Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 123 of 211
Found at i:38930960 original size:59 final size:60
Alignment explanation
Indices: 38930889--38931005 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 60
38930879 ATCAGTTTAA
* * * *
38930889 TATTAAATTAATATAATATTTATC-AATATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAATATTTATCTAAGATAAATATTAAAGTAAATTTAATATTAAATCT
*
38930948 TATTAAAATAATATAATGTTTATCTATAAGATAAATATTAAAGTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTATC--TAAGATAAATATTAAAGTAAATTTAATATTAA
38931006 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
62 28 0.56
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (60 bp):
TATTAAAATAATATAATATTTATCTAAGATAAATATTAAAGTAAATTTAATATTAAATCT
Found at i:38934608 original size:47 final size:47
Alignment explanation
Indices: 38934538--38934644 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
38934528 TCTGTTCAAT
* * * *
38934538 CAGTGGTTTATGCACAACGTATTTTA-TTCAGTAGTCATCTGCTCGAC
1 CAGTGGTTTATCCACAACATATTTTAGTT-AGCAGTCATCTACTCGAC
* * * *
38934585 TAGTGGTTTATCCATAATATATTTTAGTTGGCAGTCATCTACTCGAC
1 CAGTGGTTTATCCACAACATATTTTAGTTAGCAGTCATCTACTCGAC
*
38934632 CAGTGGTTCATCC
1 CAGTGGTTTATCC
38934645 GTAACGTATT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
47 47 0.96
48 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (47 bp):
CAGTGGTTTATCCACAACATATTTTAGTTAGCAGTCATCTACTCGAC
Found at i:38935563 original size:20 final size:23
Alignment explanation
Indices: 38935526--38935567 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
38935516 TCGTTAGCTT
38935526 TTCTAAAAATAGACTAAATGTTC
1 TTCTAAAAATAGACTAAATGTTC
38935549 TTCT-AAAATA-A-TAAATGTT
1 TTCTAAAAATAGACTAAATGTT
38935568 ATAAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 6 0.32
23 4 0.21
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (23 bp):
TTCTAAAAATAGACTAAATGTTC
Found at i:38941813 original size:22 final size:23
Alignment explanation
Indices: 38941774--38941817 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
38941764 TTACCAACTT
*
38941774 TTCTAAAAATAGACTAAATGTTC
1 TTCTAAAAATAGAATAAATGTTC
38941797 TTCTAAAAATA-AATAAATGTT
1 TTCTAAAAATAGAATAAATGTT
38941818 TTAAATTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (23 bp):
TTCTAAAAATAGAATAAATGTTC
Found at i:38947212 original size:25 final size:25
Alignment explanation
Indices: 38947160--38947209 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
38947150 TGTTTACTTC
* * *
38947160 TATACATTTGGTTGAATGTTGGTGG
1 TATACATTTGGCTAAATGTTAGTGG
38947185 TATACATTTCGGCTAAATGTTAGTG
1 TATACATTT-GGCTAAATGTTAGTG
38947210 TATTTCGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (25 bp):
TATACATTTGGCTAAATGTTAGTGG
Found at i:38947475 original size:36 final size:37
Alignment explanation
Indices: 38947387--38947477 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 37
38947377 TGGACATGTT
* *
38947387 TATCCCAACATTTTTTAAAGGTTTCCTTAGACAAGGTC
1 TATCCCAACCTTTTTT-AAGGTTGCCTTAGACAAGGTC
* * *
38947425 TACCCCAACC-TTTTTAAGGTTGCCTTAGAC-GGGTG
1 TATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGGTC
*
38947460 TATCCCATCCTTTTTTAA
1 TATCCCAACCTTTTTTAA
38947478 AGTTTAGCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
35 11 0.24
36 21 0.47
37 5 0.11
38 8 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (37 bp):
TATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGGTC
Found at i:38949714 original size:131 final size:131
Alignment explanation
Indices: 38949480--38949736 Score: 444
Period size: 131 Copynumber: 2.0 Consensus size: 131
38949470 AACATTACTC
* *
38949480 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTGTCACTACATTGATTTTTCCAGAGTAGTAT
1 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGAGTTTTCCAGAGTAGTAT
38949545 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACC-TCTGTTGCCTCAGGTTCAATTTGC
66 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTTCT-TTGCCTCAGGTTCAATTTGC
38949609 TT
130 TT
* * *
38949611 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGGGTTTTCCGGGGTAGTAT
1 TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGAGTTTTCCAGAGTAGTAT
*
38949676 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTTCTTTGCCTCAGGTTTAATT
66 TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTTCTTTGCCTCAGGTTCAATT
38949737 CTTTTTAGGT
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
131 116 0.97
132 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (131 bp):
TTAAATTAGTCATATGCTTCTTACTTAGAGCGTCTATCACTACATTGAGTTTTCCAGAGTAGTAT
TCAATTACACAATCATAATCCTTTAATAGTTCTATCCACCTTCTTTGCCTCAGGTTCAATTTGCT
T
Found at i:38952096 original size:13 final size:14
Alignment explanation
Indices: 38952066--38952106 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
38952056 AATTACTATC
38952066 ATATA-ATAATAAT
1 ATATATATAATAAT
*
38952079 TTATATATAA-AAT
1 ATATATATAATAAT
38952092 ATATATATTAATAAT
1 ATATATA-TAATAAT
38952107 GTATGAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 13 0.57
14 7 0.30
15 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATATAATAAT
Found at i:38952300 original size:45 final size:47
Alignment explanation
Indices: 38952246--38952335 Score: 130
Period size: 45 Copynumber: 1.9 Consensus size: 47
38952236 ACAAAAAAAA
*
38952246 ATAGTACATGATAAA-TCTAAATAATG-ATATGATAAGTTTAAAATT
1 ATAGTACATGATAAATTCTAAATAATGAATATGATAAATTTAAAATT
* *
38952291 ATAGTACATGATAAATTTTAAATGATGATATATGATAAATTTAAA
1 ATAGTACATGATAAATTCTAAATAATGA-ATATGATAAATTTAAA
38952336 TAGTACTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 15 0.38
46 9 0.23
48 15 0.38
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (47 bp):
ATAGTACATGATAAATTCTAAATAATGAATATGATAAATTTAAAATT
Found at i:38952301 original size:24 final size:23
Alignment explanation
Indices: 38952241--38952401 Score: 85
Period size: 24 Copynumber: 7.2 Consensus size: 23
38952231 TATGCACAAA
* *
38952241 AAAAAATAGTACATGATAAATCT
1 AAAATATAGTACATGATAAATTT
* *
38952264 -AAATA-A-TGATATGATAAGTTT
1 AAAATATAGT-ACATGATAAATTT
38952285 AAAATTATAGTACATGATAAATTT
1 AAAA-TATAGTACATGATAAATTT
* *
38952309 TAAATGAT-GATATATGATAAATTT
1 AAAAT-ATAG-TACATGATAAATTT
38952333 --AA-ATAGTACTTATGAT-AATTT
1 AAAATATAGTAC--ATGATAAATTT
*
38952354 AAAATAATAGTATATGAT--A-TT
1 AAAAT-ATAGTACATGATAAATTT
* *
38952375 AAAATAAAACTA-ATGATAAATTT
1 AAAAT-ATAGTACATGATAAATTT
38952398 AAAA
1 AAAA
38952402 CAATGTTAAG
Statistics
Matches: 109, Mismatches: 12, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
20 10 0.09
21 29 0.27
22 16 0.15
23 17 0.16
24 30 0.28
25 7 0.06
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.35
Consensus pattern (23 bp):
AAAATATAGTACATGATAAATTT
Found at i:38952349 original size:22 final size:21
Alignment explanation
Indices: 38952321--38952400 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
38952311 AATGATGATA
*
38952321 TATGATAAATTTAAATAGTACT
1 TATGAT-AATTTAAATAATACT
*
38952343 TATGATAATTTAAAATAATAGT
1 TATGATAATTT-AAATAATACT
* *
38952365 ATATGAT-ATTAAAATAAAACT
1 -TATGATAATTTAAATAATACT
*
38952386 AATGATAAATTTAAA
1 TATGAT-AATTTAAA
38952401 ACAATGTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.11
21 13 0.28
22 23 0.49
23 6 0.13
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
TATGATAATTTAAATAATACT
Found at i:38954297 original size:42 final size:43
Alignment explanation
Indices: 38954170--38954341 Score: 122
Period size: 43 Copynumber: 4.0 Consensus size: 43
38954160 ACAGGAAATC
* * * * *
38954170 CGATATGTGATATCGTGTAAGACAAC-GTCTGGGACATTGGCAT
1 CGATATATGATTTCGTGTAAGAC-CCTGTCTGGGATAGTGGCAT
* * * * *
38954213 TGACT-TGA-GATTTACGTGTAAGACCATGTCCGGGACATTGGCAT
1 CGA-TAT-ATGATTT-CGTGTAAGACCCTGTCTGGGATAGTGGCAT
38954257 C-ATATATGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCAT
1 CGATATATGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCAT
* * * *
38954299 CGTTATTTGATTACATGTAAGACCAC-GTCTGGGAT-GTTGGCAT
1 CGATATATGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCAT
38954342 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 30 0.29
43 47 0.45
44 28 0.27
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATATGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCAT
Found at i:38954321 original size:43 final size:42
Alignment explanation
Indices: 38954224--38954341 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
38954214 GACTTGAGAT
* * * *
38954224 TTACGTGTAAGACCATGTCCGGGACATTGGCATCATATATGA
1 TTACGTGTAAGACCCTGTCTGGGATAGTGGCATCATATATGA
* * *
38954266 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGATAGTGGCATC-ATATATGA
*
38954309 TTACATGTAAGACCAC-GTCTGGGAT-GTTGGCAT
1 TTACGTGTAAGACC-CTGTCTGGGATAG-TGGCAT
38954342 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGATAGTGGCATCATATATGA
Found at i:38956356 original size:18 final size:19
Alignment explanation
Indices: 38956324--38956359 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
38956314 AATTTGTTCA
38956324 TTTTGATACTTATATTTTC
1 TTTTGATACTTATATTTTC
38956343 TTTTGATA-TTATATTTT
1 TTTTGATACTTATATTTT
38956360 GATATTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTGATACTTATATTTTC
Found at i:38957774 original size:30 final size:30
Alignment explanation
Indices: 38957733--38957791 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
38957723 TTTTTAAAAA
*
38957733 AAGCTCCGCTAATGCTCAGATCTTTAGCGG
1 AAGCGCCGCTAATGCTCAGATCTTTAGCGG
38957763 AAGCGCCGCTAATGCTCAGATCTTTAGCG
1 AAGCGCCGCTAATGCTCAGATCTTTAGCG
38957792 ACGTTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (30 bp):
AAGCGCCGCTAATGCTCAGATCTTTAGCGG
Found at i:38957820 original size:41 final size:41
Alignment explanation
Indices: 38957762--38958044 Score: 361
Period size: 41 Copynumber: 6.9 Consensus size: 41
38957752 ATCTTTAGCG
** * *
38957762 GAAGCGCCGCTAATGCTCAGATCTTTAGCGACGTTTTTGAA
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
* * * *
38957803 AAAGCGTCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTCAA
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
* *
38957844 GAAGTGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAA
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
* * * *
38957885 GAAGCACCGCCAATGCTCAGGTCTTTAGCGGCG-TTTTAAA
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
* * * * *
38957925 GAAGCGACACTAATGCTCGGGGATTTAGCGGCGTTTTCCAA
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
*
38957966 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTCCAA
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
* *
38958007 GAAGGGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTT
1 GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT
38958045 GAAAAAACAC
Statistics
Matches: 207, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 32 0.15
41 175 0.85
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (41 bp):
GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTCAA
Found at i:38957980 original size:122 final size:122
Alignment explanation
Indices: 38957762--38958050 Score: 409
Period size: 122 Copynumber: 2.4 Consensus size: 122
38957752 ATCTTTAGCG
* * * * *
38957762 GAAGCGCCGCTAATGCTCAGATCTTTAGCGACGTTTTTGAAAAAGCGTCGCTAATGCTCGGGGCT
1 GAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCG-TTTTGAAAAAGCGACACTAATGCTCGGGGAT
* * * *
38957827 TTAGCAGCGTTTTTCAAGAAGTGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAA
65 TTAGCAGCGTTTTCCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTCCAA
* *
38957885 GAAGCACCGCCAATGCTCAGGTCTTTAGCGGCGTTTT-AAAGAAGCGACACTAATGCTCGGGGAT
1 GAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTGAAA-AAGCGACACTAATGCTCGGGGAT
*
38957949 TTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTCCAA
65 TTAGCAGCGTTTTCCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTCCAA
* * *
38958007 GAAGGGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGAAAAA
1 GAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCG-TTTTGAAAAA
38958051 ACACCTCAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
121 3 0.02
122 105 0.72
123 35 0.24
124 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (122 bp):
GAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTGAAAAAGCGACACTAATGCTCGGGGATT
TAGCAGCGTTTTCCAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTCCAA
Found at i:38959753 original size:145 final size:147
Alignment explanation
Indices: 38959580--38960164 Score: 854
Period size: 145 Copynumber: 4.0 Consensus size: 147
38959570 GATTTTTAGC
*
38959580 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGT
1 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGC
* *
38959645 CACAAAAGGTAAGTAATAGCGGCATTTTTATAAAAAACGCCAC-AAAAAT-ATTTTACTTTAAAA
66 CACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAA
38959708 AAATAGCGCCATTTTAT
131 AAATAGCGCCATTTTAT
*
38959725 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGT
1 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGC
*
38959790 CACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCAC-AAAAAT-ATTTTACTGTAAAA
66 CACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAA
38959853 AAATAGCGCCATTTTAT
131 AAATAGCGCCATTTTAT
* * ** ** *
38959870 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAAATTTTTATGGTTTTTTTATGAAAAAAGC
1 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGC
* * * * *
38959935 CGCAAAAAGTAAGCAATAGCGGCGTTTTTATGAAAAATGCCACAAAAAATAATTTTACTTCAAAA
66 CACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAA
*
38960000 AAATAGCGTCATTTTAT
131 AAATAGCGCCATTTTAT
* * * * *
38960017 ATAGCAAAACAGTGTCATTTTATTTCAAATGAAATAATTTTTTGCAGCGTTTTTATAAAAAACGC
1 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGC
* * * ** * * *
38960082 CAGAAAAGATAAGTAATAGCGGCGGTTTTATAAAAAAAGCCACAAAAAATAATTTTAATTTTAAA
66 CACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAA
*
38960147 AAATAGCACCATTTTAT
131 AAATAGCGCCATTTTAT
38960164 A
1 A
38960165 GAATCCCCTC
Statistics
Matches: 397, Mismatches: 41, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
145 238 0.60
146 6 0.02
147 153 0.39
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (147 bp):
ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGC
CACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAA
AAATAGCGCCATTTTAT
Found at i:38960102 original size:292 final size:292
Alignment explanation
Indices: 38959580--38960164 Score: 850
Period size: 292 Copynumber: 2.0 Consensus size: 292
38959570 GATTTTTAGC
* * * *
38959580 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTATGAAAAACGT
1 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAAATTTTTACGGCGTTTTTATGAAAAAAGC
* * *
38959645 CACAAAAGGTAAGTAATAGCGGCATTTTTATAAAAAACGCCACAAAAATATTTTACTTTAAAAAA
66 CACAAAAAGTAAGCAATAGCGGCATTTTTATAAAAAACGCCACAAAAATATTTTACTTCAAAAAA
* *
38959710 ATAGCGCCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGT
131 ATAGCGCCATTTTATATAGCAAAACAATGTCATTTTATTCCAAATGAAATAATTTTTTGCAGCGT
* * * * *
38959775 TTTTATGAAAAACGTCACAAAAGGTAAGCAATAGCGGCATTTTTATAAAAAATGCCAC-AAAAAT
196 TTTTATAAAAAACGCCACAAAAGATAAGCAATAGCGGCAGTTTTATAAAAAAAGCCACAAAAAAT
* *
38959839 -ATTTTACTGTAAAAAAATAGCGCCATTTTAT
261 AATTTTAATGTAAAAAAATAGCACCATTTTAT
* * **
38959870 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAAATTTTTATGGTTTTTTTATGAAAAAAGC
1 ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAAATTTTTACGGCGTTTTTATGAAAAAAGC
* * * *
38959935 CGCAAAAAGTAAGCAATAGCGGCGTTTTTATGAAAAATGCCACAAAAAATAATTTTACTTCAAAA
66 CACAAAAAGTAAGCAATAGCGGCATTTTTATAAAAAACGCCAC-AAAAAT-ATTTTACTTCAAAA
* * *
38960000 AAATAGCGTCATTTTATATAGCAAAACAGTGTCATTTTATTTCAAATGAAATAATTTTTTGCAGC
129 AAATAGCGCCATTTTATATAGCAAAACAATGTCATTTTATTCCAAATGAAATAATTTTTTGCAGC
* * *
38960065 GTTTTTATAAAAAACGCCAGAAAAGATAAGTAATAGCGGCGGTTTTATAAAAAAAGCCACAAAAA
194 GTTTTTATAAAAAACGCCACAAAAGATAAGCAATAGCGGCAGTTTTATAAAAAAAGCCACAAAAA
* *
38960130 ATAATTTTAATTTTAAAAAATAGCACCATTTTAT
259 ATAATTTTAATGTAAAAAAATAGCACCATTTTAT
38960164 A
1 A
38960165 GAATCCCCTC
Statistics
Matches: 259, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
290 94 0.36
291 6 0.02
292 125 0.48
293 6 0.02
294 28 0.11
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (292 bp):
ATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAAATTTTTACGGCGTTTTTATGAAAAAAGC
CACAAAAAGTAAGCAATAGCGGCATTTTTATAAAAAACGCCACAAAAATATTTTACTTCAAAAAA
ATAGCGCCATTTTATATAGCAAAACAATGTCATTTTATTCCAAATGAAATAATTTTTTGCAGCGT
TTTTATAAAAAACGCCACAAAAGATAAGCAATAGCGGCAGTTTTATAAAAAAAGCCACAAAAAAT
AATTTTAATGTAAAAAAATAGCACCATTTTAT
Found at i:38965924 original size:43 final size:42
Alignment explanation
Indices: 38965876--38965992 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
38965866 ATCTTATAAT
* * * *
38965876 GGCGTTTGTGGTAGAAGCGTCGCTAAAGGTCTTGTTCTTTAGC
1 GGCGTTTGTGG-AGAAGCGCCGCTAAAGGTCATGATCTATAGC
* **
38965919 GGCGTTTGTGAGAGAAGCGCCGTTAAAGACCATGATCTATAGC
1 GGCGTTTGTG-GAGAAGCGCCGCTAAAGGTCATGATCTATAGC
* *
38965962 GGTGTTTGTGGGATAAGCGCCGCTAAAGGTC
1 GGCGTTTGT-GGAGAAGCGCCGCTAAAGGTC
38965993 CGGTGTTTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 58 0.97
44 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.28
Consensus pattern (42 bp):
GGCGTTTGTGGAGAAGCGCCGCTAAAGGTCATGATCTATAGC
Found at i:38966136 original size:22 final size:22
Alignment explanation
Indices: 38966106--38966148 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38966096 CAGTGCTTCC
* * *
38966106 AAAAGCGCCGTTAAAGGCCTAA
1 AAAAACGCCGCTAAAAGCCTAA
38966128 AAAAACGCCGCTAAAAGCCTA
1 AAAAACGCCGCTAAAAGCCTA
38966149 TTTTGGTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAGCCTAA
Found at i:38970267 original size:68 final size:69
Alignment explanation
Indices: 38970178--38970318 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 69
38970168 TATTATGAAT
*
38970178 TAACGTGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTA-AATGTGATAAA
1 TAACATGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
*
38970242 TTGA
66 TCGA
* *
38970246 TAACATGTCAAATCAATTTCTCATATATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
1 TAACATGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
38970311 TCGA
66 TCGA
38970315 TAAC
1 TAAC
38970319 TTAATGGTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
68 50 0.74
69 18 0.26
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (69 bp):
TAACATGTCAAATCAACTTCTCATACATCTTCAATTGAAAATTAAAGTGATTATAATGTGATAAA
TCGA
Found at i:38980487 original size:101 final size:102
Alignment explanation
Indices: 38980375--38980561 Score: 313
Period size: 103 Copynumber: 1.8 Consensus size: 102
38980365 ACAGGGCTGA
* * *
38980375 TTTTGTTGATGATATGAAGAGCACTTCAAGGTA-TTTTTTCTCTCTAGGCTTAAGAGTGTTTTGT
1 TTTTGTTGATGATATAAAGAGCACTTCAAGGTATTTTTTTCTCTCTAGGCTCAAGAGTGTTTAGT
*
38980439 TGGAGCTCGAAGAAGCAAAAAACAGTGGATGGGCTAG
66 TGGAGCTCAAAGAAGCAAAAAACAGTGGATGGGCTAG
*
38980476 TTTTGTTGATGATATAAAGAGCACTTCAGGGTATTTTTTTTCTCTCTAGGCTCAAGAGTGTTTAG
1 TTTTGTTGATGATATAAAGAGCACTTCAAGGTA-TTTTTTTCTCTCTAGGCTCAAGAGTGTTTAG
38980541 TTGGAGCTCAAAGAAGCAAAA
65 TTGGAGCTCAAAGAAGCAAAA
38980562 GATAGTGGCA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 31 0.39
103 48 0.61
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (102 bp):
TTTTGTTGATGATATAAAGAGCACTTCAAGGTATTTTTTTCTCTCTAGGCTCAAGAGTGTTTAGT
TGGAGCTCAAAGAAGCAAAAAACAGTGGATGGGCTAG
Found at i:38982120 original size:6 final size:6
Alignment explanation
Indices: 38982109--38982137 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
38982099 GTTCTCCCCA
38982109 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
38982138 CCAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:38985807 original size:120 final size:120
Alignment explanation
Indices: 38985669--38985961 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
38985659 AATTATTTTA
* * * *
38985669 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
38985732 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
38985789 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
38985854 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
38985909 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
38985962 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:38985829 original size:15 final size:15
Alignment explanation
Indices: 38985794--38985835 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38985784 TTAAGAATTT
*
38985794 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38985808 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38985822 TATTTAATAATAAT
1 TATTTAATTATAAT
38985836 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38985944 original size:16 final size:16
Alignment explanation
Indices: 38985923--38985964 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38985913 TTATTAAATT
*
38985923 ATATATTTTAATTATA
1 ATATATTTTAATAATA
38985939 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
38985954 AT-TATGTTTAA
1 ATATAT-TTTAA
38985965 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:38985949 original size:15 final size:15
Alignment explanation
Indices: 38985914--38985955 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38985904 TTAAGAATTT
*
38985914 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38985928 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38985942 TATTTAATAATAAT
1 TATTTAATTATAAT
38985956 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38986105 original size:157 final size:157
Alignment explanation
Indices: 38985898--38986214 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
38985888 ATAAGAATAT
*
38985898 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
38985963 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
38986028 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
38986055 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
38986119 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
38986184 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
38986212 TAA
1 TAA
38986215 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 25 0.16
157 127 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:38986362 original size:16 final size:16
Alignment explanation
Indices: 38986337--38986405 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
38986327 GATTAGCTAT
*
38986337 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
38986353 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
38986370 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38986386 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38986402 TACA
1 TACA
38986406 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38986380 original size:33 final size:32
Alignment explanation
Indices: 38986337--38986405 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
38986327 GATTAGCTAT
38986337 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
*
38986370 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
38986402 TACA
1 TACA
38986406 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:38993948 original size:217 final size:215
Alignment explanation
Indices: 38993567--38994007 Score: 740
Period size: 217 Copynumber: 2.0 Consensus size: 215
38993557 TTAATCTTAG
38993567 TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTAGAAATACAATTTAGTTCATATTAA
1 TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTAGAAATACAATTTAGTTCATATTAA
* * ** *
38993632 ATGAACTTACCTAATAAAAAAACGAAGTCGAAATTGGGAAAATGATCAACCCTTTACTTTAGTCT
66 ATGAACTTACCTAAAAAAAAAACGAAGTCGAAATTGAGAAAACAATCAACCCTTTACTTTAGCCT
* **
38993697 TTCCGCGATTCAAACCTGATTGATTTACTTCTTGATCTAAAATAATAATTCTATTTAATTATCAA
131 TTCCGCGATTCAAACCTGATCGATTTACTTCTTGATAAAAAATAATAATTCTATTTAATTATCAA
38993762 CTTCCAGCAACATAATTAAC
196 CTTCCAGCAACATAATTAAC
*
38993782 TAATTTTA-ATCATTTAAGCTCTAACATTCATAAAAAAATTAGAAATATAATTTAGTTCATATTA
1 TAATTTTATATCATTTAAGCTCTAACATTCAT-AAAAAATTAGAAATACAATTTAGTTCATATTA
*
38993846 AATGAACTTACCTGATAAAAAAAAACGAAGTCGAAATTGAGAAAACAATCAATCCTTTACTTTAG
65 AATGAACTTACCT-A-AAAAAAAAACGAAGTCGAAATTGAGAAAACAATCAACCCTTTACTTTAG
*
38993911 CCTTTCCGCGATTCAAACCTGATCGATTTATTTCTTGATAAAAAATAATAATTCTATTTAATTAT
128 CCTTTCCGCGATTCAAACCTGATCGATTTACTTCTTGATAAAAAATAATAATTCTATTTAATTAT
*
38993976 CAATTTCCAGCAACATAATTAAC
193 CAACTTCCAGCAACATAATTAAC
38993999 TAATTTTAT
1 TAATTTTAT
38994008 GCAATTAAGT
Statistics
Matches: 210, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
214 23 0.11
215 52 0.25
216 1 0.00
217 134 0.64
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (215 bp):
TAATTTTATATCATTTAAGCTCTAACATTCATAAAAAATTAGAAATACAATTTAGTTCATATTAA
ATGAACTTACCTAAAAAAAAAACGAAGTCGAAATTGAGAAAACAATCAACCCTTTACTTTAGCCT
TTCCGCGATTCAAACCTGATCGATTTACTTCTTGATAAAAAATAATAATTCTATTTAATTATCAA
CTTCCAGCAACATAATTAAC
Found at i:38996273 original size:17 final size:16
Alignment explanation
Indices: 38996247--38996280 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38996237 GTAAACATAA
*
38996247 TGTAATAAATTGTTTT
1 TGTAATAAATTATTTT
38996263 TGTATATAAATTATTTT
1 TGTA-ATAAATTATTTT
38996280 T
1 T
38996281 AAATGGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TGTAATAAATTATTTT
Found at i:39002621 original size:70 final size:70
Alignment explanation
Indices: 39002501--39002634 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
39002491 AACCGCATAG
* * *
39002501 ATATATTACAGAGAACTGCAAAGCAATACAACTAGAAAAAATTCCAAGCCATATTAATATTCACA
1 ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAAATTCCAAGCCATATTAACATTCACA
39002566 TAGAT
66 TAGAT
* * * * * *
39002571 ATATATTATAGAGAACTGAAAAGAAATATAACTTGAAAAAGA-TGCGAGCCATATTGACATTCAC
1 ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAA-ATTCCAAGCCATATTAACATTCAC
39002635 CATTTAGTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 53 0.98
71 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.25
Consensus pattern (70 bp):
ATATATTACAGAGAACTGAAAAGAAATACAACTAGAAAAAATTCCAAGCCATATTAACATTCACA
TAGAT
Found at i:39012812 original size:22 final size:22
Alignment explanation
Indices: 39012751--39012813 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
39012741 AAACACTTTC
39012751 AAAAAACCCTAAACCCTAACATT
1 AAAAAACCCT-AACCCTAACATT
*** *
39012774 AAAAAATTATAACCCTAACCTT
1 AAAAAACCCTAACCCTAACATT
*
39012796 AAAAAACCCTAAGCCTAA
1 AAAAAACCCTAACCCTAA
39012814 AGAGAGAAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAACCCTAACCCTAACATT
Found at i:39025844 original size:4 final size:4
Alignment explanation
Indices: 39025837--39025888 Score: 95
Period size: 4 Copynumber: 13.0 Consensus size: 4
39025827 ACATGATATA
*
39025837 TATG TATG TATG TATG TAGG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
39025885 TATG
1 TATG
39025889 CCAGTGTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:39031755 original size:2 final size:2
Alignment explanation
Indices: 39031750--39031788 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
39031740 TTAGAAATAA
39031750 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
39031789 AATATGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39043166 original size:18 final size:18
Alignment explanation
Indices: 39043125--39043171 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
39043115 GCTTGATATT
*
39043125 TGAAATGG-AATAATATG
1 TGAAATGGAAATAAGATG
* *
39043142 AGAAATGGAAATGAGATG
1 TGAAATGGAAATAAGATG
39043160 TGAAAT-GAAATA
1 TGAAATGGAAATA
39043172 TGAAATGGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (18 bp):
TGAAATGGAAATAAGATG
Found at i:39044190 original size:9 final size:9
Alignment explanation
Indices: 39044173--39044260 Score: 56
Period size: 9 Copynumber: 9.4 Consensus size: 9
39044163 TAATATTTTT
*
39044173 AAAATTATA
1 AAAACTATA
39044182 AAAACTAT-
1 AAAACTATA
39044190 AAAA-TAATA
1 AAAACT-ATA
39044199 AAAA-TATA
1 AAAACTATA
**
39044207 AAATTTATA
1 AAAACTATA
39044216 TAAAACTATA
1 -AAAACTATA
*
39044226 AAAAGTTATTTTA
1 AAAA-CTA---TA
39044239 AAAACTATA
1 AAAACTATA
*
39044248 AGAACTATA
1 AAAACTATA
39044257 AAAA
1 AAAA
39044261 AAAGTTAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
7 1 0.02
8 12 0.19
9 33 0.52
10 9 0.14
12 2 0.03
13 6 0.10
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAACTATA
Found at i:39045427 original size:16 final size:16
Alignment explanation
Indices: 39045406--39045452 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
39045396 AGCCAAATAA
39045406 AAAAAGAAAAGAAAAG
1 AAAAAGAAAAGAAAAG
**
39045422 AAAAAG-AAAGGCAAG
1 AAAAAGAAAAGAAAAG
39045437 ACAAAAGAAGAAGAAA
1 A-AAAAGAA-AAGAAA
39045453 CCGATCTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 8 0.33
16 11 0.46
17 1 0.04
18 4 0.17
ACGTcount: A:0.74, C:0.04, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:39047303 original size:35 final size:35
Alignment explanation
Indices: 39047257--39047324 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
39047247 CAAATTTATG
* *
39047257 TTCTCTAACATAGAATTAGTAGTGCTGTAACAATA
1 TTCTCTAACATAGAATTAATAATGCTGTAACAATA
39047292 TTCTCTAACATAGAATTAATAATGCTGTAACAA
1 TTCTCTAACATAGAATTAATAATGCTGTAACAA
39047325 GATTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (35 bp):
TTCTCTAACATAGAATTAATAATGCTGTAACAATA
Found at i:39047353 original size:21 final size:22
Alignment explanation
Indices: 39047327--39047372 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39047317 TGTAACAAGA
* **
39047327 TTTTT-ATTTGACTTGTTTAAT
1 TTTTTAATTTAACTTGAATAAT
39047348 TTTTTAATTTAACTTGAATAAT
1 TTTTTAATTTAACTTGAATAAT
39047370 TTT
1 TTT
39047373 ACTCTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTTAATTTAACTTGAATAAT
Found at i:39048848 original size:23 final size:23
Alignment explanation
Indices: 39048822--39048872 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
39048812 TAGGGAATTT
* * *
39048822 TGTAATATCCCGAAAATTATTAC
1 TGTAATACCCCAAAAATTACTAC
39048845 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
39048868 AGTAA
1 TGTAA
39048873 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:39051888 original size:50 final size:50
Alignment explanation
Indices: 39051816--39052159 Score: 424
Period size: 50 Copynumber: 6.9 Consensus size: 50
39051806 CATTGAGATT
*
39051816 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
39051866 ATGAGAGGTCCCATGTAAGACCATGTCTGAGACATGACATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
39051916 ATGAGAGGTCTCATGTAAGACCATGTCTGGGGCATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
39051966 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-G
* ** * * *
39052016 ATGAAAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * *
39052066 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AG
* * ** * * *
39052115 AGGAAACATCTCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39052160 TGTTATTATT
Statistics
Matches: 256, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.00
49 38 0.15
50 216 0.84
51 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:39051952 original size:100 final size:100
Alignment explanation
Indices: 39051773--39052159 Score: 440
Period size: 100 Copynumber: 3.8 Consensus size: 100
39051763 TGTGAGCCAG
* * *
39051773 TGTAAGACTATGTCTAGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCA--G-G---ATGAGAGGTCCCATGTAAGACC
*
39051838 ATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
60 ATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * *
39051879 TGTAAGACCATGTCTGAGACATGACATTGGCACC-GAGATGAGAGGTCTCATGTAAGACCATGTC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCAG-GATGAGAGGTCCCATGTAAGACCATGTC
*
39051943 TGGGGCATGGCGTTGGCACCGAGATGAGAGGTCCCA
65 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * **
39051979 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCAGGATGAAAGGTCCCCCGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCAGGATGAGAGGTCCCATGTAAGACCATGTCT
* * * **
39052044 GGGACATGGCATGGGCACCGATATGAGAACTCCCA
66 GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * * ** *
39052079 TGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGA--A-ACATCTCATGTAAGACCATGT
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA--CCAGGATGAGAGGTCCCATGTAAGACCATGT
* *
39052141 TTGGGACATGGCTTTGGCA
64 CTGGGACATGGCGTTGGCA
39052160 TGTTATTATT
Statistics
Matches: 245, Mismatches: 33, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
99 32 0.13
100 175 0.71
101 1 0.00
102 5 0.02
103 3 0.01
106 29 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (100 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCAGGATGAGAGGTCCCATGTAAGACCATGTCT
GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
Found at i:39052532 original size:22 final size:22
Alignment explanation
Indices: 39052504--39052571 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
39052494 CTCTCTGATA
*
39052504 TTTAGCACGTCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
*
39052526 TTTAGCACATCTGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* * * * *
39052548 TATAACACTTTAGTACTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
39052570 TT
1 TT
39052572 CATTAGTGCA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (22 bp):
TTTAGCACATCAGTGCTCTCTG
Found at i:39057811 original size:23 final size:23
Alignment explanation
Indices: 39057784--39057827 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
39057774 ATTGGAAAAT
*
39057784 AATTTAATTGAAATAATTAATTA
1 AATTTAATTGAAATAAATAATTA
* *
39057807 AATTTATTTTAAATAAATAAT
1 AATTTAATTGAAATAAATAAT
39057828 ATTTTGGGAA
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:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTTAATTGAAATAAATAATTA
Found at i:39062396 original size:51 final size:50
Alignment explanation
Indices: 39062268--39062880 Score: 607
Period size: 51 Copynumber: 12.5 Consensus size: 50
39062258 TTTAATCTAT
* *
39062268 TGCAACGCCAGGAAAATAAGATTTGCTGCCTTCAGCTTTAATC---T--AC
1 TGCAATGCCAGG-AAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
** * *
39062314 TGCAACACCAGGGAAA-AAGATTCGTTGCCTTCAGTTTTAATCTGTTCCAC
1 TGCAATGCCA-GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
39062364 TACAATGCCAGGAAAATAAGATTCGCTGCCTTCAGCTTTTATCTGTTCCAC
1 TGCAATGCCAGG-AAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
*
39062415 TGTAATGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T--AC
1 TGCAATGCC-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* ** *
39062461 TACAACACCAGGGAAA-AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCAC
1 TGCAATGCCA-GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * *
39062511 TGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATC---T--AC
1 TGCAATGCC-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
39062557 TGCAACGCCAGGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCAC
1 TGCAATGCCA--GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * *
39062609 TGCAACGCCAAGGAAATGAGATTCGCTGCCTTCAGCTTT-A----TTCTAC
1 TGCAATGCC-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
39062655 TGCGATGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCAC
1 TGCAATGCCA-GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* * *
39062706 TGCAATGCCAAGGAGATTAGATTCGCTGCATTCAGCTTTAATC---T--AC
1 TGCAATGCC-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
** * *
39062752 TGTGATGCCAGGGAAATGAGATTTGCTGCCTTCAGCTTTAATCTGTTCCAC
1 TGCAATGCCA-GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
* *
39062803 TGTAACT-CCAAGGAAATGAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
1 TGCAA-TGCC-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
39062854 TGCAATGCCAAGGAAATAAGATTCGCT
1 TGCAATGCC-AGGAAATAAGATTCGCT
39062881 ATGATAACTT
Statistics
Matches: 478, Mismatches: 48, Indels: 77
0.79 0.08 0.13
Matches are distributed among these distances:
45 52 0.11
46 109 0.23
47 33 0.07
48 5 0.01
49 3 0.01
50 29 0.06
51 229 0.48
52 17 0.04
53 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (50 bp):
TGCAATGCCAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
Found at i:39062728 original size:97 final size:97
Alignment explanation
Indices: 39062255--39062880 Score: 762
Period size: 97 Copynumber: 6.4 Consensus size: 97
39062245 TGCTGTCTGT
* * *
39062255 AGCTTTAATCTATTGCAACGCCAGGAAAATAAGATTTGCTGCCTTCAGCTTTAATC---T--ACT
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
39062315 GCAACACCAGGGAAA-AAGATTCGTTGCCTTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * * *
39062346 AGTTTTAATCTGTTCCACTACAATGCCAGGAAAATAAGATTCGCTGCCTTCAGCTTTTATCTGTT
1 AGCTTTAATC---T--ACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTT
* *
39062411 CCACTGTAATGCCAAGGAAATAAGATTCGCTGCCTTC
61 CCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * *
39062448 AGCTTTAATCTACTACAACACCAGGGAAA-AAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
39062512 GCAACGCCAAGGAAATAAGATTCACTGCCTTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
39062544 AACTTTAATCTACTGCAACGCCAGGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCAC
1 AGCTTTAATCTACTGCAACGCCA-GGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC
*
39062609 TGCAACGCCAAGGAAATGAGATTCGCTGCCTTC
65 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* * * *
39062642 AGCTTTATTCTACTGCGATGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * *
39062707 GCAATGCCAAGGAGATTAGATTCGCTGCATTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
** * * *
39062739 AGCTTTAATCTACTGTGATGCCAGGGAAATGAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
39062804 GTAACTCCAAGGAAATGAGATTCGCTGCCTTC
66 GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
* *
39062836 AGCTTTAATCTGTTCCACTGCAATGCCAAGGAAATAAGATTCGCT
1 AGCTTTAATC---T--ACTGCAACGCCAGGGAAATAAGATTCGCT
39062881 ATGATAACTT
Statistics
Matches: 466, Mismatches: 51, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
91 9 0.02
94 1 0.00
96 122 0.26
97 187 0.40
98 82 0.18
99 2 0.00
100 1 0.00
101 14 0.03
102 48 0.10
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (97 bp):
AGCTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
GCAACGCCAAGGAAATAAGATTCGCTGCCTTC
Found at i:39076228 original size:13 final size:13
Alignment explanation
Indices: 39076182--39076245 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
39076172 TCCATGTAAA
*
39076182 CATTTCATATAAT
1 CATTTCATATAAC
*
39076195 TATTTCCATATAAC
1 CATTT-CATATAAC
* *
39076209 TGA-TTCATATAGC
1 -CATTTCATATAAC
*
39076222 CATTTCATATAAT
1 CATTTCATATAAC
39076235 CATTTCATATA
1 CATTTCATATA
39076246 TTCTTTTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 1 0.02
13 30 0.73
14 9 0.22
15 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:39087298 original size:138 final size:141
Alignment explanation
Indices: 39087131--39087410 Score: 539
Period size: 138 Copynumber: 2.0 Consensus size: 141
39087121 CAAAAAAAAA
39087131 ATTAAATCGTCATTTTGTTAATGTTGAAGGCTCAATTTATTAAAATTTTTAGAATTTGAACTAAA
1 ATTAAATCGTCATTTTGTTAATGTTGAAGGCTCAATTTATTAAAATTTTTAGAATTTGAACTAAA
39087196 ATGACAAATTTTATAAATATTGAA-GTTAAAA-T-TTATTAGAACAATAAAAAATCCAACATCAG
66 ATGACAAATTTTATAAATATTGAAGGTTAAAATTATTATTAGAACAATAAAAAATCCAACATCAG
39087258 ATTAAAAGCTT
131 ATTAAAAGCTT
39087269 ATTAAATCGTCATTTTGTTAATGTTGAAGGCTCAATTTATTAAAATTTTTAGAATTTGAACTAAA
1 ATTAAATCGTCATTTTGTTAATGTTGAAGGCTCAATTTATTAAAATTTTTAGAATTTGAACTAAA
39087334 ATGACAAATTTTATAAATATTGAAGGTTAAAATTATTATTAGAACAATAAAAAATCCAACATCAG
66 ATGACAAATTTTATAAATATTGAAGGTTAAAATTATTATTAGAACAATAAAAAATCCAACATCAG
39087399 ATTAAAAGCTT
131 ATTAAAAGCTT
39087410 A
1 A
39087411 GTGGCCAAAA
Statistics
Matches: 139, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
138 89 0.64
139 7 0.05
140 1 0.01
141 42 0.30
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (141 bp):
ATTAAATCGTCATTTTGTTAATGTTGAAGGCTCAATTTATTAAAATTTTTAGAATTTGAACTAAA
ATGACAAATTTTATAAATATTGAAGGTTAAAATTATTATTAGAACAATAAAAAATCCAACATCAG
ATTAAAAGCTT
Found at i:39088753 original size:26 final size:27
Alignment explanation
Indices: 39088715--39088775 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
39088705 TATTTTACAG
*
39088715 TTTTATATATTTTTATAAATTTATAAA
1 TTTTATATATTTTTATAAATGTATAAA
* * *
39088742 TTTTA-ATTTTTTTATTAATGTATATA
1 TTTTATATATTTTTATAAATGTATAAA
*
39088768 TTATATAT
1 TTTTATAT
39088776 TATGAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTATATATTTTTATAAATGTATAAA
Found at i:39088852 original size:15 final size:16
Alignment explanation
Indices: 39088832--39088868 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
39088822 TATATATTTG
39088832 ATATTTGATAATTTAT
1 ATATTTGATAATTTAT
*
39088848 A-ATTTTATAATTTAT
1 ATATTTGATAATTTAT
39088863 ATATTT
1 ATATTT
39088869 TAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATATTTGATAATTTAT
Found at i:39091686 original size:9 final size:9
Alignment explanation
Indices: 39091672--39091743 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
39091662 ATTAAAGAAA
39091672 ATATATATT
1 ATATATATT
39091681 ATATATATGT
1 ATATATAT-T
*
39091691 A-AGTA-ATG
1 ATA-TATATT
39091699 AT-TATTATT
1 ATATA-TATT
*
39091708 A-ATATTTT
1 ATATATATT
39091716 ATATATATT
1 ATATATATT
39091725 ATATTATATAT
1 ATA-TATAT-T
39091736 ATATATAT
1 ATATATAT
39091744 AAAAAAGAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 25 0.50
10 14 0.28
11 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (9 bp):
ATATATATT
Found at i:39092853 original size:97 final size:93
Alignment explanation
Indices: 39092712--39092997 Score: 318
Period size: 97 Copynumber: 2.9 Consensus size: 93
39092702 CCTTAAGATC
* *
39092712 ATGAGAGGT-CCCTGTAAGACCATGTCTGGACATGGCATGGGCACCGA-ACGAGACGAGAGTCCA
1 ATGAGAGGTCCCCTATAAGACCA-GTCTGGACATGGCA-GTGCACC-ACACGAGA-GA-A-TCCA
39092775 TGTAAGACCATGTCTGGACATGCGTTGGCA-CGAG
60 TGTAAGACCATGTCTGGACATGC-TTGGCACCGAG
39092809 ATGAGAGGTCCCCTATAAGACCAGTCTGGGACATGGCAGTGCACCATCACGAGAGAACATCCATG
1 ATGAGAGGTCCCCTATAAGACCAGTCT-GGACATGGCAGTGCACCA-CACGAGAG-A-ATCCATG
39092874 TAAGACCATGTCTGGACATGC---GCACCGAG
62 TAAGACCATGTCTGGACATGCTTGGCACCGAG
39092903 ATGAGAGGTCCCCTATAAAGACCATAGTCTGGACATGGCA-TGGCACCATCACGAGA-ACATCCC
1 ATGAGAGGTCCCCTAT-AAGACC--AGTCTGGACATGGCAGT-GCACCA-CACGAGAGA-AT-CC
39092966 ATGTAAGACCATGTCTGGACATGGCTTTGGCA
59 ATGTAAGACCATGTCTGGACAT-GC-TTGGCA
39092998 TGTTATTATC
Statistics
Matches: 170, Mismatches: 3, Indels: 29
0.84 0.01 0.14
Matches are distributed among these distances:
93 3 0.02
94 24 0.14
95 31 0.18
96 27 0.16
97 52 0.31
98 30 0.18
100 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.28, T:0.19
Consensus pattern (93 bp):
ATGAGAGGTCCCCTATAAGACCAGTCTGGACATGGCAGTGCACCACACGAGAGAATCCATGTAAG
ACCATGTCTGGACATGCTTGGCACCGAG
Found at i:39092975 original size:50 final size:48
Alignment explanation
Indices: 39092720--39092990 Score: 190
Period size: 50 Copynumber: 5.6 Consensus size: 48
39092710 TCATGAGAGG
39092720 TCCC-TGTAAGACCATGTCTGGACATGGCATGGGCACCGA-ACGAGACGAGA
1 TCCCATGTAAGACCATGTCTGGACATGGCAT-GGCACC-ACACGAGA--AGA
* * * * *
39092770 GT-CCATGTAAGACCATGTCTGGACAT-GCGTTGGCACGAGATGAG-AGG
1 -TCCCATGTAAGACCATGTCTGGACATGGC-ATGGCACCACACGAGAAGA
* *
39092817 TCCCCTATAAGACCA-GTCTGGGACATGGCA-GTGCACCATCACGAG-AGA
1 TCCCATGTAAGACCATGTCT-GGACATGGCATG-GCACCA-CACGAGAAGA
* * * *
39092865 ACATCCATGTAAGACCATGTCTGGACAT-GC---GCACCGAGATGAG-AGG
1 TC--CCATGTAAGACCATGTCTGGACATGGCATGGCACC-ACACGAGAAGA
* * *
39092911 TCCCCTATAAAGACCATAGTCTGGACATGGCATGGCACCATCACGAGAACA
1 TCCCATGT-AAGACCAT-GTCTGGACATGGCATGGCACCA-CACGAGAAGA
39092962 TCCCATGTAAGACCATGTCTGGACATGGC
1 TCCCATGTAAGACCATGTCTGGACATGGC
39092991 TTTGGCATGT
Statistics
Matches: 174, Mismatches: 26, Indels: 42
0.72 0.11 0.17
Matches are distributed among these distances:
44 4 0.02
45 8 0.05
46 28 0.16
47 27 0.16
48 9 0.05
49 17 0.10
50 47 0.27
51 34 0.20
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGACATGGCATGGCACCACACGAGAAGA
Found at i:39093417 original size:271 final size:278
Alignment explanation
Indices: 39092895--39093442 Score: 999
Period size: 271 Copynumber: 2.0 Consensus size: 278
39092885 CTGGACATGC
39092895 GCACCGAGATGAGAGGTCCCCTATAAAGACCATAGTCTGGACATGGCATGGCACCATCACGAGAA
1 GCACCGAGATGAGAGGTCCCCTATAAAGACCATAGTCTGGACATGGCATGGCACCATCACGAGAA
39092960 CATCCCATGTAAGACCATGTCTGGACATGGCTTTGGCATGTTATTATCAGAAAGAGACCCGAGTA
66 CATCCCATGTAAGACCATGTCTGGACATGGCTTTGGCATGTTATTATCAGAAAGAGACCCGAGTA
39093025 TCCTTATTATTCCAATGTAGTTCAACGGGCTTGTAAACGAATCATGTTCATGAAAGTTCAGTTTA
131 TCCTTATTATTCCAATGTAGTTCAACGGGCTTGTAAACGAATCATGTTCATGAAAGTTCAGTTTA
39093090 AAGCATAAATGTAAGCTCAGGTAAGTTGTAAGACTTAAGAACTATTATACTATCAATTGATGTTC
196 AAGCATAAATGTAAGCTCAGGTAAGTTGTAAGACTTAAGAACTATTATACTATCAATTGATGTTC
39093155 AAACGATGCAGCAAGGATG
261 -AACGATGCAGCAAGGATG
39093174 GCACC-AGATGAGAGGTCCCCTAT-AAGACCAT-GTCTGGACAT-GCATGGGCACCATCACGAGA
1 GCACCGAGATGAGAGGTCCCCTATAAAGACCATAGTCTGGACATGGCAT-GGCACCATCACGAGA
39093235 ACATCCCATGTAAGACCATGTCTGGACATGGCTTT-GCATGTTATTATCAG-AAGA-ACCCGAGT
65 ACATCCCATGTAAGACCATGTCTGGACATGGCTTTGGCATGTTATTATCAGAAAGAGACCCGAGT
39093297 ATCC-TATTATTCCAA-GTAGTTCAACGGGCTTGTAAACGAATCATGTTCATGAAAGTTCAGTTT
130 ATCCTTATTATTCCAATGTAGTTCAACGGGCTTGTAAACGAATCATGTTCATGAAAGTTCAGTTT
39093360 AAAGCATAAATGTAA-CTCAGGTAAGTTGTAAGACTTAAGAACTTATTATACTATCAATTGATGT
195 AAAGCATAAATGTAAGCTCAGGTAAGTTGTAAGACTTAAGAAC-TATTATACTATCAATTGATGT
39093424 TCAACGATGCAGCAAGGAT
259 TCAACGATGCAGCAAGGAT
39093443 TGAGTAAGTT
Statistics
Matches: 267, Mismatches: 0, Indels: 13
0.95 0.00 0.05
Matches are distributed among these distances:
270 44 0.16
271 86 0.32
272 11 0.04
273 12 0.04
274 4 0.01
275 19 0.07
276 60 0.22
277 8 0.03
278 18 0.07
279 5 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (278 bp):
GCACCGAGATGAGAGGTCCCCTATAAAGACCATAGTCTGGACATGGCATGGCACCATCACGAGAA
CATCCCATGTAAGACCATGTCTGGACATGGCTTTGGCATGTTATTATCAGAAAGAGACCCGAGTA
TCCTTATTATTCCAATGTAGTTCAACGGGCTTGTAAACGAATCATGTTCATGAAAGTTCAGTTTA
AAGCATAAATGTAAGCTCAGGTAAGTTGTAAGACTTAAGAACTATTATACTATCAATTGATGTTC
AACGATGCAGCAAGGATG
Found at i:39096672 original size:46 final size:46
Alignment explanation
Indices: 39096619--39096731 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
39096609 GAGGGGGTGT
*
39096619 TAGGATATTATTATGGGATATTATATTTTAGCAATTTGATTCCTAA
1 TAGGATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAA
*
39096665 TAGGATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAA
1 TAGGATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAA
*
39096711 T-GGA-A-TATTATAGGATATTAT
1 TAGGATATTATTATGGGATATTAT
39096732 TATGAGATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
43 15 0.23
44 1 0.02
45 3 0.05
46 45 0.70
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (46 bp):
TAGGATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAA
Found at i:39097891 original size:35 final size:35
Alignment explanation
Indices: 39097816--39097916 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 35
39097806 CATGTAATTA
* **
39097816 TTTTTCCCTAAAAAACTTAA-AATAGCATGCTTTTC
1 TTTTTCCTTAAAAAA-TTAAGAATAGCATGCCATTC
* *
39097851 CTTTTCCTTAAAAAATTAAGAATAGCATGCCATTG
1 TTTTTCCTTAAAAAATTAAGAATAGCATGCCATTC
* * * *
39097886 TTTTTCATAAAAAAAATAAAGAATAACATGC
1 TTTTTCCT-TAAAAAATTAAGAATAGCATGC
39097917 TATTAATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
34 4 0.07
35 31 0.57
36 19 0.35
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (35 bp):
TTTTTCCTTAAAAAATTAAGAATAGCATGCCATTC
Found at i:39097935 original size:36 final size:36
Alignment explanation
Indices: 39097860--39097936 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
39097850 CCTTTTCCTT
* * *
39097860 AAAAAATTAAGAATAGCATGCCATTGTTTTTCATAA
1 AAAAAATAAAGAATAACATGCCATTATTTTTCATAA
*
39097896 AAAAAATAAAGAATAACATGCTATTAATTATTTC-TAA
1 AAAAAATAAAGAATAACATGCCATT-ATT-TTTCATAA
39097933 AAAA
1 AAAA
39097937 TTTGAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 22 0.63
37 9 0.26
38 4 0.11
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (36 bp):
AAAAAATAAAGAATAACATGCCATTATTTTTCATAA
Found at i:39112505 original size:2 final size:2
Alignment explanation
Indices: 39112493--39112532 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
39112483 TTTTCTGAAT
*
39112493 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TGA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA G
39112533 GAATAAGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:39123544 original size:16 final size:16
Alignment explanation
Indices: 39123523--39123553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39123513 TTTTAAATTT
39123523 ATAAAAATTAAAAAAA
1 ATAAAAATTAAAAAAA
*
39123539 ATAAAACTTAAAAAA
1 ATAAAAATTAAAAAA
39123554 CAAAAATATA
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:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAAATTAAAAAAA
Found at i:39124282 original size:16 final size:16
Alignment explanation
Indices: 39124261--39124309 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
39124251 TTCGCTGTAT
39124261 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
39124277 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
39124293 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
39124309 T
1 T
39124310 AACAAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:39124563 original size:18 final size:17
Alignment explanation
Indices: 39124542--39124576 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39124532 TTATTATTAA
*
39124542 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
39124560 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39124577 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:39124801 original size:121 final size:121
Alignment explanation
Indices: 39124528--39124936 Score: 759
Period size: 121 Copynumber: 3.4 Consensus size: 121
39124518 ATATTTTAAC
*
39124528 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
*
39124593 TCTTATATGAATTTAC-TCAAATCATAATATATGATACTATAAAATATAATTT-AA
66 TCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
39124647 CATAATTATTATTAAATAAATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATA
1 -ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATA
39124712 TTCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
65 TTCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
39124769 ATAATTATTATTAAATATATATTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
39124834 TCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
39124890 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAA
39124937 TTTAAAATAA
Statistics
Matches: 281, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
120 79 0.28
121 200 0.71
122 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (121 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:39124804 original size:18 final size:17
Alignment explanation
Indices: 39124781--39124817 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
39124771 AATTATTATT
39124781 AAATATAT-A-TTAATTA
1 AAATATATGATTTAA-TA
39124797 AAATATATGATTTAATA
1 AAATATATGATTTAATA
39124814 AAAT
1 AAAT
39124818 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:39124942 original size:23 final size:23
Alignment explanation
Indices: 39124915--39124963 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
39124905 TATATTTTAA
39124915 TTAAAATATATGATT-TAATAAAT
1 TTAAAATA-ATGATTATAATAAAT
*
39124938 TTAAAATAATTATTACTAATAAAT
1 TTAAAATAATGATTA-TAATAAAT
39124962 TT
1 TT
39124964 TCTTATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 8 0.35
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAAAATAATGATTATAATAAAT
Found at i:39124988 original size:47 final size:46
Alignment explanation
Indices: 39124921--39125082 Score: 164
Period size: 47 Copynumber: 3.7 Consensus size: 46
39124911 TTAATTAAAA
39124921 TATATG-ATTTA-ATAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTTATAT-AATTTAAAATAATTATTA-TAATAAATTTTCT
* * **
39124967 TATATGAATTTGTATAATTTAATATAATTATTAT--TAAATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
* *
39125010 TA-AT-AA--TATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
39125053 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
39125083 ATATTAAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
39 15 0.16
40 4 0.04
41 2 0.02
42 8 0.09
43 6 0.07
44 8 0.09
45 2 0.02
46 10 0.11
47 35 0.38
48 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:39125045 original size:86 final size:90
Alignment explanation
Indices: 39124945--39125155 Score: 313
Period size: 86 Copynumber: 2.4 Consensus size: 90
39124935 AATTTAAAAT
* * * * *
39124945 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATTATTATT-AA-ATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
39125008 TTTAAT-A-ATATATAATTTCATAA
66 TTTAATAAGATATATAATTTCATAA
*
39125031 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
*
39125096 TTTAATAATGATATATAATTTCTTAA
66 TTTAATAA-GATATATAATTTCATAA
*
39125122 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
39125156 CTAAAACCAT
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
86 51 0.46
87 2 0.02
88 10 0.09
89 1 0.01
91 47 0.42
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (90 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAAGATATATAATTTCATAA
Found at i:39125138 original size:47 final size:47
Alignment explanation
Indices: 39125010--39125148 Score: 130
Period size: 47 Copynumber: 3.0 Consensus size: 47
39125000 TTAAATAATT
* * *
39125010 TAATAATATATAATTTCATAAAATTCTTGATAATAAAT-TTTCTTATA
1 TAAT-ATATATAATTTCTTAAAATTCTTAATAATAAATATATCTTATA
* ** *
39125057 TGAATTTATATAA--T-TTAAAATAATTAATATTAAATATAAT-TTA-A
1 T-AATATATATAATTTCTTAAAATTCTTAATAATAAATAT-ATCTTATA
39125101 TAATGATATATAATTTCTTAAAATTCTTAATAATAAATAT-TCTTATA
1 TAAT-ATATATAATTTCTTAAAATTCTTAATAATAAATATATCTTATA
39125148 T
1 T
39125149 GAATTTACTA
Statistics
Matches: 72, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
43 3 0.04
44 25 0.35
45 6 0.08
46 5 0.07
47 30 0.42
48 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (47 bp):
TAATATATATAATTTCTTAAAATTCTTAATAATAAATATATCTTATA
Found at i:39142821 original size:2 final size:2
Alignment explanation
Indices: 39142808--39142843 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
39142798 AATAACCCTC
* *
39142808 CA CA CT CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
39142844 TATATAACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (2 bp):
CA
Found at i:39143621 original size:9 final size:9
Alignment explanation
Indices: 39143609--39143671 Score: 85
Period size: 9 Copynumber: 7.1 Consensus size: 9
39143599 AAATATATTT
39143609 ATTTTTTAA
1 ATTTTTTAA
39143618 A-TTTTTAA
1 ATTTTTTAA
39143626 ATTTTTTAA
1 ATTTTTTAA
39143635 A-TTTTTAA
1 ATTTTTTAA
39143643 ATTTTTTAA
1 ATTTTTTAA
* *
39143652 AATTTTAAA
1 ATTTTTTAA
39143661 ATATTTTTAA
1 AT-TTTTTAA
39143671 A
1 A
39143672 ATACTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
8 16 0.34
9 24 0.51
10 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:39143629 original size:17 final size:17
Alignment explanation
Indices: 39143609--39143671 Score: 99
Period size: 17 Copynumber: 3.6 Consensus size: 17
39143599 AAATATATTT
39143609 ATTTTTTAAATTTTTAA
1 ATTTTTTAAATTTTTAA
39143626 ATTTTTTAAATTTTTAA
1 ATTTTTTAAATTTTTAA
*
39143643 ATTTTTTAAAATTTTAAA
1 ATTTTTT-AAATTTTTAA
39143661 ATATTTTTAAA
1 AT-TTTTTAAA
39143672 ATACTTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
17 24 0.56
18 14 0.33
19 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTAAATTTTTAA
Found at i:39143662 original size:8 final size:8
Alignment explanation
Indices: 39143611--39143660 Score: 73
Period size: 8 Copynumber: 6.0 Consensus size: 8
39143601 ATATATTTAT
39143611 TTTTTAAA
1 TTTTTAAA
39143619 TTTTTAAA
1 TTTTTAAA
39143627 TTTTTTAAA
1 -TTTTTAAA
39143636 TTTTTAAA
1 TTTTTAAA
39143644 TTTTTTAAA
1 -TTTTTAAA
*
39143653 ATTTTAAA
1 TTTTTAAA
39143661 ATATTTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
8 23 0.59
9 16 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:39143701 original size:21 final size:21
Alignment explanation
Indices: 39143663--39143702 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39143653 ATTTTAAAAT
**
39143663 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
39143684 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
39143703 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:39143709 original size:22 final size:21
Alignment explanation
Indices: 39143662--39143720 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
39143652 AATTTTAAAA
* *
39143662 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
39143682 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
39143705 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
39143721 GGGCCGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:39145446 original size:13 final size:13
Alignment explanation
Indices: 39145428--39145452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39145418 GCAACACGGA
39145428 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
39145441 AAAAAAGAAAAA
1 AAAAAAGAAAAA
39145453 CAGAACACGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:39145799 original size:18 final size:18
Alignment explanation
Indices: 39145739--39145799 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
39145729 AATTAATATA
* *
39145739 AAAATTAAAAATATTGTT
1 AAAATTTAAAATATTATT
39145757 AAAATTTAAAA-ATTA-T
1 AAAATTTAAAATATTATT
**
39145773 AATTTTTTAAAATATTATT
1 AA-AATTTAAAATATTATT
39145792 AAAATTTA
1 AAAATTTA
39145800 TATAAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 3 0.09
17 10 0.29
18 18 0.53
19 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AAAATTTAAAATATTATT
Found at i:39146399 original size:21 final size:22
Alignment explanation
Indices: 39146344--39146399 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
39146334 CATTTTGGAT
39146344 TTAACTTTTA-AATCATTTTTA
1 TTAACTTTTATAATCATTTTTA
* *
39146365 TTAATTTTTTTAAT-ATTTTTA
1 TTAACTTTTATAATCATTTTTA
*
39146386 TTAACTTTAATAAT
1 TTAACTTTTATAAT
39146400 GTATTACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TTAACTTTTATAATCATTTTTA
Found at i:39147537 original size:12 final size:11
Alignment explanation
Indices: 39147520--39147554 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
39147510 AACAAATCCT
39147520 CTCTCATATTTC
1 CTCTCA-ATTTC
39147532 CTCTCAA-TTC
1 CTCTCAATTTC
39147542 CTCTCAATTTC
1 CTCTCAATTTC
39147553 CT
1 CT
39147555 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:39148750 original size:7 final size:7
Alignment explanation
Indices: 39148740--39148771 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
39148730 ATTCGATTGA
39148740 TATTTAG
1 TATTTAG
39148747 TATTTAG
1 TATTTAG
39148754 TATTTAG
1 TATTTAG
39148761 TATTTAG
1 TATTTAG
39148768 TATT
1 TATT
39148772 ATGTCTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:39149446 original size:18 final size:18
Alignment explanation
Indices: 39149420--39149454 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
39149410 AGGTGCGTTT
*
39149420 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
39149438 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
39149455 TCCTTTTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:39149923 original size:44 final size:45
Alignment explanation
Indices: 39149875--39150055 Score: 161
Period size: 44 Copynumber: 4.0 Consensus size: 45
39149865 ATATTTTGAA
*
39149875 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
39149919 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA-GT
** * * *** *
39149965 AATAAAATAGA-AGTTTATTTGATGTAATAAAATA-AAAAAAAATTGAGT
1 --T-ATTTTGATA--TTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* * *
39150013 TATTTTGATATTATTTGATGTGATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
39150056 TGTAATAAAA
Statistics
Matches: 108, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
44 53 0.49
45 16 0.15
46 4 0.04
48 4 0.04
49 11 0.10
50 20 0.19
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:39149997 original size:94 final size:94
Alignment explanation
Indices: 39149885--39150065 Score: 290
Period size: 94 Copynumber: 1.9 Consensus size: 94
39149875 TATTTTGATA
* * ****
39149885 TTATTTTATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAAAAAAATAAAAAAAAATTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
39149950 AAGTTTATTTGATGTAATAAAATAGAAGT
66 AAGTTTATTTGATGTAATAAAATAGAAGT
* *
39149979 TTATTTGATGTAATAAAATAAAAAAAAATTGAGTTATTTTGATATTATTTGATGTGATAAAATAG
1 TTATTTGATGTAAAAAAATAAAAAAAAATTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
39150044 AAGTTTATTTGATGTAATAAAA
66 AAGTTTATTTGATGTAATAAAA
39150066 ACCCTAACCT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (94 bp):
TTATTTGATGTAAAAAAATAAAAAAAAATTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
AAGTTTATTTGATGTAATAAAATAGAAGT
Found at i:39150001 original size:30 final size:25
Alignment explanation
Indices: 39149929--39149998 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
39149919 TATTTTGATA
39149929 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
39149954 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
39149979 TTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATA
39149999 AAAAAAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:39150107 original size:29 final size:28
Alignment explanation
Indices: 39150081--39150416 Score: 264
Period size: 29 Copynumber: 11.7 Consensus size: 28
39150071 AACCTAATTT
39150081 AACCCTAAACCCTAACCTAAAATTAATTAAA
1 AACCCT-AACCCTAACCT-AAATTAATT-AA
*
39150112 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATT-AA
*
39150141 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATT-AA
*
39150170 AACACTAACCCTTAACCTAAATTAATTAAA
1 AACCCTAACCC-TAACCTAAATTAATT-AA
* *
39150200 AACCCCAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATT-AA
*
39150229 AATCCTAATCCTAACCCTAACCTAAATCAATTACA
1 AA--C----CCTAACCCTAACCTAAATTAATTA-A
* *
39150264 AACCCTAACCCTAACCTAATTTAACTAAA
1 AACCCTAACCCTAACCTAAATTAA-TTAA
* *
39150293 AACTCTAAACCCT----TAACTT-A--AA
1 AACCCT-AACCCTAACCTAAATTAATTAA
* *
39150315 AACCCTAACCTTAACCTAATTTAATT-A
1 AACCCTAACCCTAACCTAAATTAATTAA
* *
39150342 AA----AACCCTATCCTAATTTAATTAA
1 AACCCTAACCCTAACCTAAATTAATTAA
*
39150366 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAAATTAATT-AA
*
39150395 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCC-TAACCTAAA
39150417 AACCCTAACA
Statistics
Matches: 258, Mismatches: 22, Indels: 50
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.02
22 7 0.03
23 18 0.07
24 3 0.01
25 6 0.02
26 6 0.02
27 3 0.01
28 19 0.07
29 102 0.40
30 50 0.19
31 14 0.05
33 1 0.00
34 1 0.00
35 23 0.09
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.27
Consensus pattern (28 bp):
AACCCTAACCCTAACCTAAATTAATTAA
Found at i:39150148 original size:23 final size:23
Alignment explanation
Indices: 39150061--39150150 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 23
39150051 TTTGATGTAA
*
39150061 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** *
39150084 CCTAAACCCTAACCTAAAATTAAT
1 TAAAAACCCTAACCT-AATTTAAT
39150108 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
39150137 TAAAAACCCTAACC
1 TAAAAACCCTAACC
39150151 CTAACCTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
23 22 0.43
24 6 0.12
26 1 0.02
27 3 0.06
29 8 0.16
30 11 0.22
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:39150156 original size:59 final size:58
Alignment explanation
Indices: 39150081--39150467 Score: 361
Period size: 51 Copynumber: 6.8 Consensus size: 58
39150071 AACCTAATTT
* *
39150081 AACCCTAAACCCTAACCTAAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCCTAACCT-AATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
*
39150141 AACCCTAACCCTAACCTAATTTAATTAAAAACACTAACCCTTAACCTAAATTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC-TAACCTAAATTAATTAAA
* * *
39150200 AACCCCAACCCTAACCTAATTTAATTAAAAATCCTAATCCTAACCCTAACCTAAATCAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAAAA--C----CCTAACCCTAACCTAAATTAATTAAA
* * *
39150264 AACCCTAACCCTAACCTAATTTAACTAAAAACTCTAAACCCT----T--A--ACTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAATTAATTAAA
* *
39150315 AACCCTAACCTTAACCTAATTTAATTAAAAACCCT-A---T--CCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
*
39150366 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT----T--A--ACTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAATTAATTAAA
** *
39150417 AACCCTAACATTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCC-TAACCTAAA
39150468 AACCCTAACC
Statistics
Matches: 278, Mismatches: 22, Indels: 56
0.78 0.06 0.16
Matches are distributed among these distances:
46 1 0.00
48 1 0.00
49 1 0.00
50 3 0.01
51 114 0.41
52 4 0.01
53 2 0.01
54 1 0.00
55 1 0.00
56 2 0.01
58 24 0.09
59 64 0.23
60 6 0.02
61 1 0.00
62 1 0.00
64 45 0.16
65 7 0.03
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (58 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAA
Found at i:39150196 original size:64 final size:61
Alignment explanation
Indices: 39150081--39150314 Score: 250
Period size: 59 Copynumber: 3.8 Consensus size: 61
39150071 AACCTAATTT
*
39150081 AACCCTAAACCCTAACCTAAAATTAATTAAAAACCCTAACCC-TAACCT-AAT--TTAATTAAA
1 AACCCT-AACCCTAACCT-AATTTAATTAAAAA-CCTAACCCTTAACCTAAATAATTAATTAAA
39150141 AACCCTAACCCTAACCTAATTTAATTAAAAACACTAACCCTTAACCT--A-AATTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAAC-CTAACCCTTAACCTAAATAATTAATTAAA
* * * * *
39150200 AACCCCAACCCTAACCTAATTTAATTAAAAATCCTAATCC-TAACCCTAACCTAAATCAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAAAA-CCTAACCCTTAA-CCTAA-AT-AATTAATTAAA
* *
39150264 AACCCTAACCCTAACCTAATTTAACTAAAAACTCTAAACCCTTAACTTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAAC-CT-AACCCTTAACCTAAA
39150315 AACCCTAACC
Statistics
Matches: 149, Mismatches: 11, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
57 1 0.01
58 24 0.16
59 65 0.44
60 7 0.05
63 1 0.01
64 40 0.27
65 8 0.05
66 3 0.02
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (61 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCTAACCCTTAACCTAAATAATTAATTAAA
Found at i:39150211 original size:88 final size:86
Alignment explanation
Indices: 39150088--39150407 Score: 335
Period size: 88 Copynumber: 3.7 Consensus size: 86
39150078 TTTAACCCTA
39150088 AACCCTAACCTAAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
1 AACCCTAACCT-AAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
39150153 AACCTAATTTAATTAAAAACACT
65 AACCTAATTTAATT-AAAACACT
*
39150176 AACCCTTAACCTAAATTAATTAAAAACCCCAACCCTAACCTAATTTAATTAAAAATCCTAATCCT
1 AACCC-TAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA--C----CCT
* * *
39150241 AACCCTAACCTAAATCAATTACAAACCCT
59 AACCCTAACCTAATTTAATTA-AAACACT
* * * * *
39150270 AACCCTAACCTAATTTAACTAAAAACTCTAAACCCT----T-A---ACTTAAAAACCCTAACCTT
1 AACCCTAACCTAAATTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCT
39150327 AACCTAATTTAATT--AA-A--
65 AACCTAATTTAATTAAAACACT
* *
39150344 AACCCTATCCTAATTTAATT-AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCT
39150408 TAACTTAAAA
Statistics
Matches: 196, Mismatches: 18, Indels: 43
0.76 0.07 0.17
Matches are distributed among these distances:
72 6 0.03
73 7 0.04
74 18 0.09
76 1 0.01
77 3 0.02
80 32 0.16
81 5 0.03
84 1 0.01
86 8 0.04
88 47 0.24
89 7 0.04
90 2 0.01
93 21 0.11
94 38 0.19
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (86 bp):
AACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTA
ACCTAATTTAATTAAAACACT
Found at i:39150308 original size:21 final size:20
Alignment explanation
Indices: 39150284--39150329 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
39150274 CTAACCTAAT
*
39150284 TTAAC-TAAAAACTCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
39150305 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
39150325 TTAAC
1 TTAAC
39150330 CTAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:39150399 original size:23 final size:23
Alignment explanation
Indices: 39150321--39150478 Score: 103
Period size: 23 Copynumber: 6.5 Consensus size: 23
39150311 TAAAAACCCT
*
39150321 AACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
39150344 AACCCTATCCTAATTTAATTAAAA
1 AACCCTAACCTAATTTAATT-AAA
39150368 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
*
39150395 AACCCTAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
39150417 AACCCTAACATTAACCTAATTTAATTAAA
1 AA-CC---C--TAACCTAATTTAATTAAA
*
39150446 AACCCTAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
39150468 AACCCTAACCT
1 AACCCTAACCT
39150479 TAACGTAATG
Statistics
Matches: 110, Mismatches: 6, Indels: 39
0.71 0.04 0.25
Matches are distributed among these distances:
21 12 0.11
22 18 0.16
23 27 0.25
24 11 0.10
25 1 0.01
26 1 0.01
27 7 0.06
28 22 0.20
29 7 0.06
30 4 0.04
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:39150466 original size:22 final size:20
Alignment explanation
Indices: 39150437--39150482 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
39150427 TTAACCTAAT
39150437 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
39150458 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
39150478 TTAAC
1 TTAAC
39150483 GTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:39150688 original size:116 final size:116
Alignment explanation
Indices: 39150484--39150701 Score: 400
Period size: 116 Copynumber: 1.9 Consensus size: 116
39150474 AACCTTAACG
*
39150484 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAAAAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAAAAAATAATAATTTTACATAATTTGATA
39150549 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* * *
39150600 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAAAAAATAATAATTTTACATAATTTGATA
39150665 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
39150702 CAATTTATCA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAAAAAATAATAATTTTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:39150718 original size:17 final size:18
Alignment explanation
Indices: 39150677--39150718 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
39150667 TTTACTAACC
* *
39150677 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
39150695 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
39150712 ATTAATA
1 ATTAATA
39150719 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:39154029 original size:126 final size:124
Alignment explanation
Indices: 39153729--39154080 Score: 503
Period size: 126 Copynumber: 2.8 Consensus size: 124
39153719 CCCAAACATG
*
39153729 CTACTTTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
39153794 TAGAAGCGATTTTATATTATTTGCTAAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
65 TAGAAGCGATTTTATACTATTTACTAAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * * * *
39153853 CTATTGTAGCAAAAGCGTG-CTGACGAGACCGCGATTTCACAAATTTTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAG-GCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * *
39153917 CTAGAATCGATTTTATACTATTTACTTAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
64 CTAGAAGCGATTTTATACTATTTACTAAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
*
39153979 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGATTTCACAAATTCTTCTCAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
39154044 TAGAAGCGATTTTATACTATTTTA-TCAGAAACGTCAA
65 TAGAAGCGATTTTATACTA-TTTACTAAGAAACGTCAA
39154081 CTCCAAACTA
Statistics
Matches: 201, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
123 2 0.01
124 86 0.43
125 6 0.03
126 101 0.50
127 6 0.03
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTACTAAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:39156187 original size:42 final size:42
Alignment explanation
Indices: 39156112--39156235 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 42
39156102 AATTTTAGAA
* * * *
39156112 CCACACGGGCAGTGGACATGGGCATGCGCCCAGGCCGTGTGAG
1 CCACACGGGCA-AGGACATGGGCGTGTGTCCAGGCCGTGTGAG
* *
39156155 TCACGCGGGCAAGGACATGGGCGTGTGTCCAGGCCGTGTGAG
1 CCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGTGTGAG
* *
39156197 CCACACGGGCAAGGACATGAGCGTGTGTCCAGGTCGTGT
1 CCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGTGT
39156236 CGCATATAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 62 0.87
43 9 0.13
ACGTcount: A:0.19, C:0.27, G:0.40, T:0.15
Consensus pattern (42 bp):
CCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGTGTGAG
Found at i:39159711 original size:19 final size:19
Alignment explanation
Indices: 39159683--39159745 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
39159673 AGTGTCTGGT
*
39159683 GATGCCTTTCGACTTGATG
1 GATGCCTTTCGGCTTGATG
* *
39159702 GATGCATTTCGGCTTGACG
1 GATGCCTTTCGGCTTGATG
39159721 GATGCCTTTCGGCTTGATG
1 GATGCCTTTCGGCTTGATG
*
39159740 AATGCC
1 GATGCC
39159746 CCAGCAGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (19 bp):
GATGCCTTTCGGCTTGATG
Found at i:39163245 original size:42 final size:42
Alignment explanation
Indices: 39163196--39163301 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
39163186 CACGGGTAGT
* * *
39163196 GGACATGGGCATGTG-CCTAGGCCGTATGAGTCACACGGGAAA
1 GGACATGGGCATGTGTCC-AAGCCGTATGAGCCACAAGGGAAA
* * *
39163238 GGACATGGGCGTGTGTCCAAGCCGTGTGAGCCACAAGGGCAA
1 GGACATGGGCATGTGTCCAAGCCGTATGAGCCACAAGGGAAA
*
39163280 GGACATGAGC--GTGTCCAAGCCG
1 GGACATGGGCATGTGTCCAAGCCG
39163302 CGTGACATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 12 0.21
42 42 0.75
43 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.37, T:0.15
Consensus pattern (42 bp):
GGACATGGGCATGTGTCCAAGCCGTATGAGCCACAAGGGAAA
Found at i:39165071 original size:20 final size:19
Alignment explanation
Indices: 39165023--39165073 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
39165013 AAAATTAAAA
* *
39165023 AAAATGTAACTTTATTTCT
1 AAAATTTAAATTTATTTCT
39165042 AAAATTTAAATTTATTT-T
1 AAAATTTAAATTTATTTCT
39165060 AAACATTTTAAATT
1 AAA-A-TTTAAATT
39165074 AAGTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (19 bp):
AAAATTTAAATTTATTTCT
Found at i:39181303 original size:19 final size:20
Alignment explanation
Indices: 39181281--39181318 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
39181271 AATTAACTTG
39181281 GTTTAAATAAG-TTAATCAT
1 GTTTAAATAAGTTTAATCAT
* *
39181300 GTTTTAATTAGTTTAATCA
1 GTTTAAATAAGTTTAATCA
39181319 ATCTTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (20 bp):
GTTTAAATAAGTTTAATCAT
Found at i:39190155 original size:40 final size:40
Alignment explanation
Indices: 39190100--39190239 Score: 253
Period size: 40 Copynumber: 3.5 Consensus size: 40
39190090 TTAGAACATT
*
39190100 GGCATTAAGCCTGCTAGACATTAAGCCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
*
39190140 GGCATTAAGCCTGCTAGACATTAAGTTTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
*
39190180 GGCATTAAGCCTGCTAGATATTAAGTCTGTAAAGTTCACC
1 GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
39190220 GGCATTAAGCCTGCTAGACA
1 GGCATTAAGCCTGCTAGACA
39190240 CAGGACCTGA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
Found at i:39194723 original size:28 final size:28
Alignment explanation
Indices: 39194673--39194794 Score: 136
Period size: 28 Copynumber: 4.4 Consensus size: 28
39194663 ATACAACATG
* * * *
39194673 CAGTAGCAGTCTGGGCCTGAGCCCTATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
**
39194701 CACCAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
39194729 CAGTAATAGTGTGGGCCTTATCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * * *
39194757 TAGTAACAGTATGGGCCTCAGCCCAATT
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
39194785 CAGTAACAGT
1 CAGTAACAGT
39194795 ACAATGCAGT
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 77 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:39195120 original size:27 final size:26
Alignment explanation
Indices: 39195090--39195282 Score: 197
Period size: 27 Copynumber: 7.2 Consensus size: 26
39195080 TATAACAGTT
* *
39195090 ATTTTACCCAATAGGGGTATTTTGGTC
1 ATTTTACCC-ATCGGGGTATTTCGGTC
* * *
39195117 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCATCG-GGGTATTTCGGTC
* *
39195144 ATTTTACCCTTTGGGGGTATTTCGGTC
1 ATTTTACCC-ATCGGGGTATTTCGGTC
* * **
39195171 ATTTTACCCTTTGGGGGTATTTTAGTC
1 ATTTTACCC-ATCGGGGTATTTCGGTC
*
39195198 ATTTTACCCATCGAGGGTATTTCGATC
1 ATTTTACCCATCG-GGGTATTTCGGTC
* *
39195225 ATTTTACCCATCAAGGGTATTTCGATC
1 ATTTTACCCATC-GGGGTATTTCGGTC
39195252 ATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCCATCG-GGGTATTTCGGTC
39195279 ATTT
1 ATTT
39195283 ACCTACGACT
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
26 4 0.03
27 136 0.95
28 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTACCCATCGGGGTATTTCGGTC
Found at i:39195148 original size:54 final size:54
Alignment explanation
Indices: 39195090--39195282 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
39195080 TATAACAGTT
* * *
39195090 ATTTTACCCAATAG-GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCC-ATCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATC
* * * * * *
39195144 ATTTTACCCTTTGGGGGTATTTCGGTCATTTTACCCTTTGGGGGTATTT-TAGTC
1 ATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA-TC
* * *
39195198 ATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATCAAGGGTATTTCGATC
1 ATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATC
39195252 ATTTTACCCATCGAGGGTATTTCGGTCATTT
1 ATTTTACCCATCGAGGGTATTTCGGTCATTT
39195283 ACCTACGACT
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.03
54 115 0.97
55 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATC
Found at i:39195270 original size:81 final size:80
Alignment explanation
Indices: 39195090--39195282 Score: 251
Period size: 81 Copynumber: 2.4 Consensus size: 80
39195080 TATAACAGTT
* *
39195090 ATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTT
1 ATTTTACCC-ATAGGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
*** *
39195155 TGGGGGTATTTCGGTC
65 CAAGGGTATTTCGATC
* * * *
39195171 ATTTTACCCTTTGGGGGTATTTTAGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCAT
1 ATTTTACCC-ATAGGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
39195236 CAAGGGTATTTCGATC
65 CAAGGGTATTTCGATC
* *
39195252 ATTTTACCCATCGAGGGTATTTCGGTCATTT
1 ATTTTACCCATAG-GGGTATTTTGGTCATTT
39195283 ACCTACGACT
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.02
81 94 0.98
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (80 bp):
ATTTTACCCATAGGGGTATTTTGGTCATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATC
AAGGGTATTTCGATC
Found at i:39207402 original size:21 final size:21
Alignment explanation
Indices: 39207376--39207415 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39207366 TTAACCTAGC
39207376 CTAGCTCCTCTTATGCCCTGA
1 CTAGCTCCTCTTATGCCCTGA
*
39207397 CTAGCTCCTTTTATGCCCT
1 CTAGCTCCTCTTATGCCCT
39207416 TTAACCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (21 bp):
CTAGCTCCTCTTATGCCCTGA
Found at i:39208881 original size:15 final size:17
Alignment explanation
Indices: 39208842--39208882 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
39208832 TGTTATTTAA
*
39208842 AATTTTATCCAACACTT
1 AATTTTATCCAACACTC
39208859 ACATTTTATCCAAC-C-C
1 A-ATTTTATCCAACACTC
39208875 AATTTTAT
1 AATTTTAT
39208883 TTTTTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 1 0.05
17 2 0.09
18 12 0.55
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTTATCCAACACTC
Found at i:39209632 original size:20 final size:20
Alignment explanation
Indices: 39209609--39209648 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39209599 TCTCATACCA
* *
39209609 ACAAATATTCAATCATAATT
1 ACAAATAATAAATCATAATT
*
39209629 ACAATTAATAAATCATAATT
1 ACAAATAATAAATCATAATT
39209649 CATTCATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
ACAAATAATAAATCATAATT
Found at i:39211158 original size:76 final size:76
Alignment explanation
Indices: 39211078--39211332 Score: 269
Period size: 76 Copynumber: 3.4 Consensus size: 76
39211068 ACAAGATCGG
* * * * * *
39211078 TTGTGTGCCTAGCACTAGTTGGATAAACTGACAATGTTTTGTGCCCAATGCTAGTCGGATAAACC
1 TTGTGTGCCTAGCACTAGTCGAATAAACTGACAAAGGTTTGCGCCCAACGCTAGTCGGATAAACC
39211143 GACGATGATAA
66 GACGATGATAA
* * * **
39211154 TTGTGTGCCTAGCACTAGTCGAATAAATTTACAAAGGTTTGCGCCCAACGCTAGTTGGATAATTC
1 TTGTGTGCCTAGCACTAGTCGAATAAACTGACAAAGGTTTGCGCCCAACGCTAGTCGGATAAACC
39211219 GACGATGATAA
66 GACGATGATAA
* * * * * *** * *
39211230 TTATGTGCCTAGCAGTGGTCAAATAAA-TCAACAAAGGTTTTTACCCAGCGCTAGTCGAATAAAC
1 TTGTGTGCCTAGCACTAGTCGAATAAACT-GACAAAGGTTTGCGCCCAACGCTAGTCGGATAAAC
* * *
39211294 TGACGATAATAC
65 CGACGATGATAA
*
39211306 TTGTGTGCCGAGCACTAGTCGAATAAA
1 TTGTGTGCCTAGCACTAGTCGAATAAA
39211333 TCGATAACAC
Statistics
Matches: 146, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
75 1 0.01
76 145 0.99
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (76 bp):
TTGTGTGCCTAGCACTAGTCGAATAAACTGACAAAGGTTTGCGCCCAACGCTAGTCGGATAAACC
GACGATGATAA
Found at i:39211172 original size:40 final size:37
Alignment explanation
Indices: 39211078--39211180 Score: 100
Period size: 36 Copynumber: 2.7 Consensus size: 37
39211068 ACAAGATCGG
* *
39211078 TTGTGTGCCTAGCACTAGTTGGATAAACTGACAATGT
1 TTGTGTGCCTAGCACTAGTCGGATAAACCGACAATGT
* *** *
39211115 TT-TGTGCCCAATGCTAGTCGGATAAACCGACGATGAT
1 TTGTGTGCCTAGCACTAGTCGGATAAACCGACAATG-T
*
39211152 AATTGTGTGCCTAGCACTAGTCGAATAAA
1 --TTGTGTGCCTAGCACTAGTCGGATAAA
39211181 TTTACAAAGG
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
36 26 0.52
37 3 0.06
39 2 0.04
40 19 0.38
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (37 bp):
TTGTGTGCCTAGCACTAGTCGGATAAACCGACAATGT
Found at i:39216023 original size:334 final size:333
Alignment explanation
Indices: 39215149--39216224 Score: 1345
Period size: 334 Copynumber: 3.2 Consensus size: 333
39215139 ATCATTGTGC
* * * *
39215149 CCATTATTGAATCTAGTTCTGTTTAGGAAAGTG-AAAAAAGTTATGGATGATTCGATGTAGTTAA
1 CCATTATTGATTCTAGTTCTATTGAGGAAAGTGAAAAAAAGTTATGGGTGATTCGATGTAGTTAA
* * * * * * * *
39215213 ATCATATCTTTCTCTCTCT-TATGTTATATTTTGTCTAAAATAATGATTATGTCCTTCAGATCTA
66 TTCAAATATTTCTTTCTCTATATGTCATAATTTGTCTAAAATAACGATTATGTCTTTCAGATCTA
* * * *
39215277 AGAACGTGCCACTCTTTCGATATAGATAGGATCGTAACCTTTACCTTAATTTTAATTCAATT-AG
131 AGAACGTGCCATTCATTCGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTGGG
* *
39215341 AGACAGATTCTCTCCCTATTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGCTGTATGATG
196 A-ACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATG
* * * * * * * *
39215406 TATCTATCCAAAATTATGATTATATCACTGAGATCTAAAAACATTTCATGTGTTGGATAGTAGGA
260 TATTTATACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGTTGGA-AGTA-GA
* *
39215471 CAACTGTTGTCC
323 CAATTGTTGT-T
* * * *
39215483 CCACTATTGATTTTGGTTCTATTGAGGAAAGTGAAAAAAAGTTATGGGGGATTCGATGTAGTTAA
1 CCATTATTGATTCTAGTTCTATTGAGGAAAGTGAAAAAAAGTTATGGGTGATTCGATGTAGTTAA
* * * *
39215548 TTCAAATCA-GTCTTTCTCTATATGTCATACTTTGTCTGAAATAACGATTATGTCTATCAGATCT
66 TTCAAAT-ATTTCTTTCTCTATATGTCATAATTTGTCTAAAATAACGATTATGTCTTTCAGATCT
* * * * * * * *
39215612 AAGAATGTGCCATTCATTCGATATAGATACGACCATATCCTTCACATTAATTATAATTCAATCGG
130 AAGAACGTGCCATTCATTCGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTGG
* *
39215677 GGACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATG
195 GAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATG
* *
39215742 TATTTCTACAAAATTATGATTATATCGCTTAGATCTGAGAACGTGTCATGTGTTGGAGAGCTAGA
260 TATTTATACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGTTGGA-AG-TAGA
39215807 CAATTGTTGTT
323 CAATTGTTGTT
*
39215818 CCATTTATTGATTCTAGTTCT-TTGAGGAAAGTG-AAAAGAGTTATGGGTGATTCGATGTAGTTA
1 CCA-TTATTGATTCTAGTTCTATTGAGGAAAGTGAAAAAAAGTTATGGGTGATTCGATGTAGTTA
* *
39215881 ATTCAAATATTTCTTTCTCTATATGTCACAATTTGTTTAAAATAACGATTATGTCTTTCAGATCT
65 ATTCAAATATTTCTTTCTCTATATGTCATAATTTGTCTAAAATAACGATTATGTCTTTCAGATCT
* * * * *
39215946 AAGAACGTGACATTCGTCCGATATAGATACAATCGTAACCTTTACCTTAATTTTAATTCATTTGG
130 AAGAACGTGCCATTCATTCGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTGG
* * * * *
39216011 GAATAGATTCTCTCCCTCTTCTTTAAAGGATTATTTAAAACAAGGAAGGTAATCGGTGTATGATG
195 GAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATG
* * * * * *
39216076 TATTTGTACAAAATTTTGATTATATTGCTTAGATTTGAGAACGTCTCATGTGTTGGAAAATGGGA
260 TATTTATACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGTTGG-AAGT-AGA
*
39216141 CAATTGATGTT
323 CAATTGTTGTT
* * * * *
39216152 CCCATTATTAATTCTAGTTCTATTAAGAAAAGTGAAAAAAAAGTTATGGGTGATTCGATATTGTT
1 -CCATTATTGATTCTAGTTCTATTGAGGAAAGTG-AAAAAAAGTTATGGGTGATTCGATGTAGTT
39216217 AATTCAAA
64 AATTCAAA
39216225 GTAGGAATGT
Statistics
Matches: 637, Mismatches: 92, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
333 2 0.00
334 302 0.47
335 71 0.11
336 225 0.35
337 37 0.06
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (333 bp):
CCATTATTGATTCTAGTTCTATTGAGGAAAGTGAAAAAAAGTTATGGGTGATTCGATGTAGTTAA
TTCAAATATTTCTTTCTCTATATGTCATAATTTGTCTAAAATAACGATTATGTCTTTCAGATCTA
AGAACGTGCCATTCATTCGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTGGG
AACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATCGATGTATGATGT
ATTTATACAAAATTATGATTATATCGCTTAGATCTGAGAACGTCTCATGTGTTGGAAGTAGACAA
TTGTTGTT
Found at i:39226703 original size:40 final size:39
Alignment explanation
Indices: 39226535--39226794 Score: 296
Period size: 40 Copynumber: 6.6 Consensus size: 39
39226525 TTGAATGCTG
* * * * *
39226535 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGT-TATAAA
** *
39226575 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG--ATACAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATA-AA
*
39226613 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATATAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAA
39226652 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAA
*
39226692 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-ATAAA
*
39226732 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAA
* * *
39226771 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39226795 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
37 4 0.02
38 28 0.14
39 69 0.35
40 89 0.45
41 8 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAA
Found at i:39226713 original size:79 final size:78
Alignment explanation
Indices: 39226535--39226794 Score: 298
Period size: 79 Copynumber: 3.3 Consensus size: 78
39226525 TTGAATGCTG
* * * * **
39226535 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TG-ATAAATCCGGGTTAAG-TCCCGAAGGCA
39226597 TTTGTGCGAG--ATACAA
63 -TTGTGCGAGTTATA-AA
39226613 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGAT-ATAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATGATAAATCCGGGTTAAGTCCCGAAGGCATT-
39226677 GTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAA
* *
39226692 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATGATAAATCCGGGTTAAGTCCCGAAGGCATTG
*
39226757 TGTGAGTTACTAAA
66 TGCGAGTTA-TAAA
* * *
39226771 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39226795 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
76 3 0.02
77 29 0.18
78 20 0.12
79 78 0.48
80 31 0.19
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATGATAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAA
Found at i:39226814 original size:79 final size:80
Alignment explanation
Indices: 39226588--39226829 Score: 260
Period size: 79 Copynumber: 3.1 Consensus size: 80
39226578 GGACTAAGAT
* * * * ** **
39226588 CCGAAGGCATTTGTGCGAGATAC--AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-GATATA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
39226650 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * ** ** *
39226665 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
39226730 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * *
39226745 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
39226809 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
39226823 CCGAAGG
1 CCGAAGG
39226830 TACGTGATTT
Statistics
Matches: 142, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
77 20 0.14
78 15 0.11
79 79 0.56
80 28 0.20
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:39234362 original size:39 final size:40
Alignment explanation
Indices: 39234118--39234380 Score: 282
Period size: 40 Copynumber: 6.6 Consensus size: 40
39234108 TTGAATGCTG
* * * * * *
39234118 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
39234158 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
39234198 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
39234238 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
39234278 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
39234318 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
39234357 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39234381 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
39 35 0.18
40 151 0.77
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:39234400 original size:79 final size:80
Alignment explanation
Indices: 39234119--39234415 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
39234109 TGAATGCTGT
* ** * * * **
39234119 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * **
39234182 TGTGCGAGATAC-AAGTT
64 CGTGCGAGTTACTAA-AA
* * * * **
39234199 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
39234263 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * *
39234279 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
39234343 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
39234358 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
39234416 TATGTGATTT
Statistics
Matches: 184, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 16 0.09
79 47 0.26
80 111 0.60
81 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:39242105 original size:33 final size:32
Alignment explanation
Indices: 39242051--39242211 Score: 196
Period size: 33 Copynumber: 4.9 Consensus size: 32
39242041 ACATGAGTGG
* *
39242051 TTGGAACATCTATTAGGGTAGCTTCATCAATGA
1 TTGGAACATCTA-TCGGGCAGCTTCATCAATGA
* * * *
39242084 TTGAAATATCTATCGGAGTAGCTTCATCATTGA
1 TTGGAACATCTATCGG-GCAGCTTCATCAATGA
39242117 TTGGAACATCTATCAGGGCAGCTTCATCAATGA
1 TTGGAACATCTATC-GGGCAGCTTCATCAATGA
* *
39242150 TTGGAACATCTATTGGGGCAGCTTCATCATTGA
1 TTGGAACATCTA-TCGGGCAGCTTCATCAATGA
*
39242183 TTGGAACATCTATCGGGACAACTTCATCA
1 TTGGAACATCTATCGGG-CAGCTTCATCA
39242212 TTCTGTTAGA
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.06
33 102 0.91
34 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (32 bp):
TTGGAACATCTATCGGGCAGCTTCATCAATGA
Found at i:39242161 original size:66 final size:66
Alignment explanation
Indices: 39242051--39242211 Score: 234
Period size: 66 Copynumber: 2.4 Consensus size: 66
39242041 ACATGAGTGG
* * * *
39242051 TTGGAACATCTATTAGGGTAGCTTCATCAATGATTGAAATATCTATCGGAGTAGCTTCATCATTG
1 TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGAAACATCTATCGGAGCAGCTTCATCATTG
39242116 A
66 A
* * *
39242117 TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATTGGGGCAGCTTCATCATTG
1 TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGAAACATCTATCGGAGCAGCTTCATCATTG
39242182 A
66 A
*
39242183 TTGGAACATCTATC-GGGACAACTTCATCA
1 TTGGAACATCTATCAGGG-CAGCTTCATCA
39242212 TTCTGTTAGA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
65 3 0.03
66 83 0.97
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (66 bp):
TTGGAACATCTATCAGGGCAGCTTCATCAATGATTGAAACATCTATCGGAGCAGCTTCATCATTG
A
Found at i:39242540 original size:15 final size:15
Alignment explanation
Indices: 39242520--39242549 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39242510 GGGAAGCCTC
39242520 TAGAATTAGTTCTCT
1 TAGAATTAGTTCTCT
39242535 TAGAATTAGTTCTCT
1 TAGAATTAGTTCTCT
39242550 CCATAGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TAGAATTAGTTCTCT
Done.