAAGAGTGATCATCTTT
78482543 CGTGTGTCCCACAGACGCCTTCATGGACTTCTTCCAAGATTTTCTTAGCCTCTACAGCATCTACG
1 CGTGTGTCCCACAGACGCCTTCATGGACTTCTTCCAAGATTTTCTTAGCCTCTACAGCATCTACG
78482608 CATCTTAATAGTACTTGATCCTTTCTTCTTTTGTATAGGATCTCCCCATCTAAGACATAGTCGAT
66 CATCTTAATAGTACTTGATCCTTTCTTCTTTTGTATAGGATCTCCCCATCTAAGACATAGTCGAT
78482673 GGCCAATCTTCTCAGCGTCCTTTTGTCATTCTCGCTTGCCTGGTCTGGGTATTCACGATTCTTCA
131 GGCCAATCTTCTCAGCGTCCTTTTGTCATTCTCGCTTGCCTGGTCTGGGTATTCACGATTCTTCA
78482738 CGTATTGTGATATATCGTGATACCAAGAGTGATCATCTTT
196 CGTATTGTGATATATCGTGATACCAAGAGTGATCATCTTT
78482778 C
1 C
78482779 TCTTCATCTT
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 236 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (235 bp):
CGTGTGTCCCACAGACGCCTTCATGGACTTCTTCCAAGATTTTCTTAGCCTCTACAGCATCTACG
CATCTTAATAGTACTTGATCCTTTCTTCTTTTGTATAGGATCTCCCCATCTAAGACATAGTCGAT
GGCCAATCTTCTCAGCGTCCTTTTGTCATTCTCGCTTGCCTGGTCTGGGTATTCACGATTCTTCA
CGTATTGTGATATATCGTGATACCAAGAGTGATCATCTTT
Found at i:78485885 original size:27 final size:27
Alignment explanation
Indices: 78485816--78486021 Score: 243
Period size: 27 Copynumber: 7.7 Consensus size: 27
78485806 GGGTGTTACA
* *
78485816 GGTATTTCAATAATTTTACACTATA-G
1 GGTATTTCAGTAATTTTACACTACAGG
* *
78485842 GGCATTTCTGTAATTTTACACTACAGG
1 GGTATTTCAGTAATTTTACACTACAGG
* *
78485869 GGTATTTCAGTACTTTTACACTATAGG
1 GGTATTTCAGTAATTTTACACTACAGG
* * *
78485896 GGTATTTCAATAATTTTACACTATAGT
1 GGTATTTCAGTAATTTTACACTACAGG
* *
78485923 GGTATTTCTGTAATTTTACACCACAGG
1 GGTATTTCAGTAATTTTACACTACAGG
** * *
78485950 GGTATTTTGGTAATTTTACACGACAAG
1 GGTATTTCAGTAATTTTACACTACAGG
78485977 GGTATTTCAGTAATTTTACACTACAGG
1 GGTATTTCAGTAATTTTACACTACAGG
* **
78486004 AGTATTTTGGTAATTTTA
1 GGTATTTCAGTAATTTTA
78486022 TAAACTAGGG
Statistics
Matches: 152, Mismatches: 27, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 21 0.14
27 131 0.86
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACACTACAGG
Found at i:78486032 original size:81 final size:80
Alignment explanation
Indices: 78485816--78486050 Score: 303
Period size: 81 Copynumber: 2.9 Consensus size: 80
78485806 GGGTGTTACA
* * **
78485816 GGTATTTCAATAATTTTACACTATAGGGCATTTCTGTAATTTTACACTACAGGGGTATTTCAGTA
1 GGTATTTCAATAATTTTACACTATAGGGTATTTCTGTAATTTTACACAACAGGGGTATTTTGGTA
* * * *
78485881 CTTTTACACTATAGG
66 ATTTTACACGACAAG
*
78485896 GGTATTTCAATAATTTTACACTATAGTGGTATTTCTGTAATTTTACACCACAGGGGTATTTTGGT
1 GGTATTTCAATAATTTTACACTATAG-GGTATTTCTGTAATTTTACACAACAGGGGTATTTTGGT
78485961 AATTTTACACGACAAG
65 AATTTTACACGACAAG
* * *
78485977 GGTATTTCAGTAATTTTACACTACAGGAGTATTT-TGGTAATTTTATA-AACTAGGGGTATTTTG
1 GGTATTTCAATAATTTTACACTATAGG-GTATTTCT-GTAATTTTACACAAC-AGGGGTATTTTG
*
78486040 ATAATTTTACA
63 GTAATTTTACA
78486051 AATCGGGGTC
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
80 30 0.22
81 108 0.78
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (80 bp):
GGTATTTCAATAATTTTACACTATAGGGTATTTCTGTAATTTTACACAACAGGGGTATTTTGGTA
ATTTTACACGACAAG
Found at i:78486035 original size:27 final size:27
Alignment explanation
Indices: 78485826--78486050 Score: 179
Period size: 27 Copynumber: 8.4 Consensus size: 27
78485816 GGTATTTCAA
* * *
78485826 TAATTTTACACTATA-GGGCATTTCT-G
1 TAATTTTACACAACAGGGGTATTT-TGG
* **
78485852 TAATTTTACACTACAGGGGTATTTCAG
1 TAATTTTACACAACAGGGGTATTTTGG
* * * ***
78485879 TACTTTTACACTATAGGGGTATTTCAA
1 TAATTTTACACAACAGGGGTATTTTGG
* * *
78485906 TAATTTTACACTATAGTGGTATTTCT-G
1 TAATTTTACACAACAGGGGTATTT-TGG
*
78485933 TAATTTTACACCACAGGGGTATTTTGG
1 TAATTTTACACAACAGGGGTATTTTGG
* * **
78485960 TAATTTTACACGACAAGGGTATTTCAG
1 TAATTTTACACAACAGGGGTATTTTGG
* *
78485987 TAATTTTACACTACAGGAGTATTTTGG
1 TAATTTTACACAACAGGGGTATTTTGG
* *
78486014 TAATTTTATA-AACTAGGGGTATTTTGA
1 TAATTTTACACAAC-AGGGGTATTTTGG
78486041 TAATTTTACA
1 TAATTTTACA
78486051 AATCGGGGTC
Statistics
Matches: 167, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
26 17 0.10
27 150 0.90
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (27 bp):
TAATTTTACACAACAGGGGTATTTTGG
Found at i:78489177 original size:32 final size:32
Alignment explanation
Indices: 78489136--78489205 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
78489126 CATGGCTTAC
*
78489136 AGCCATCAGTAG-TGGTAATTTGATCAACACAA
1 AGCCATCAGTAGCT-GTAATATGATCAACACAA
*
78489168 AGCCATCAGTAGCTGTAATATGATCAACACAC
1 AGCCATCAGTAGCTGTAATATGATCAACACAA
78489200 AGCCAT
1 AGCCAT
78489206 GGGTAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 34 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAGCTGTAATATGATCAACACAA
Found at i:78495576 original size:47 final size:46
Alignment explanation
Indices: 78495385--78495739 Score: 219
Period size: 47 Copynumber: 7.6 Consensus size: 46
78495375 TTGCGAATGC
* *
78495385 CATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATCATACTA--TG-GCTGATG
* * * *
78495434 CATGTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTAGCTGATA
1 CATGTCCCAGACATGTCTTACACTGGCTATCATACT-ATGGCTGATG
* * *
78495478 CGTGTCCCAGACACGTCTTACACTGGCTATC-T-CGGTCGA-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCATAC--T--ATGGCTGATG
* * *
78495525 CATGTCCGAGATATGTCTTACACTGGC-AGTCAT-CTCTGTGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTA-TCATACTATG-GCTGATG
* *
78495571 CCATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCATACTATGGCTGATG
* * ** * **
78495619 CATGTCCCAAACATGTCTTACACTAGCCCTCGT-CTGGAT-ATTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCATACT--ATGGCTGATG
* * * * * * * *
78495665 CCATGTCCCAAACATGGCCTTACACCGGCTCTCATAATGTGGCCGAGG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCATACTATGGCTGATG
78495713 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
78495740 GCACAAACCA
Statistics
Matches: 237, Mismatches: 47, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
44 30 0.13
45 5 0.02
46 43 0.18
47 85 0.36
48 55 0.23
49 19 0.08
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCATACTATGGCTGATG
Found at i:78495622 original size:94 final size:93
Alignment explanation
Indices: 78495381--78495736 Score: 334
Period size: 94 Copynumber: 3.8 Consensus size: 93
78495371 TATATTGCGA
* * *
78495381 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTCCCAGA
*
78495445 CATGTCTTACACTAGCA-CAACTCT-TAGCTG
63 CATGTCTTACACTAGCATCATCTCTGT-GCTG
* * * * *
78495475 AT-ACGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCGGTCGA-GGCCGATGCATGTCCGAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGTCCCAGA
* *
78495536 TATGTCTTACACTGGCAGTCATCTCTGTGCTG
63 CATGTCTTACACTAGCA-TCATCTCTGTGCTG
* * *
78495568 ATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACAT
* **
78495633 GTCTTACACTAGC--CCTCGTCTGGATATTG
66 GTCTTACACTAGCATCATC-TCT-G-TGCTG
* * * * * * *
78495662 ATGCCATGTCCCAAACATGGCCTTACACCGGCTCTCATAATGTGGCCGAGGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACAT
78495727 GTCTTACACT
66 GTCTTACACT
78495737 GGCGCACAAA
Statistics
Matches: 215, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
91 35 0.16
92 20 0.09
93 27 0.13
94 112 0.52
95 20 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCATCATCTCTGTGCTG
Found at i:78501590 original size:23 final size:25
Alignment explanation
Indices: 78501564--78501625 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
78501554 GCTTGTCAAT
* *
78501564 GCTTACTGT-TTCAGCTCAATA-GA
1 GCTTACTGTCATCAGCTCAAGAGGA
*
78501587 GCTTATTGTCCATCAGCTCAAGAGGA
1 GCTTACTGT-CATCAGCTCAAGAGGA
78501613 GCTTACTGATCAT
1 GCTTACTG-TCAT
78501626 GGCTCAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 8 0.26
25 10 0.32
26 12 0.39
27 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (25 bp):
GCTTACTGTCATCAGCTCAAGAGGA
Found at i:78503012 original size:8 final size:8
Alignment explanation
Indices: 78502995--78503025 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
78502985 ATGATATTTG
78502995 TGTATGAA
1 TGTATGAA
*
78503003 TGTATAAA
1 TGTATGAA
78503011 TGTATGAA
1 TGTATGAA
78503019 TGTATGA
1 TGTATGA
78503026 TATTTGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (8 bp):
TGTATGAA
Found at i:78504907 original size:54 final size:54
Alignment explanation
Indices: 78504844--78504952 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
78504834 TGTAATTGGC
78504844 TCATTTTGGCTAAAATGGTTGTAAGCCCATTTATATATATATGTGCCAATGTCT
1 TCATTTTGGCTAAAATGGTTGTAAGCCCATTTATATATATATGTGCCAATGTCT
*
78504898 TCATTTTGGCTAAAATGGTTGTAGGCCCATTTATATATATATGTGCCAATGTCT
1 TCATTTTGGCTAAAATGGTTGTAAGCCCATTTATATATATATGTGCCAATGTCT
78504952 T
1 T
78504953 TAGTGTTATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (54 bp):
TCATTTTGGCTAAAATGGTTGTAAGCCCATTTATATATATATGTGCCAATGTCT
Found at i:78506354 original size:34 final size:34
Alignment explanation
Indices: 78506302--78506367 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
78506292 GGGAGGTAGA
* *
78506302 GTAACCTTGTGGTTTGGAGTTCGAGTAGAGGCTC
1 GTAACCTTGAGGTCTGGAGTTCGAGTAGAGGCTC
*
78506336 GTAACCTTGAGGTCTGGAGTTTGAGTAGAGGC
1 GTAACCTTGAGGTCTGGAGTTCGAGTAGAGGC
78506368 GTGTGCAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (34 bp):
GTAACCTTGAGGTCTGGAGTTCGAGTAGAGGCTC
Found at i:78507681 original size:28 final size:29
Alignment explanation
Indices: 78507600--78507687 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
78507590 TGAGCATGAC
78507600 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* **
78507629 TATAAATATGATTTGGGCCTAATGGGTTA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
*
78507658 TATAAATGTGA-TTGGACCTAATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
78507686 TA
1 TA
78507688 ACAAGTATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
28 16 0.31
29 36 0.69
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGCCA
Found at i:78509992 original size:12 final size:12
Alignment explanation
Indices: 78509975--78510006 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
78509965 TTATTTTTGT
78509975 CACACGGGTAGA
1 CACACGGGTAGA
78509987 CACACGGGTAGA
1 CACACGGGTAGA
78509999 CACACGGG
1 CACACGGG
78510007 CGTGTGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.34, T:0.06
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:78514400 original size:47 final size:45
Alignment explanation
Indices: 78514286--78514459 Score: 131
Period size: 46 Copynumber: 3.8 Consensus size: 45
78514276 ACATCTTGTA
* * * ** *
78514286 GCCGATGCAAGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CAT-AAGTG
* * *
78514332 GTCAATGCATGTCCCATACATGTCTTACACTAGCTCTTGTC-TCAA-T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AAGTG
* *
78514378 GCCGATGCCATGTCCCAGACATGGTCTTTCACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTG
*
78514426 GCCGATGCATATCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
78514460 GCACAAATGA
Statistics
Matches: 101, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
45 4 0.04
46 46 0.46
47 27 0.27
48 22 0.22
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTG
Found at i:78514405 original size:94 final size:92
Alignment explanation
Indices: 78514286--78514459 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 92
78514276 ACATCTTGTA
* * * * *
78514286 GCCGATGCAAGTCCTAGACATGTCTTACACTGGCT-TACAT-CTCGAGGTCAATGCATGTCCCAT
1 GCCGATGCAAGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATGCATATCCCAG
78514349 ACATGTCTTACACTAGCTCTTGTCTCAAT
64 ACATGTCTTACACTAGCTCTTGTCTCAAT
* * * *
78514378 GCCGATGCCATGTCCCAGACATGGTCTTTCACTGGCTCTCATAATGTGGCCGATGCATATCCCAG
1 GCCGATG-CAAGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATGCATATCCCAG
78514443 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
78514460 GCACAAATGA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 48 0.70
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
GCCGATGCAAGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCAATGCATATCCCAGAC
ATGTCTTACACTAGCTCTTGTCTCAAT
Found at i:78519322 original size:47 final size:47
Alignment explanation
Indices: 78519246--78519410 Score: 233
Period size: 47 Copynumber: 3.5 Consensus size: 47
78519236 CTTCGGGACT
* * * * *
78519246 TATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
78519293 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
78519339 TCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
78519387 TATCACATATATATACACTTTCAC
1 TATCAC--ATATATACACTTTCAC
78519411 TGTGACAGCC
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
46 3 0.03
47 85 0.80
48 2 0.02
49 16 0.15
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:78521085 original size:27 final size:27
Alignment explanation
Indices: 78521054--78521204 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
78521044 TAAATTGTAC
78521054 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78521081 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78521107 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78521135 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78521163 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78521190 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78521205 GACTCAATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78521168 original size:82 final size:81
Alignment explanation
Indices: 78521055--78521204 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
78521045 AAATTGTACA
*
78521055 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
78521119 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
78521136 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
78521201 TGCG
65 TGCG
78521205 GACTCAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78522629 original size:49 final size:49
Alignment explanation
Indices: 78522555--78522839 Score: 493
Period size: 49 Copynumber: 5.9 Consensus size: 49
78522545 GGGTGTTACA
*
78522555 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
78522604 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
* *
78522653 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
78522702 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
*
78522749 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
* *
78522798 TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
78522840 TATCATGTAT
Statistics
Matches: 226, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 46 0.20
49 180 0.80
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
Found at i:78522769 original size:96 final size:96
Alignment explanation
Indices: 78522555--78522839 Score: 498
Period size: 96 Copynumber: 2.9 Consensus size: 96
78522545 GGGTGTTACA
* *
78522555 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
*
78522620 CGGCTATTAGGCCTTATCACATATATATACACT
66 CGGCCATTAGGCCTTATCAC--ATATATACACT
*
78522653 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATATACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
78522718 CGGCCATTAGGCCTTATCACATATATACACT
66 CGGCCATTAGGCCTTATCACATATATACACT
78522749 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
* *
78522814 TGGCCATTCGGCCTTATCACATATAT
66 CGGCCATTAGGCCTTATCACATATAT
78522840 TATCATGTAT
Statistics
Matches: 180, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
96 99 0.55
98 81 0.45
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACT
Found at i:78522827 original size:145 final size:146
Alignment explanation
Indices: 78522555--78522839 Score: 509
Period size: 145 Copynumber: 2.0 Consensus size: 146
78522545 GGGTGTTACA
*
78522555 TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACAT
*
78522620 CGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
65 CGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
78522685 TCACACATATATACACT
130 TCACACATATATACACT
78522702 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATC
* *
78522766 GGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT
66 GGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
78522831 CACATATAT
131 CACACATAT
78522840 TATCATGTAT
Statistics
Matches: 133, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
145 98 0.74
147 35 0.26
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (146 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATC
GGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACACATATATACACT
Found at i:78532161 original size:47 final size:45
Alignment explanation
Indices: 78532093--78532398 Score: 222
Period size: 46 Copynumber: 6.5 Consensus size: 45
78532083 ATGCCGATCC
* *
78532093 CATGTCCCAGACATAGTCTTACACTGGCTCACATGTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAGCCGATG
* *** *
78532139 CCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATTCGTCCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGG--CTCACAT-CTCAAGCCGATG
* * * **
78532189 CCATGTCCCAAACATGGTCTCACACT-G-ACACATCTTGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACATC-TCAAGCCGATG
* * * *
78532235 CATGTTCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTC-AAGCCGATG
* * * *
78532281 CATGTCCCATACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GCCGATG
* * * * * *
78532327 TCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAT-ATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCA-AGCCGATG
78532375 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
78532399 AGCGCACAAA
Statistics
Matches: 205, Mismatches: 42, Indels: 25
0.75 0.15 0.09
Matches are distributed among these distances:
44 9 0.04
45 14 0.07
46 68 0.33
47 52 0.25
48 23 0.11
49 9 0.04
50 30 0.15
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGCCGATG
Found at i:78532324 original size:46 final size:45
Alignment explanation
Indices: 78532083--78532401 Score: 175
Period size: 47 Copynumber: 6.8 Consensus size: 45
78532073 ATAGGGTATG
* * * *
78532083 ATGCCGATCCCATGTCCCAGACATAGTCTTACACTGGCTCACATGTCA
1 ATGCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCTCTC-TCTCA
* * *
78532131 A-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-A
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTC-TCA
* * * * * **
78532177 TTCGTCCCAATGCCATGTCCCAAACATGGTCTCACACT-GACACATCT-TGT
1 AT-G--CCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCTCTCA
* * * *
78532227 A-GCCGATGCATGTTCTAGACATGTCTTACACTGGCT-TACATCTCG
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-C-TCTCA
* *
78532272 AGGCCGATGCATGTCCCATACATGTCTTACACTAGCTCTCGTCTCA
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCA
* * * * *
78532318 ATGCCGATGTCATGTCCCAAACATGGTCTTACATTGGCTCTC-ATAA
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCTCA
*
78532364 TATGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 -AT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
78532402 GCACAAATAA
Statistics
Matches: 213, Mismatches: 39, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.05
45 14 0.07
46 63 0.30
47 65 0.31
48 24 0.11
49 2 0.01
50 30 0.14
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCA
Found at i:78532347 original size:94 final size:93
Alignment explanation
Indices: 78532093--78532401 Score: 260
Period size: 94 Copynumber: 3.3 Consensus size: 93
78532083 ATGCCGATCC
* * *
78532093 CATGTCCCAGACATAGTCTTACACTGGCTCACATGTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATAGTCTTACACTAGCTCTC-T-TCAAGCCGATG-CATGTCCCAGACATGGTC
* ** *
78532158 TTACACTGGCTCTCACATATTCG-TCCCAATG
63 TTACACTGGCTCT-ACATAATCGAGGCCGATG
* * * * ** * *
78532189 CCATGTCCCAAACATGGTCTCACACT-GACACATCTTGTAGCCGATGCATGTTCTAGACAT-GTC
1 -CATGTCCCAGACATAGTCTTACACTAG-CTC-TCTTCAAGCCGATGCATGTCCCAGACATGGTC
*
78532252 TTACACTGGCT-TACAT-CTCGAGGCCGATG
63 TTACACTGGCTCTACATAATCGAGGCCGATG
* *
78532281 CATGTCCCATACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGTCATGTCCCAAACATGGT
1 CATGTCCCAGACATAGTCTTACACTAGCTCTC-T-TCAA-GCCGATG-CATGTCCCAGACATGGT
* *
78532345 CTTACATTGGCTCT-CATAAT--ATGGCTGATG
62 CTTACACTGGCTCTACATAATCGA-GGCCGATG
78532375 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATAGTCTTACACTAGC
78532402 GCACAAATAA
Statistics
Matches: 174, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
89 2 0.01
90 12 0.07
91 19 0.11
92 16 0.09
93 13 0.07
94 63 0.36
95 14 0.08
96 9 0.05
97 25 0.14
98 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATAGTCTTACACTAGCTCTCTTCAAGCCGATGCATGTCCCAGACATGGTCTTA
CACTGGCTCTACATAATCGAGGCCGATG
Found at i:78543489 original size:40 final size:40
Alignment explanation
Indices: 78543389--78543560 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
78543379 GCTCCTCGTT
* * *
78543389 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
78543429 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
78543468 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
78543508 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
78543548 CAAATGCCTTCGG
1 CAAATGCCTTCGG
78543561 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:78547177 original size:22 final size:22
Alignment explanation
Indices: 78547152--78547201 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
78547142 CCAATCCAAA
78547152 CATTCAAAATAGACAAATT-CAT
1 CATTCAAAATAGAC-AATTCCAT
78547174 CATTCAAAATAGACAATTCCAT
1 CATTCAAAATAGACAATTCCAT
78547196 CATTCA
1 CATTCA
78547202 TCATGGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (22 bp):
CATTCAAAATAGACAATTCCAT
Found at i:78548659 original size:20 final size:20
Alignment explanation
Indices: 78548630--78548674 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
78548620 AGCACATGTA
*
78548630 TTCATAAAATTTCATAATTT
1 TTCATAAAATTTCATAACTT
* *
78548650 TTCATCAAATTTTATAACTT
1 TTCATAAAATTTCATAACTT
78548670 TTCAT
1 TTCAT
78548675 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTCATAACTT
Found at i:78550058 original size:23 final size:24
Alignment explanation
Indices: 78550019--78550063 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
78550009 AAAAAAAATC
78550019 TGTTATTTGTTTTTGTTATTTTAA
1 TGTTATTTGTTTTTGTTATTTTAA
*
78550043 TGTTATTT-TTTTTGTTCTTTT
1 TGTTATTTGTTTTTGTTATTTT
78550064 CTCCTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (24 bp):
TGTTATTTGTTTTTGTTATTTTAA
Found at i:78550948 original size:29 final size:29
Alignment explanation
Indices: 78550886--78550946 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
78550876 AAAATTATTA
78550886 TTTTAGAATATTTTTAAAATTTTAACATT
1 TTTTAGAATATTTTTAAAATTTTAACATT
* *
78550915 TTTTA-AATATTCTTTAGAATTTTTA-ATT
1 TTTTAGAATATT-TTTAAAATTTTAACATT
78550943 TTTT
1 TTTT
78550947 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTTAGAATATTTTTAAAATTTTAACATT
Found at i:78554845 original size:6 final size:7
Alignment explanation
Indices: 78554819--78554848 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
78554809 TAAATATAAT
78554819 TTTTATA
1 TTTTATA
78554826 TTTTATA
1 TTTTATA
78554833 TTTTATA
1 TTTTATA
78554840 TTTATATA
1 TTT-TATA
78554848 T
1 T
78554849 AAATATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTATA
Found at i:78555009 original size:6 final size:6
Alignment explanation
Indices: 78554998--78555037 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
78554988 TCGATTGGTT
78554998 TTTTTG TTTTTG TTTTTG --TTT- TTTTTG TTTTTG TTTTTG T
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T
78555038 GATTGGAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 3 0.10
5 3 0.10
6 25 0.81
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:78555014 original size:15 final size:15
Alignment explanation
Indices: 78554995--78555035 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
78554985 TATTCGATTG
*
78554995 GTTTTT-TTGTTTTT
1 GTTTTTGTTTTTTTT
78555009 GTTTTTGTTTTTTTT
1 GTTTTTGTTTTTTTT
78555024 GTTTTTGTTTTT
1 GTTTTTGTTTTT
78555036 GTGATTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (15 bp):
GTTTTTGTTTTTTTT
Found at i:78555022 original size:21 final size:21
Alignment explanation
Indices: 78554996--78555037 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
78554986 ATTCGATTGG
78554996 TTTTTTTGTTTTTGTTTTTGT
1 TTTTTTTGTTTTTGTTTTTGT
78555017 TTTTTTTGTTTTTGTTTTTGT
1 TTTTTTTGTTTTTGTTTTTGT
78555038 GATTGGAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (21 bp):
TTTTTTTGTTTTTGTTTTTGT
Found at i:78555878 original size:40 final size:40
Alignment explanation
Indices: 78555828--78555903 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
78555818 ACACACCATG
* * *
78555828 TGGGTATAAAATCAACCCACCCATCCCTATACACCAAATA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAATA
* *
78555868 TGGGGATAAAATCGACCCATCCAACCCTACACACCA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCA
78555904 TAAAGTATCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.38, C:0.34, G:0.11, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAATA
Found at i:78568899 original size:34 final size:33
Alignment explanation
Indices: 78568844--78568911 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
78568834 TTGCATTTTG
78568844 GATACTATACTGAAATAGGCTAAGGCCCACATT
1 GATACTATACTGAAATAGGCTAAGGCCCACATT
* * *
78568877 GATACTATTACTGTATTGGGCTAAGGCCCACATT
1 GATACTA-TACTGAAATAGGCTAAGGCCCACATT
78568911 G
1 G
78568912 TTATTGCGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (33 bp):
GATACTATACTGAAATAGGCTAAGGCCCACATT
Found at i:78568931 original size:34 final size:34
Alignment explanation
Indices: 78568844--78568940 Score: 90
Period size: 34 Copynumber: 2.9 Consensus size: 34
78568834 TTGCATTTTG
* * *
78568844 GATACTA-TACTGAAATAGGCTAAGGCCCACATT
1 GATACTACGACTGATATGGGCTAAGGCCCACATT
**
78568877 GATACTATTACTG-TATTGGGCTAAGGCCCACATT
1 GATACTACGACTGATA-TGGGCTAAGGCCCACATT
* * * *
78568911 GTTATTGCGACTGATATGGGCTTAGGCCCA
1 GATACTACGACTGATATGGGCTAAGGCCCA
78568941 GAATGATCTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 8 0.15
34 43 0.81
35 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (34 bp):
GATACTACGACTGATATGGGCTAAGGCCCACATT
Found at i:78573096 original size:40 final size:44
Alignment explanation
Indices: 78573010--78573171 Score: 126
Period size: 40 Copynumber: 3.9 Consensus size: 44
78573000 CAACTACATT
* * *
78573010 TGGCACTAAGTGTGCG-ATTCA-AAATAGCTTCGGCT-ATA-A-A
1 TGGCACTAAGTGTGCGAAAT-AGATATAGCTTTGGCTAATATAGA
* *
78573050 TAGCACTAAGTGTGCGAAATAG-TATAGCTTTGGCT-GTAT-GA
1 TGGCACTAAGTGTGCGAAATAGATATAGCTTTGGCTAATATAGA
* * * * * *
78573091 -GGCACTAAGTGTACGATATAGAGATAGTTTTGGTTAATTTAGA
1 TGGCACTAAGTGTGCGAAATAGATATAGCTTTGGCTAATATAGA
* * *
78573134 TGGCACTAAGTGTGCGAAATCGTTCTAGCTTTGGCTAA
1 TGGCACTAAGTGTGCGAAATAGATATAGCTTTGGCTAA
78573172 ACCTTAAAGC
Statistics
Matches: 93, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
40 47 0.51
41 13 0.14
42 2 0.02
43 2 0.02
44 29 0.31
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGAAATAGATATAGCTTTGGCTAATATAGA
Found at i:78581871 original size:16 final size:16
Alignment explanation
Indices: 78581846--78581876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78581836 GGCAAATCCC
78581846 GAAATATCGAAAAGCA
1 GAAATATCGAAAAGCA
*
78581862 GAAATGTCGAAAAGC
1 GAAATATCGAAAAGC
78581877 TAAAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.23, T:0.13
Consensus pattern (16 bp):
GAAATATCGAAAAGCA
Found at i:78582134 original size:29 final size:29
Alignment explanation
Indices: 78582092--78582215 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
78582082 GAAAGCATGA
*
78582092 ATATGAATGTGATTTGGGCCTAATAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
78582121 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
78582150 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
78582179 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
78582207 A-ATGCATGT
1 ATATGAATGT
78582216 ATGTAAACTT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 6 0.07
28 16 0.18
29 68 0.76
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:78592181 original size:49 final size:50
Alignment explanation
Indices: 78591941--78592173 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
78591931 ATCTATTGTG
* * *
78591941 AGGTCACGTATGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
78591991 -GGTCTCATGTGTAGTAATAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
78592041 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
78592091 AGGTCACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
78592141 -GCTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
78592174 TGCGTACCAA
Statistics
Matches: 152, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 68 0.45
50 47 0.31
51 37 0.24
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:78605086 original size:47 final size:47
Alignment explanation
Indices: 78605017--78605235 Score: 284
Period size: 47 Copynumber: 4.7 Consensus size: 47
78605007 CGCCCATAAG
* *
78605017 CGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATTTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* * ** *
78605064 CGAACTTGGAATCAACTCAACGAGTTCGGATG--T--TCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA
* *
78605109 GTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
*
78605157 CGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
*
78605204 CGAACTCGGACTCAACTCAACGAGTTCAGATG
1 CGAACTCGGACTCAACTCAACGAGTTCGGATG
78605236 TTCGCATCCA
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 4 0.03
45 3 0.02
46 28 0.19
47 105 0.71
48 3 0.02
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:78605172 original size:93 final size:93
Alignment explanation
Indices: 78605010--78605230 Score: 295
Period size: 93 Copynumber: 2.4 Consensus size: 93
78605000 TGTAACCCGC
* *
78605010 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATTTCACGAACTTGGAA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATCTCACGAACTCGGAA
78605075 TCAACTCAACGAGTTCGGATGTTCGCAT
66 TCAACTCAACGAGTTCGGATGTTCGCAT
* * * *
78605103 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGAC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATCTCACGAACTCGGAA
* **
78605168 TCAACTCAATGAGTTCGGATGCCTAGTTACAT
66 TCAACTCAACGAGTTCGGATG--T--TCGCAT
*
78605200 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
78605231 AGATGTTCGC
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
93 79 0.71
94 25 0.22
95 3 0.03
96 1 0.01
97 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (93 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATCTCACGAACTCGGAA
TCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:78605219 original size:140 final size:140
Alignment explanation
Indices: 78605017--78605283 Score: 462
Period size: 140 Copynumber: 1.9 Consensus size: 140
78605007 CGCCCATAAG
* *
78605017 CGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATTTCACGAACTTGGAATCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATCTCACGAACTCGGAATCAACTC
* *
78605082 AACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAG
66 AACGAGTTCAGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAATAAGTTCGGATGCCTAG
78605147 TTACATCTCA
131 TTACATCTCA
* * *
78605157 CGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATCTCACGAACTCGGAATCAACTC
*
78605222 AACGAGTTCAGATGTTCGCATCCATAAGTGAACTCGGATTCAACTCAATAAGTTCGGATGCC
66 AACGAGTTCAGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAATAAGTTCGGATGCC
78605284 CAAATATCCG
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 119 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (140 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTTACATCTCACGAACTCGGAATCAACTC
AACGAGTTCAGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAATAAGTTCGGATGCCTAG
TTACATCTCA
Found at i:78611366 original size:27 final size:27
Alignment explanation
Indices: 78611335--78611512 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78611325 TAAATTGTAC
78611335 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78611362 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78611388 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78611416 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78611444 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78611471 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78611498 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78611513 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78611449 original size:82 final size:81
Alignment explanation
Indices: 78611336--78611491 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78611326 AAATTGTACA
* *
78611336 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78611400 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78611417 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78611482 TGCGAGTTGA
65 TGCGAATTGA
78611492 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78611503 original size:82 final size:81
Alignment explanation
Indices: 78611332--78611512 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78611322 GATTAAATTG
* *
78611332 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78611397 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78611413 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78611477 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78611495 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78611513 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78620424 original size:20 final size:20
Alignment explanation
Indices: 78620388--78620426 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
78620378 AAACGACTAT
*
78620388 TCGATCACTTTCGAATTTCC
1 TCGATCACTTTCCAATTTCC
78620408 TCGATCTAC-TTCCAATTTC
1 TCGATC-ACTTTCCAATTTC
78620427 TTTCGCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.41
Consensus pattern (20 bp):
TCGATCACTTTCCAATTTCC
Found at i:78623493 original size:29 final size:29
Alignment explanation
Indices: 78623451--78623509 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
78623441 AACCATCTGT
*
78623451 AATAACCAGTGAGTCCCAGAAAACTTCAG
1 AATAACCAGCGAGTCCCAGAAAACTTCAG
78623480 AATAACCAGCGAGTCCCAGAAAACTTCAG
1 AATAACCAGCGAGTCCCAGAAAACTTCAG
78623509 A
1 A
78623510 CTTCTAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (29 bp):
AATAACCAGCGAGTCCCAGAAAACTTCAG
Found at i:78633215 original size:46 final size:46
Alignment explanation
Indices: 78633162--78633274 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 46
78633152 TGTGTGTCAA
** *
78633162 TGTAAGACATGTCTGGGACATGCAGAGACCA-CATTATTAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCAGAGA-CATCAAGATGAGAGCTAG
* * * ** *
78633208 TGTAAGACATGTCTAGAACAGGCATCGACATTAAGATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCAGAGACATCAAGATGAGAGCTAG
78633254 TGTAAGACATGTCTGGGACAT
1 TGTAAGACATGTCTGGGACAT
78633275 ACATCAGCCT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
45 2 0.04
46 52 0.96
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCAGAGACATCAAGATGAGAGCTAG
Found at i:78633399 original size:27 final size:27
Alignment explanation
Indices: 78633348--78633399 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
78633338 TGTGTCAGTG
***
78633348 TAAGACCTGTCTGGGACATGGCATCAA
1 TAAGACCTGTCTGGGACACAACATCAA
78633375 TAAGACCTGTCTGGGACACAACATC
1 TAAGACCTGTCTGGGACACAACATC
78633400 GACCTCGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (27 bp):
TAAGACCTGTCTGGGACACAACATCAA
Found at i:78645734 original size:66 final size:67
Alignment explanation
Indices: 78645600--78645777 Score: 172
Period size: 66 Copynumber: 2.6 Consensus size: 67
78645590 CACTTAGTAC
* * *
78645600 CACTCATGCGACCTAGC--CGATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGG
1 CACTCATGCGACCTAGCTACGATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCG
78645663 AAT
65 AAT
78645666 CACTCATGCGACCTAGCTAC-ATTTATCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-
1 CACTCATGCGACCTAGCTACGATTTATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACT
*
78645727 CGTAT
63 CGAAT
* * *
78645732 CACACATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CACTCATGCGACCTAGCTACGAT-T--TATCTCGTAGCTC-TCTTGT
78645778 ACACATAATG
Statistics
Matches: 96, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
66 38 0.40
67 11 0.11
68 16 0.17
69 26 0.27
70 5 0.05
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (67 bp):
CACTCATGCGACCTAGCTACGATTTATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGA
AT
Found at i:78647799 original size:7 final size:7
Alignment explanation
Indices: 78647783--78647820 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
78647773 GATGACATCT
78647783 TTTTCT-
1 TTTTCTA
78647789 TTTTCTA
1 TTTTCTA
78647796 TTTTCTA
1 TTTTCTA
78647803 TTTTCTA
1 TTTTCTA
78647810 TTTTCTA
1 TTTTCTA
78647817 TTTT
1 TTTT
78647821 AGTCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCTA
Found at i:78652943 original size:41 final size:41
Alignment explanation
Indices: 78652890--78653120 Score: 241
Period size: 41 Copynumber: 5.7 Consensus size: 41
78652880 CGCTGACTCA
* * * *
78652890 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
* * * * * * *
78652931 GAAGGCCCTTCGAAACTAGGTTCAG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
* * * *
78652971 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
* * * * * * *
78653012 GAAGGCCCTTCGAAACTAGGTTCAG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
*
78653052 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
78653093 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCAGATT
78653121 TAAAGCCCGA
Statistics
Matches: 146, Mismatches: 42, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
40 58 0.40
41 88 0.60
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
Found at i:78653105 original size:81 final size:81
Alignment explanation
Indices: 78652890--78653085 Score: 392
Period size: 81 Copynumber: 2.4 Consensus size: 81
78652880 CGCTGACTCA
78652890 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCCGAAGGCCCTTCGAAACTAGGTTCA
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCCGAAGGCCCTTCGAAACTAGGTTCA
78652955 GTTATGACACTGGCTT
66 GTTATGACACTGGCTT
78652971 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCCGAAGGCCCTTCGAAACTAGGTTCA
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCCGAAGGCCCTTCGAAACTAGGTTCA
78653036 GTTATGACACTGGCTT
66 GTTATGACACTGGCTT
78653052 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACA
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACA
78653086 CTGGCTCAAA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 115 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (81 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTCGCCCGAAGGCCCTTCGAAACTAGGTTCA
GTTATGACACTGGCTT
Done.