Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 78 of 208
Found at i:27803490 original size:13 final size:13
Alignment explanation
Indices: 27803472--27803501 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27803462 ATGAATCATA
27803472 ATATATAAAATAC
1 ATATATAAAATAC
*
27803485 ATATATAAAATAG
1 ATATATAAAATAC
27803498 ATAT
1 ATAT
27803502 TTTACAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (13 bp):
ATATATAAAATAC
Found at i:27803644 original size:3 final size:3
Alignment explanation
Indices: 27803636--27803675 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
27803626 ATATATAAGC
*
27803636 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27803676 TGAAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:27806325 original size:16 final size:16
Alignment explanation
Indices: 27806304--27806335 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27806294 GTAATTATTC
27806304 TTATTATATATGTAAT
1 TTATTATATATGTAAT
27806320 TTATTATATATGTAAT
1 TTATTATATATGTAAT
27806336 GTCCATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATTATATATGTAAT
Found at i:27806326 original size:19 final size:20
Alignment explanation
Indices: 27806284--27806330 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
27806274 TGATAGTAAA
*
27806284 TATATAATATGTAATTATTCT
1 TATAT-ATATGTAATTATTAT
27806305 TATTATATATGTAA-T-TTAT
1 TA-TATATATGTAATTATTAT
27806324 TATATAT
1 TATATAT
27806331 GTAATGTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 5 0.21
20 1 0.04
21 10 0.42
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
TATATATATGTAATTATTAT
Found at i:27831855 original size:25 final size:25
Alignment explanation
Indices: 27831823--27831932 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 25
27831813 TGCTCTTTCT
27831823 TGAGCCATATAATAGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATG
* * * *
27831848 TGAGCCATGTAACAGGAAGCTTATC
1 TGAGCCATATAATAGGAAGCTCATG
* * * *
27831873 CGGGCTATATAA-CGAGAAGCTCATG
1 TGAGCCATATAATAG-GAAGCTCATG
* *
27831898 CGAGCC--ATAATCGGGAAGCTCATG
1 TGAGCCATATAAT-AGGAAGCTCATG
27831922 TGAGCCA-ATAA
1 TGAGCCATATAA
27831933 CGGGTAGCTC
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
23 4 0.06
24 16 0.24
25 46 0.70
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
TGAGCCATATAATAGGAAGCTCATG
Found at i:27831917 original size:24 final size:24
Alignment explanation
Indices: 27831837--27832038 Score: 95
Period size: 24 Copynumber: 8.3 Consensus size: 24
27831827 CCATATAATA
* * *
27831837 GGAAGCTCATGTGAGCCATGTAACA
1 GGAAGCTCATGCGAGCCA-ATAACG
* * * *
27831862 GGAAGCTTATCCGGGCTATATAACG
1 GGAAGCTCATGCGAGCCA-ATAACG
*
27831887 AGAAGCTCATGCGAGCC-ATAATCG
1 GGAAGCTCATGCGAGCCAATAA-CG
*
27831911 GGAAGCTCATGTGAGCCAATAACG
1 GGAAGCTCATGCGAGCCAATAACG
* * * *
27831935 GGTAGCTC-CGAAGAGCCATTAACG
1 GGAAGCTCATG-CGAGCCAATAACG
** * *
27831959 GGAAGCTCCA-GATAACCATATATCG
1 GGAAGCT-CATGCGAGCCA-ATAACG
** * * *
27831984 AAAAGTTCAAGCGAGCCAATATCG
1 GGAAGCTCATGCGAGCCAATAACG
* * * *
27832008 GGAAGCTTAGGAGAGCCATTAACG
1 GGAAGCTCATGCGAGCCAATAACG
27832032 GGAAGCT
1 GGAAGCT
27832039 TACAAAGAGC
Statistics
Matches: 133, Mismatches: 37, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
23 5 0.04
24 79 0.59
25 49 0.37
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATGCGAGCCAATAACG
Found at i:27831980 original size:97 final size:99
Alignment explanation
Indices: 27831879--27832081 Score: 232
Period size: 97 Copynumber: 2.1 Consensus size: 99
27831869 TATCCGGGCT
* * * * *
27831879 ATATAACGAGAAGCTCATGCGAGCC-ATAATCGGGAAGCTCATGTGAGCCAATAACGGGTAGC-T
1 ATATAACGAAAAGCTCAAGCGAGCCAAT-ATCGGGAAGCTCAGGAGAGCCAATAACGGGAAGCTT
* * * *
27831942 CCGAAGAGCCATTAA-CGGGAAGCTCCAGATAACC
65 ACAAAGAGCCATTAATCGGGAAGCTCCAAAGAACC
* * * *
27831976 ATATATCGAAAAGTTCAAGCGAGCCAATATCGGGAAGCTTAGGAGAGCCATTAACGGGAAGCTTA
1 ATATAACGAAAAGCTCAAGCGAGCCAATATCGGGAAGCTCAGGAGAGCCAATAACGGGAAGCTTA
* * *
27832041 CAAAGAGCCTTTAATTGGGAAGCTCCAAAGAGCC
66 CAAAGAGCCATTAATCGGGAAGCTCCAAAGAACC
27832075 ATATAAC
1 ATATAAC
27832082 AGGACGCTCA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
97 50 0.58
98 15 0.17
99 21 0.24
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (99 bp):
ATATAACGAAAAGCTCAAGCGAGCCAATATCGGGAAGCTCAGGAGAGCCAATAACGGGAAGCTTA
CAAAGAGCCATTAATCGGGAAGCTCCAAAGAACC
Found at i:27832054 original size:25 final size:26
Alignment explanation
Indices: 27831996--27832076 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 26
27831986 AAGTTCAAGC
* **
27831996 GAGCCAAT-ATCGGGAAGCTTA-GGA
1 GAGCCATTAATCGGGAAGCTTACAAA
27832020 GAGCCATTAA-CGGGAAGCTTACAAA
1 GAGCCATTAATCGGGAAGCTTACAAA
* * *
27832045 GAGCCTTTAATTGGGAAGC-TCCAAA
1 GAGCCATTAATCGGGAAGCTTACAAA
27832070 GAGCCAT
1 GAGCCAT
27832077 ATAACAGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 18 0.38
25 22 0.47
26 7 0.15
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.19
Consensus pattern (26 bp):
GAGCCATTAATCGGGAAGCTTACAAA
Found at i:27832740 original size:21 final size:21
Alignment explanation
Indices: 27832716--27832755 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27832706 TTTGCAGCCC
27832716 ATTTAATTCATAAAATTTAGA
1 ATTTAATTCATAAAATTTAGA
** *
27832737 ATTTTTTTCATAAATTTTA
1 ATTTAATTCATAAAATTTA
27832756 CATCTTTACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTAATTCATAAAATTTAGA
Found at i:27837764 original size:19 final size:18
Alignment explanation
Indices: 27837742--27837783 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
27837732 TATAAATTCA
27837742 AAATAAAATTAAATAATC
1 AAATAAAATTAAATAATC
* *
27837760 GAAATTAAATTACATAATC
1 -AAATAAAATTAAATAATC
27837779 AAATA
1 AAATA
27837784 TGCGAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATAAAATTAAATAATC
Found at i:27838952 original size:46 final size:46
Alignment explanation
Indices: 27838885--27838976 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
27838875 TCATGCCAAG
27838885 ACCATTAAGGATAACTACCATTTTAAAACATATTTTAAAATTTTAA
1 ACCATTAAGGATAACTACCATTTTAAAACATATTTTAAAATTTTAA
27838931 ACCATTAAGGATAACTACCATTTTAAAACATATTTTAAAATTTTAA
1 ACCATTAAGGATAACTACCATTTTAAAACATATTTTAAAATTTTAA
27838977 GACTAACTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (46 bp):
ACCATTAAGGATAACTACCATTTTAAAACATATTTTAAAATTTTAA
Found at i:27838953 original size:26 final size:26
Alignment explanation
Indices: 27838885--27838957 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
27838875 TCATGCCAAG
27838885 ACCATTAAGGATAACTACCATTTTAA
1 ACCATTAAGGATAACTACCATTTTAA
* ***
27838911 AACA-T-ATTTTAA--A--ATTTTAA
1 ACCATTAAGGATAACTACCATTTTAA
27838931 ACCATTAAGGATAACTACCATTTTAA
1 ACCATTAAGGATAACTACCATTTTAA
27838957 A
1 A
27838958 ACATATTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
20 10 0.30
21 1 0.03
22 5 0.15
24 5 0.15
25 1 0.03
26 11 0.33
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.34
Consensus pattern (26 bp):
ACCATTAAGGATAACTACCATTTTAA
Found at i:27842441 original size:19 final size:20
Alignment explanation
Indices: 27842398--27842444 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
27842388 AATTACAAAA
*
27842398 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTAT
27842418 AAAAAATTCAAAAT-ATTCAT
1 AAAAAATTCAAAATAATT-AT
27842438 AAAAAAT
1 AAAAAAT
27842445 CTAAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTAT
Found at i:27846759 original size:16 final size:16
Alignment explanation
Indices: 27846734--27846786 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
27846724 TTGGTTCGCT
* *
27846734 GTAATAGAATAAAGGC
1 GTAATGGAATAGAGGC
*
27846750 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
27846766 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
27846782 GTAAT
1 GTAAT
27846787 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.30, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:27846855 original size:44 final size:46
Alignment explanation
Indices: 27846766--27846856 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
27846756 GAATAGATGC
*
27846766 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
27846812 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
27846856 G
1 G
27846857 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:27846857 original size:39 final size:44
Alignment explanation
Indices: 27846766--27846872 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
27846756 GAATAGATGC
*
27846766 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
27846812 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
27846852 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
27846873 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:27847035 original size:15 final size:15
Alignment explanation
Indices: 27847015--27847053 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
27847005 CATAATTGTT
27847015 ATAAAATATAATTTA
1 ATAAAATATAATTTA
27847030 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
27847047 ATAAAAT
1 ATAAAAT
27847054 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:27847060 original size:17 final size:17
Alignment explanation
Indices: 27847020--27847053 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27847010 TTGTTATAAA
27847020 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27847037 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27847054 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27847177 original size:17 final size:17
Alignment explanation
Indices: 27847138--27847170 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27847128 TATTATTAAT
27847138 TATAATTTAATAAAATA
1 TATAATTTAATAAAATA
27847155 TATAATTTAATAAAAT
1 TATAATTTAATAAAAT
27847171 TGTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATAATTTAATAAAATA
Found at i:27847206 original size:117 final size:117
Alignment explanation
Indices: 27847000--27847404 Score: 720
Period size: 117 Copynumber: 3.5 Consensus size: 117
27846990 TTAATCATTT
* * *
27847000 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
27847065 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
27847117 TTTAAAATAATTATTATTAATTATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
27847182 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
27847234 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
27847299 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
27847351 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTACTAAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAAT
27847405 CATAATATAT
Statistics
Matches: 274, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 274 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:27847269 original size:15 final size:15
Alignment explanation
Indices: 27847249--27847287 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
27847239 CATAATTGTT
27847249 ATAAAATATAATTTA
1 ATAAAATATAATTTA
27847264 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
27847281 ATAAAAT
1 ATAAAAT
27847288 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:27847294 original size:17 final size:17
Alignment explanation
Indices: 27847254--27847287 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27847244 TTGTTATAAA
27847254 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27847271 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27847288 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27847359 original size:20 final size:21
Alignment explanation
Indices: 27847320--27847359 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27847310 AATTTACTAA
*
27847320 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
27847341 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
27847360 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:27847393 original size:17 final size:17
Alignment explanation
Indices: 27847371--27847404 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27847361 TTATTATTAA
27847371 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
27847388 ATATAATTTACTAAAAT
1 ATATAATTTAATAAAAT
27847405 CATAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27847425 original size:23 final size:22
Alignment explanation
Indices: 27847380--27847469 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 22
27847370 AATATAATTT
* *
27847380 AATAAAATATATAATTTACTAA
1 AATATAATATATAATCTACTAA
27847402 AATCATAATATATAATACTA-TAA
1 AAT-ATAATATATAAT-CTACTAA
* *
27847425 AATATAATTTAAATAAT-TATTATTA
1 AATATAA--TATATAATCTACTA--A
*
27847450 AATATAATTTATAATCTACT
1 AATATAATATATAATCTACT
27847470 TTATTATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
22 9 0.17
23 25 0.46
24 12 0.22
25 8 0.15
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATATATAATCTACTAA
Found at i:27847456 original size:32 final size:32
Alignment explanation
Indices: 27847420--27847483 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
27847410 TATATAATAC
*
27847420 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
27847452 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
27847484 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:27849925 original size:29 final size:29
Alignment explanation
Indices: 27849904--27849962 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
27849894 CATTTTGATG
27849904 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
27849933 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
27849962 T
1 T
27849963 TATATAGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (29 bp):
TATTTTGATGTATTTCAATCATTATCGAT
Found at i:27853847 original size:126 final size:126
Alignment explanation
Indices: 27853622--27853873 Score: 459
Period size: 126 Copynumber: 2.0 Consensus size: 126
27853612 GCAGTACATT
27853622 TAGCAATTTCAGTTTAACAGTATAATTAAATCCTACCCCACCGCTACACTCCATAGTAAGAATTC
1 TAGCAATTTCAGTTTAACAGTATAATTAAATCCTACCCCACCGCTACACTCCATAGTAAGAATTC
* * *
27853687 CCTATAATTCTTATATCTCGAACACTCCAGTTTGTGGATAAACCACCAGTGTTACAAGTTA
66 CCTATAATTCTTATATCCCAAACACTCCAGTTTGTGGATAAACCACCAGCGTTACAAGTTA
* *
27853748 TAGCAATTTCAGTTTAACAGTATAATTGAATCCTACCCTACCGCTACACTCCATAGTAAGAATTC
1 TAGCAATTTCAGTTTAACAGTATAATTAAATCCTACCCCACCGCTACACTCCATAGTAAGAATTC
27853813 CCTATAATTCTTATATCCCAAACACTCCAGTTTGTGGATAAACCACCAGCGTTACAAGTTA
66 CCTATAATTCTTATATCCCAAACACTCCAGTTTGTGGATAAACCACCAGCGTTACAAGTTA
27853874 GTAAGCTGTC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 121 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (126 bp):
TAGCAATTTCAGTTTAACAGTATAATTAAATCCTACCCCACCGCTACACTCCATAGTAAGAATTC
CCTATAATTCTTATATCCCAAACACTCCAGTTTGTGGATAAACCACCAGCGTTACAAGTTA
Found at i:27855991 original size:47 final size:48
Alignment explanation
Indices: 27855868--27855992 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 48
27855858 ATTGACGAAA
* * * * *
27855868 AAGACCATGGTTGGACCATGGCAAT-ATGTGATATGTGGTTTCCGTAT
1 AAGACCATGGTTGGGCTATGGCATTGGTGTGATATGTGGCTTCCGTAT
* * * * *
27855915 AAGACCATAGCTAGGCTATGGCATCGGTGTGATATGT-GCTTCCGTGT
1 AAGACCATGGTTGGGCTATGGCATTGGTGTGATATGTGGCTTCCGTAT
*
27855962 AAGACCATGGTTGGGCTATGGCTTTGGTGTG
1 AAGACCATGGTTGGGCTATGGCATTGGTGTG
27855993 TGATATGCGA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
47 52 0.84
48 10 0.16
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (48 bp):
AAGACCATGGTTGGGCTATGGCATTGGTGTGATATGTGGCTTCCGTAT
Found at i:27856599 original size:25 final size:25
Alignment explanation
Indices: 27856543--27856644 Score: 90
Period size: 22 Copynumber: 4.3 Consensus size: 25
27856533 GAACCTTAGC
27856543 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
* ** *
27856568 GTACTCTCTGATTATTAGCATGTTA
1 GTGCTCTCTGATTATTAGCACATCA
* *
27856593 GTGCTCTCCG---ATTAGCACATCT
1 GTGCTCTCTGATTATTAGCACATCA
* *
27856615 GTGCTCTCTG--TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACATCA
27856637 GTGCTCTC
1 GTGCTCTC
27856645 AGTTCATTAG
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
22 32 0.52
23 1 0.02
25 29 0.47
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:27856654 original size:47 final size:48
Alignment explanation
Indices: 27856543--27856654 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 48
27856533 GAACCTTAGC
*
27856543 GTGCTCTCTGATTATTAGCACATCAGTACTCTCTGATTATTAGCATGTTA
1 GTGCTCTCAG-TTATTAGCACATCAGTACTCTCTGA-TATTAGCATGTTA
* * *
27856593 GTGCTCTCCG--ATTAGCACATCTGTGCTCTCTG-TA-TAGCACT-TTA
1 GTGCTCTCAGTTATTAGCACATCAGTACTCTCTGATATTAGCA-TGTTA
27856637 GTGCTCTCAGTTCATTAG
1 GTGCTCTCAGTT-ATTAG
27856655 TGCATAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
44 17 0.31
45 3 0.06
47 25 0.46
50 9 0.17
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (48 bp):
GTGCTCTCAGTTATTAGCACATCAGTACTCTCTGATATTAGCATGTTA
Found at i:27857635 original size:28 final size:28
Alignment explanation
Indices: 27857585--27857641 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
27857575 TTTAGTATTT
*
27857585 TATTTTTTATAATTTTTTAA-TTTTAAA
1 TATTTTTTATAATTTTATAATTTTTAAA
*
27857612 TATTTTTGTATAATTTTATGATTTTTAAA
1 TATTTTT-TATAATTTTATAATTTTTAAA
27857641 T
1 T
27857642 GAAATACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 11 0.42
29 8 0.31
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TATTTTTTATAATTTTATAATTTTTAAA
Found at i:27861199 original size:23 final size:24
Alignment explanation
Indices: 27861163--27861208 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
27861153 TTATCCAATG
27861163 TTATTTATAAATTTT-TGTATTAAT
1 TTATTTATAAATTTTAT-TATTAAT
*
27861187 TTATTT-TATATTTTATTATTAA
1 TTATTTATAAATTTTATTATTAA
27861209 ATATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTATTTATAAATTTTATTATTAAT
Found at i:27865575 original size:16 final size:18
Alignment explanation
Indices: 27865542--27865577 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
27865532 CCTTTTGTAA
27865542 TTAAAATATATATTATAT
1 TTAAAATATATATTATAT
27865560 TTAAAAT-TAT-TTATAT
1 TTAAAATATATATTATAT
27865576 TT
1 TT
27865578 CCTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 3 0.17
18 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAAATATATATTATAT
Found at i:27872418 original size:10 final size:10
Alignment explanation
Indices: 27872400--27872453 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
27872390 TTTATTTAAT
27872400 TTTTATAATAA
1 TTTT-TAATAA
*
27872411 TTATTAATAA
1 TTTTTAATAA
*
27872421 TTTTAAATAA
1 TTTTTAATAA
*
27872431 TTTTTAAAAA
1 TTTTTAATAA
*
27872441 TTTTTAAAAA
1 TTTTTAATAA
27872451 TTT
1 TTT
27872454 AATTAATTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
10 35 0.92
11 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:27875282 original size:47 final size:47
Alignment explanation
Indices: 27875229--27875373 Score: 149
Period size: 47 Copynumber: 3.1 Consensus size: 47
27875219 TCATATAATA
*
27875229 ATATTTATTATTAACAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAACAATTTTATGAAATTATATATAATTATTAAATT
* **
27875276 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAACAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * * *
27875320 ATATTTATTATCAAGAATTTTATGAAGTTATATATTATTATTAAATT
1 ATATTTATTATTAACAATTTTATGAAATTATATATAATTATTAAATT
27875367 ATATTTA
1 ATATTTA
27875374 ATAATAATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.32
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAACAATTTTATGAAATTATATATAATTATTAAATT
Found at i:27875323 original size:91 final size:91
Alignment explanation
Indices: 27875214--27875429 Score: 333
Period size: 91 Copynumber: 2.4 Consensus size: 91
27875204 ATGATTTTAG
*
27875214 TAAATTCATATAATAATATTTATTATTAACAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAATATTTATTATTAACAATTTTATGAAATTATATATCATTATTAAATTATA
* *
27875279 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATATTAAATTATA
* * * *
27875305 TAAATTCATATAAGAATATTTATTATCAAGAATTTTATGAAGTTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAATATTTATTATTAACAATTTTATGAAATTATATATCATTATTAAATTATA
27875370 TTTAATAATAATTATATTAAATTATA
66 TTTAATAATAATTATATTAAATTATA
* * * *
27875396 AAAATTCATATAAGAAAATTTATTAGTAATAATT
1 TAAATTCATATAAGAATATTTATTATTAACAATT
27875430 ATTTTAAATT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 113 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAATATTTATTATTAACAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATAATAATTATATTAAATTATA
Found at i:27875396 original size:16 final size:16
Alignment explanation
Indices: 27875359--27875396 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27875349 ATATATTATT
*
27875359 ATTA-AATTATATTTA
1 ATTATAATTATATTAA
*
27875374 ATAATAATTATATTAA
1 ATTATAATTATATTAA
27875390 ATTATAA
1 ATTATAA
27875397 AAATTCATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATAATTATATTAA
Found at i:27875407 original size:101 final size:97
Alignment explanation
Indices: 27875297--27875496 Score: 210
Period size: 101 Copynumber: 2.0 Consensus size: 97
27875287 TAATTATTTT
* * *
27875297 AAATTATAT-AAATTCATATAAG-AATATTTATTATCAAGAATTTTATGAAGTTATATATTATT-
1 AAATTATATAAAATT--TATAAGTAATAATTATT-T-AA-AATTTTATGAAATCATATATT-TTA
*
27875359 ATTAAATTATATTTAATAATAATTATATT-AAATTATAA
60 ATTAAAATATATTTAATAATAATTAT-TTCAAATTATAA
* * *
27875397 AAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTTTATTAAATCATATATTTTAAT
1 AAATT-ATAT---AAAATTTATAAGTAATAATTATTTAAAATTTTATGAAATCATATATTTTAAT
27875462 TAAAATATATTTAATAATAATTATTTCAAATTATA
62 TAAAATATATTTAATAATAATTATTTCAAATTATA
27875497 TTTTATAGTA
Statistics
Matches: 85, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
100 9 0.11
101 55 0.65
102 1 0.01
103 6 0.07
104 9 0.11
105 5 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (97 bp):
AAATTATATAAAATTTATAAGTAATAATTATTTAAAATTTTATGAAATCATATATTTTAATTAAA
ATATATTTAATAATAATTATTTCAAATTATAA
Found at i:27875431 original size:47 final size:45
Alignment explanation
Indices: 27875287--27875439 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 45
27875277 TATTTAATAT
* *
27875287 TAATTATTTTAAATTATATAAATTCATATAAGAATATTTATTATCAA
1 TAATTATATTAAATTATA-AAATTCATATAAGAAAATTTATTAT-AA
* * * * * **
27875334 GAATTTTATGAAGTTAT-ATATT-AT-T-ATTAAATTATATTTAATAA
1 TAATTATATTAAATTATAAAATTCATATAAGAAAATT-TA-TT-ATAA
27875378 TAATTATATTAAATTATAAAAATTCATATAAGAAAATTTATTAGTAA
1 TAATTATATTAAATTAT-AAAATTCATATAAGAAAATTTATTA-TAA
*
27875425 TAATTATTTTAAATT
1 TAATTATATTAAATT
27875440 TTATTAAATC
Statistics
Matches: 80, Mismatches: 17, Indels: 18
0.70 0.15 0.16
Matches are distributed among these distances:
42 5 0.06
43 3 0.04
44 19 0.24
45 6 0.08
46 5 0.06
47 33 0.41
48 3 0.04
49 6 0.08
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (45 bp):
TAATTATATTAAATTATAAAATTCATATAAGAAAATTTATTATAA
Found at i:27875736 original size:120 final size:120
Alignment explanation
Indices: 27875436--27875846 Score: 763
Period size: 120 Copynumber: 3.4 Consensus size: 120
27875426 AATTATTTTA
27875436 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27875501 ATAGTATCATATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTT-AGTAAATTCATATAAGAATATTGATTATTAAG
27875557 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27875622 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
27875677 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
*
27875741 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
27875797 AATTTTATTAAA-CTATATAATTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATC-ATATATTTTAATTAAAATATATTTAATAATAATTAT
27875847 GTTAAAATAT
Statistics
Matches: 286, Mismatches: 2, Indels: 5
0.98 0.01 0.02
Matches are distributed among these distances:
119 1 0.00
120 195 0.68
121 90 0.31
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:27875814 original size:59 final size:60
Alignment explanation
Indices: 27875508--27875815 Score: 224
Period size: 59 Copynumber: 5.1 Consensus size: 60
27875498 TTTATAGTAT
27875508 CATATATTATGATTTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 CATATATTATGA-TTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
* * * * * * * * * * *
27875569 TCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGTAT
1 -CATATATTATGATTTAAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA--AA
*
27875629 CATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 CATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
* * * * * * * *
27875689 TCATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTA
1 -CATATATTATGATTTAAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA--A
*
27875748 T
60 A
*
27875749 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 CATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
27875809 CTATATA
1 C-ATATA
27875816 ATTTAATTAA
Statistics
Matches: 181, Mismatches: 43, Indels: 45
0.67 0.16 0.17
Matches are distributed among these distances:
58 7 0.04
59 61 0.34
60 39 0.22
61 57 0.31
62 17 0.09
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (60 bp):
CATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
Found at i:27875824 original size:18 final size:18
Alignment explanation
Indices: 27875797--27875832 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27875787 GATTATTAAG
* *
27875797 AATTTTATTAAACTATAT
1 AATTTAATTAAAATATAT
27875815 AATTTAATTAAAATATAT
1 AATTTAATTAAAATATAT
27875833 TTAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTAATTAAAATATAT
Found at i:27876022 original size:39 final size:40
Alignment explanation
Indices: 27875979--27876083 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
27875969 TTCCATTATG
27875979 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
27876018 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
27876063 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
27876084 ACGCCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:27876077 original size:45 final size:44
Alignment explanation
Indices: 27875977--27876085 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 44
27875967 TTTTCCATTA
27875977 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
27876016 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
27876061 TGCTATTACACCTCTATTCCATTAC
1 TGCTATTACACCTCTATTCCATTAC
27876086 GCCTCTATTC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.42
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:27876090 original size:16 final size:16
Alignment explanation
Indices: 27876065--27876113 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
27876055 TTGATTTGCT
*
27876065 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
27876081 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
27876097 AATACGCCTCTATTCC
1 ATTACGCCTCTATTCC
27876113 A
1 A
27876114 ATACAGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.24, C:0.37, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:27876114 original size:16 final size:16
Alignment explanation
Indices: 27876071--27876117 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
27876061 TGCTATTACA
*
27876071 CCTCTATTCCATTACG
1 CCTCTATTCCAATACG
27876087 CCTCTATTCCAATACG
1 CCTCTATTCCAATACG
27876103 CCTCTATTCCAATAC
1 CCTCTATTCCAATAC
27876118 AGTGAACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (16 bp):
CCTCTATTCCAATACG
Found at i:27876312 original size:21 final size:21
Alignment explanation
Indices: 27876288--27876336 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
27876278 AAGTTATATG
*
27876288 TATTATAGA-TACATGCAAATA
1 TATTATA-ATTACATGCAAAAA
* *
27876309 TATTTTAATTACATGTAAAAA
1 TATTATAATTACATGCAAAAA
27876330 TATTATA
1 TATTATA
27876337 TGTATAGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (21 bp):
TATTATAATTACATGCAAAAA
Found at i:27876408 original size:20 final size:21
Alignment explanation
Indices: 27876370--27876409 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
27876360 TTAATATCAA
*
27876370 AATTGTGTACCAACTAATATG
1 AATTGTGTACCAACCAATATG
*
27876391 AATTG-GTACCCACCAATAT
1 AATTGTGTACCAACCAATAT
27876410 AAGTCAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (21 bp):
AATTGTGTACCAACCAATATG
Found at i:27878369 original size:3 final size:3
Alignment explanation
Indices: 27878361--27878402 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
27878351 AAGCTACTGG
*
27878361 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27878403 AGCAGATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:27879957 original size:22 final size:20
Alignment explanation
Indices: 27879932--27879981 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
27879922 AAAGAACAAG
27879932 GAAAAAAAAGAAAAGAAAGGAA
1 GAAAAAAAAGAAAAG--AGGAA
*
27879954 GAAAGAAAAGAAAAGAGGAA
1 GAAAAAAAAGAAAAGAGGAA
27879974 GAAGAAAA
1 GAA-AAAA
27879982 GAACTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 3 0.12
22 14 0.56
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
GAAAAAAAAGAAAAGAGGAA
Found at i:27879958 original size:17 final size:18
Alignment explanation
Indices: 27879938--27879984 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
27879928 CAAGGAAAAA
27879938 AAAGAAAAGAA-AGGAAG
1 AAAGAAAAGAAGAGGAAG
27879955 AAAGAAAAGAAAAGAGGAAG
1 AAAGAAAAG--AAGAGGAAG
27879975 -AAGAAAAGAA
1 AAAGAAAAGAA
27879985 CTAACATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGAAGAGGAAG
Found at i:27880816 original size:16 final size:18
Alignment explanation
Indices: 27880784--27880816 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27880774 ACTAAGAGAA
27880784 TGAATTTAGTGTTAATTG
1 TGAATTTAGTGTTAATTG
27880802 TGAATTT-GT-TTAATT
1 TGAATTTAGTGTTAATT
27880817 TTATGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (18 bp):
TGAATTTAGTGTTAATTG
Found at i:27881838 original size:21 final size:22
Alignment explanation
Indices: 27881806--27881864 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
27881796 AAAAGTAACC
27881806 AAAAT-AT-TTAAAATATTATA
1 AAAATCATATTAAAATATTATA
27881826 AAAA-CATATTAAAAT-TCTATA
1 AAAATCATATTAAAATAT-TATA
27881847 AAAATCATA--AAAATATTA
1 AAAATCATATTAAAATATTA
27881865 AAATATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
20 14 0.41
21 16 0.47
22 4 0.12
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAATCATATTAAAATATTATA
Found at i:27881858 original size:9 final size:8
Alignment explanation
Indices: 27881843--27881912 Score: 50
Period size: 9 Copynumber: 8.0 Consensus size: 8
27881833 ATTAAAATTC
27881843 TATAAAAA
1 TATAAAAA
27881851 TCATAAAAA
1 T-ATAAAAA
*
27881860 TATTAAAA
1 TATAAAAA
*
27881868 TATTAAAAT
1 TA-TAAAAA
*
27881877 TGATATAAAT
1 T-ATA-AAAA
*
27881887 TATAAAAT
1 TATAAAAA
27881895 TATAAAAAA
1 TAT-AAAAA
27881904 TCATAAAAA
1 T-ATAAAAA
27881913 CTTAAGTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
8 16 0.31
9 28 0.54
10 8 0.15
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (8 bp):
TATAAAAA
Found at i:27881911 original size:36 final size:37
Alignment explanation
Indices: 27881820--27881904 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 37
27881810 TATTTAAAAT
*
27881820 ATTATAAAAACATATTAAAATTCTATAAAAATCATAAA
1 ATTATAAAAA-ATATTAAAATTCGATAAAAATCATAAA
* * * *
27881858 AATAT-TAAAATATTAAAATT-GATATAAATTATAAA
1 ATTATAAAAAATATTAAAATTCGATAAAAATCATAAA
27881893 ATTATAAAAAAT
1 ATTATAAAAAAT
27881905 CATAAAAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 16 0.41
36 16 0.41
37 3 0.08
38 4 0.10
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (37 bp):
ATTATAAAAAATATTAAAATTCGATAAAAATCATAAA
Found at i:27885722 original size:16 final size:15
Alignment explanation
Indices: 27885700--27885736 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
27885690 CAATATTTTT
*
27885700 TTTTTATATTTATAG
1 TTTTTATATTTAAAG
27885715 TATTTTATATTTAAAG
1 T-TTTTATATTTAAAG
27885731 TTTTTA
1 TTTTTA
27885737 AAATTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
TTTTTATATTTAAAG
Found at i:27886033 original size:5 final size:5
Alignment explanation
Indices: 27886023--27886056 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
27886013 AATAATTCTT
27886023 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
27886057 TTATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:27889998 original size:3 final size:3
Alignment explanation
Indices: 27889990--27890025 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
27889980 AGCCACACAA
27889990 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27890026 CCATTAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27894733 original size:19 final size:18
Alignment explanation
Indices: 27894711--27894746 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27894701 ATAATTTTGA
27894711 AAATTCAAAATATTTATAG
1 AAATTC-AAATATTTATAG
*
27894730 AAATTCTAATATTTATA
1 AAATTCAAATATTTATA
27894747 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATTCAAATATTTATAG
Found at i:27894757 original size:24 final size:23
Alignment explanation
Indices: 27894720--27894767 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
27894710 AAAATTCAAA
* *
27894720 ATATTTATAGAAATTCTAATATTT
1 ATATTTATAAAAATTATAA-ATTT
*
27894744 ATATTTTTAAAAATTATAAATTT
1 ATATTTATAAAAATTATAAATTT
27894767 A
1 A
27894768 AAAAAAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTTATAAAAATTATAAATTT
Found at i:27896051 original size:12 final size:11
Alignment explanation
Indices: 27896026--27896056 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
27896016 CTGTACATAC
27896026 AATAATAATAT
1 AATAATAATAT
27896037 AATAATAATTAT
1 AATAATAA-TAT
27896049 AATAATAA
1 AATAATAA
27896057 ACAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAATAT
Found at i:27897733 original size:127 final size:127
Alignment explanation
Indices: 27897600--27898302 Score: 1131
Period size: 127 Copynumber: 5.5 Consensus size: 127
27897590 TCTTCAGTCT
* *
27897600 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
* * * *
27897665 GATAGGACTGAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGTTGTTAATTC
66 GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
* * *
27897727 GCTCCACTGCAACTTTAGGGAAATAGGATTGGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
*
27897792 GATAAAACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
66 GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
* *
27897854 GCTCCACTGCAACTTCAGGAAGATAGGATTAGTTTCTTCTGTCTGCTCAACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
27897919 GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
66 GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
* * * *
27897981 GCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCAACTGCAACTTCAGAGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
27898046 GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
66 GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
* * *
27898108 ACTCCACTGCAACTTCAGGAAGATAGGATTAGTTTCTTCTGCCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
* * * * *
27898173 GATAAGACTTG-ATGTGATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCGTATGTCAATCC
66 GATAAGAC-TGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
* * * *
27898235 GCTCCACTGCAACCTCAGGGAGATAGGATTAG-ATCTTCAGTTTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
27898299 GATA
66 GATA
27898303 GGATAGGTTT
Statistics
Matches: 538, Mismatches: 37, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
126 32 0.06
127 504 0.94
128 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (127 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCC
Found at i:27898090 original size:40 final size:40
Alignment explanation
Indices: 27897768--27898092 Score: 177
Period size: 40 Copynumber: 7.8 Consensus size: 40
27897758 GTTTCTTCTG
** *
27897768 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTGAATGCGA
1 TCTGCT-CACTGCAACTTCAGAAAGATAAGACTGAATGCGA
* * * **
27897809 TCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAA
1 TCTGCTCACTGCAACTTCAGAAAGATAAGA-CTGAATG-CGA
* * * * ** *
27897851 TCCGCTCCACTGCAACTTCAGGAAGATAGGATTAGTTTCTTCTG-
1 TCTGCT-CACTGCAACTTCAGAAAGATAAGACT-G--AATGC-GA
**
27897895 TCTGCTCAACTGCAACTTCAGGGAGATAAGACTGAATGCGA
1 TCTGCTC-ACTGCAACTTCAGAAAGATAAGACTGAATGCGA
* * * **
27897936 TCTGCTCTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAA
1 TCTGCTCACTGCAACTTCAGAAAGATAAGA-CTGAATG-CGA
* * ** * * ** *
27897978 TCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTG-
1 TCTGCT-CACTGCAACTTCAGAAAGATAAGACT-G--AATGC-GA
*
27898022 TCTGCTCAACTGCAACTTCAGAGAGATAAGACTGAATGCGA
1 TCTGCTC-ACTGCAACTTCAGAAAGATAAGACTGAATGCGA
* *
27898063 TCTGCTCTCTGCAACCTCAGAAAGATAAGA
1 TCTGCTCACTGCAACTTCAGAAAGATAAGA
27898093 TCTGGATGTT
Statistics
Matches: 209, Mismatches: 57, Indels: 37
0.69 0.19 0.12
Matches are distributed among these distances:
40 60 0.29
41 36 0.17
42 14 0.07
43 44 0.21
44 53 0.25
45 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
TCTGCTCACTGCAACTTCAGAAAGATAAGACTGAATGCGA
Found at i:27898132 original size:83 final size:83
Alignment explanation
Indices: 27897771--27898132 Score: 268
Period size: 83 Copynumber: 4.3 Consensus size: 83
27897761 TCTTCTGTCT
* * *
27897771 GCTCCACTGCAACTTCAGGGAGATAAAACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGATA
1 GCTCCACTGCAACTTCAGGAAGATAAGACTGAATGCGATCTGCTCACTGCAACCTCAGAAAGATA
27897836 AGATCTGGATGTTAATCC
66 AGATCTGGATGTTAATCC
* * ** * * **
27897854 GCTCCACTGCAACTTCAGGAAGATAGGATTAGTTTCTTCTG-TCTGCTCAACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGAAGATAAGACT-G--AATGC-GATCTGCTC-ACTGCAACCTCAGAA
* ** *
27897918 AGATAAGA-CTGAATG-CGATCT
61 AGATAAGATCTGGATGTTAATCC
* * * * ** * * * **
27897939 GCT-CTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTTAGGGAG
1 GCTCCACTGCAACTTCAGGAAGATAAGA-CTGAATG-CGATCTGCT-CACTGCAACCTCAGAAAG
* * * ** *
27898003 ATAGGAT-TGGTTTCTTCTGTCT
63 ATAAGATCTGG-ATGTT-AATCC
* *
27898025 GCTCAACTGCAACTTCA-GAGAGATAAGACTGAATGCGATCTGCTCTCTGCAACCTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGA-AGATAAGACTGAATGCGATCTGCTCACTGCAACCTCAGAAAGAT
27898089 AAGATCTGGATGTTAATCC
65 AAGATCTGGATGTTAATCC
*
27898108 ACTCCACTGCAACTTCAGGAAGATA
1 GCTCCACTGCAACTTCAGGAAGATA
27898133 GGATTAGTTT
Statistics
Matches: 207, Mismatches: 55, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
82 1 0.00
83 76 0.37
84 48 0.23
85 16 0.08
86 28 0.14
87 38 0.18
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (83 bp):
GCTCCACTGCAACTTCAGGAAGATAAGACTGAATGCGATCTGCTCACTGCAACCTCAGAAAGATA
AGATCTGGATGTTAATCC
Found at i:27899563 original size:15 final size:15
Alignment explanation
Indices: 27899551--27899582 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
27899541 CCACTTTTAC
27899551 TTTTTCCATTTTTCA
1 TTTTTCCATTTTTCA
27899566 TTTTT-CA-TTTTCA
1 TTTTTCCATTTTTCA
27899579 TTTT
1 TTTT
27899583 CATTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.59
14 2 0.12
15 5 0.29
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTCCATTTTTCA
Found at i:27899589 original size:7 final size:7
Alignment explanation
Indices: 27899551--27899589 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
27899541 CCACTTTTAC
27899551 TTTTTCCA
1 TTTTT-CA
27899559 TTTTTCA
1 TTTTTCA
27899566 TTTTTCA
1 TTTTTCA
27899573 -TTTTCA
1 TTTTTCA
27899579 -TTTTCA
1 TTTTTCA
27899585 TTTTT
1 TTTTT
27899590 TTCACATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 13 0.43
8 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:27902053 original size:14 final size:16
Alignment explanation
Indices: 27902022--27902056 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
27902012 TTACTAATGT
27902022 ATGCAATGCGATGAAA
1 ATGCAATGCGATGAAA
27902038 ATGCAATGC-A-GAAA
1 ATGCAATGCGATGAAA
27902052 ATGCA
1 ATGCA
27902057 TTGTTTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 1 0.05
16 9 0.47
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.17
Consensus pattern (16 bp):
ATGCAATGCGATGAAA
Found at i:27906060 original size:12 final size:11
Alignment explanation
Indices: 27906035--27906065 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
27906025 CTGTACATAC
27906035 AATAATAATAT
1 AATAATAATAT
27906046 AATAATAATTAT
1 AATAATAA-TAT
27906058 AATAATAA
1 AATAATAA
27906066 ACAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAATAT
Found at i:27916619 original size:45 final size:45
Alignment explanation
Indices: 27916568--27916658 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
27916558 GCAAGAAAGA
27916568 TCAATTAGACTAAGATGGGAAAAGAACATCTAGCAAATAGAATAT
1 TCAATTAGACTAAGATGGGAAAAGAACATCTAGCAAATAGAATAT
27916613 TCAATTAGACTAAGATGGGAAAAGAACATCTAGCAAATAGAATAT
1 TCAATTAGACTAAGATGGGAAAAGAACATCTAGCAAATAGAATAT
27916658 T
1 T
27916659 TTTAGCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (45 bp):
TCAATTAGACTAAGATGGGAAAAGAACATCTAGCAAATAGAATAT
Found at i:27920446 original size:25 final size:26
Alignment explanation
Indices: 27920401--27920450 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
27920391 GCCATATGTC
* *
27920401 AAAAAAGAAAAAATTATTTAAAATTT
1 AAAAAACAAAAAATCATTTAAAATTT
27920427 AAAAAACAAAAAATCA-TTAAAATT
1 AAAAAACAAAAAATCATTTAAAATT
27920451 AGAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAAACAAAAAATCATTTAAAATTT
Found at i:27920456 original size:25 final size:24
Alignment explanation
Indices: 27920401--27920469 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 24
27920391 GCCATATGTC
*
27920401 AAAAAAGAAAAAATTATTTAAAATTT
1 AAAAAA-AAAAAATCA-TTAAAATTT
27920427 AAAAAACAAAAAATCATTAAAA-TT
1 AAAAAA-AAAAAATCATTAAAATTT
27920451 AGAAAATTAAAAAAATCAT
1 A-AAAA--AAAAAAATCAT
27920470 AATTTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 3 0.08
25 10 0.26
26 24 0.63
27 1 0.03
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (24 bp):
AAAAAAAAAAAATCATTAAAATTT
Found at i:27929483 original size:22 final size:22
Alignment explanation
Indices: 27929457--27929499 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27929447 TCAAAGTTAA
*
27929457 TAGATGACTC-ATACATAAATAG
1 TAGATGAC-CAATAAATAAATAG
27929479 TAGATGACCAATAAATAAATA
1 TAGATGACCAATAAATAAATA
27929500 CTTTTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (22 bp):
TAGATGACCAATAAATAAATAG
Found at i:27936163 original size:19 final size:20
Alignment explanation
Indices: 27936141--27936183 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
27936131 AAATATAATC
27936141 ATTTAATT-A-AATTATTAAA
1 ATTTAATTAATAATT-TTAAA
27936160 ATTT-ATTAATAATTTTAAA
1 ATTTAATTAATAATTTTAAA
27936179 ATTTA
1 ATTTA
27936184 TATTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.14
19 14 0.67
20 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAATTAATAATTTTAAA
Found at i:27943862 original size:126 final size:126
Alignment explanation
Indices: 27943633--27943883 Score: 421
Period size: 126 Copynumber: 2.0 Consensus size: 126
27943623 AAAACCACGA
* *
27943633 GTAGAAGAGAAAAAAATTCACTATGTCGAATTCAAATGATTACAAAAGAAGTAGACTATGTCTAT
1 GTAGAAGAGAAAAAAATTCACTATGTCGAATTCAAATAATTACAAAAGAAGTAGACTATGTATAT
* *
27943698 TTATAGGCTTGTAAAACCATATTCTAATAGGAGTGTAATAAAATTGAAACACCTTATTCTG
66 TTATAGGCTTGTAAAACCATATTCTAATAAGAGCGTAATAAAATTGAAACACCTTATTCTG
* * * * *
27943759 GTAGAGGAGAAGAAAATTCACTATGTCGAATTCGAATAATTACAAGAGAAGTAGATTATGTATAT
1 GTAGAAGAGAAAAAAATTCACTATGTCGAATTCAAATAATTACAAAAGAAGTAGACTATGTATAT
27943824 TTATAGGCTTGTAAAACCATATTCTAATAAGAGCGTAATAAAATTGAAACACCTTATTCT
66 TTATAGGCTTGTAAAACCATATTCTAATAAGAGCGTAATAAAATTGAAACACCTTATTCT
27943884 AATTAATATT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (126 bp):
GTAGAAGAGAAAAAAATTCACTATGTCGAATTCAAATAATTACAAAAGAAGTAGACTATGTATAT
TTATAGGCTTGTAAAACCATATTCTAATAAGAGCGTAATAAAATTGAAACACCTTATTCTG
Found at i:27958137 original size:15 final size:16
Alignment explanation
Indices: 27958114--27958145 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27958104 GATTCCCAAG
27958114 ACAA-TTTTTTAAAAA
1 ACAAGTTTTTTAAAAA
27958129 ACAAGTTTTTTAAAAA
1 ACAAGTTTTTTAAAAA
27958145 A
1 A
27958146 AAAAGGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
ACAAGTTTTTTAAAAA
Found at i:27960476 original size:141 final size:142
Alignment explanation
Indices: 27960161--27960655 Score: 606
Period size: 143 Copynumber: 3.5 Consensus size: 142
27960151 CTTCATAGAA
* * * * *
27960161 ACTTCAGGAAGATAAGGCTGGTGACTTCAATTTGCTGCACCGCAACTTCAGGAAGATAAGATTCG
1 ACTTCAGG-AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCG
* * * *
27960226 CCATAATTTGTAGCTTTAATCTGTTCCACTGCTACGCCAGGGAAATAAGATTCGATGTCTTCAAT
65 CCATAACTTGTAGCTTTAATCTGTTCCACTGCTACGCCAAGGAAATAAGATTCGCTGTCTTCAGT
*
27960291 ATGCTCCGCTGCT
130 CTGCTCCGCTGCT
* **
27960304 ACGTT-AGAGAGATAAGGCTGGTGGCTACAATCTGCTCCACTATAACTTCAAGAAGATAAGATTC
1 AC-TTCAG-GAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTC
* * * * ** *
27960368 GCCATAGCTTGCAACTTTAATCTATTCCACTATTACACCAAGG-AA-AAGATTCGCTGTCTTCAG
64 GCCATAACTTGTAGCTTTAATCTGTTCCACTGCTACGCCAAGGAAATAAGATTCGCTGTCTTCAG
27960431 TCTGCTCCGCTG-T
129 TCTGCTCCGCTGCT
* *
27960444 AACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATTC
1 -ACTTC-AGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTC
* * *
27960509 ACCATAACTTGTAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTCTTCAG
64 GCCATAACTTGTAGCTTTAATCTGTTCCACTGCTACGCCAAGGAAATAAGATTCGCTGTCTTCAG
27960574 TCTGCTCCGCTGCT
129 TCTGCTCCGCTGCT
** ** *
27960588 ACTTCAGGGAGAT-AGAATTATTGGCTTTAATCTGCTCCACTGCAACTTC-AGAGAGATAAGATT
1 ACTTCA-GGAGATAAG-GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGA-AGATAAGATT
27960651 CGCCA
63 CGCCA
27960656 ACTTCTTCAA
Statistics
Matches: 300, Mismatches: 41, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
140 3 0.01
141 115 0.38
142 11 0.04
143 167 0.56
144 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (142 bp):
ACTTCAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGC
CATAACTTGTAGCTTTAATCTGTTCCACTGCTACGCCAAGGAAATAAGATTCGCTGTCTTCAGTC
TGCTCCGCTGCT
Found at i:27961014 original size:24 final size:24
Alignment explanation
Indices: 27960978--27961033 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
27960968 CAGATTGCCC
*
27960978 CCACTGTAGTCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
27961002 CCACTGTAATCTTCTAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
27961026 CCACTGTA
1 CCACTGTA
27961034 CTTTTGGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:27967703 original size:22 final size:22
Alignment explanation
Indices: 27967672--27967718 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
27967662 ATTATATGTA
27967672 CTTGTATTGTTCACCTCGTTTT
1 CTTGTATTGTTCACCTCGTTTT
*
27967694 CTTGTGTTGTTCACCTCGTTTT
1 CTTGTATTGTTCACCTCGTTTT
27967716 CTT
1 CTT
27967719 TTTTCCTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.06, C:0.23, G:0.15, T:0.55
Consensus pattern (22 bp):
CTTGTATTGTTCACCTCGTTTT
Found at i:27983496 original size:20 final size:19
Alignment explanation
Indices: 27983451--27983496 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
27983441 AGATAAATAT
*
27983451 TTAATTTATTTTAATATTAA
1 TTAA-TTATTTTAACATTAA
27983471 TATAATTATTTTAACATTAAA
1 T-TAATTATTTTAACATT-AA
27983492 TTAAT
1 TTAAT
27983497 AAAATACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTATTTTAACATTAA
Found at i:27988815 original size:30 final size:31
Alignment explanation
Indices: 27988766--27988828 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
27988756 AGTATTTTTC
27988766 TTCTAATTTTCTCTTTTCAAATTTGAACATT
1 TTCTAATTTTCTCTTTTCAAATTTGAACATT
27988797 TTCTAATTTTCT-TTTTCAAATTTGAACATT
1 TTCTAATTTTCTCTTTTCAAATTTGAACATT
27988827 TT
1 TT
27988829 ACTGAGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.57
Consensus pattern (31 bp):
TTCTAATTTTCTCTTTTCAAATTTGAACATT
Found at i:27993418 original size:17 final size:17
Alignment explanation
Indices: 27993398--27993430 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27993388 ACTTTAAAAT
27993398 TATATATTTTTTAATTA
1 TATATATTTTTTAATTA
27993415 TATATATTTTTTAATT
1 TATATATTTTTTAATT
27993431 TTTAAGTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATATATTTTTTAATTA
Found at i:27994817 original size:32 final size:32
Alignment explanation
Indices: 27994776--27994837 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
27994766 CATCTATTTT
27994776 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
27994808 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
27994838 AACCAAAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:27997565 original size:21 final size:20
Alignment explanation
Indices: 27997535--27997574 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27997525 TTTAGTAAAA
27997535 ATTTAAAGAAACATATTATAT
1 ATTTAAAGAAA-ATATTATAT
* *
27997556 ATTTAGAGAAAATGTTATA
1 ATTTAAAGAAAATATTATA
27997575 AATAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTTAAAGAAAATATTATAT
Found at i:27998014 original size:2 final size:2
Alignment explanation
Indices: 27998007--27998040 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27997997 GGAAGCGAGC
27998007 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27998041 TCCCATCTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:28003673 original size:3 final size:3
Alignment explanation
Indices: 28003665--28003689 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
28003655 AAGTTTTAAG
28003665 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
28003690 GTTTTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:28017205 original size:19 final size:20
Alignment explanation
Indices: 28017172--28017227 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
28017162 TACTTGAAAT
*
28017172 TTATTTTAAATTTTTATAATA
1 TTATTTTCAATTTTTAT-ATA
28017193 TT-TTTTCAATTTTTATATA
1 TTATTTTCAATTTTTATATA
*
28017212 TTATTTTGAATTTTTA
1 TTATTTTCAATTTTTA
28017228 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 25 0.78
21 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTCAATTTTTATATA
Found at i:28017758 original size:11 final size:11
Alignment explanation
Indices: 28017736--28017778 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
28017726 ATTTTATAAA
*
28017736 AAAATATTTTT
1 AAAATTTTTTT
*
28017747 AAACTTTTTTT
1 AAAATTTTTTT
28017758 AAAATTTTTTTT
1 AAAA-TTTTTTT
*
28017770 ACAATTTTT
1 AAAATTTTT
28017779 ATGATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (11 bp):
AAAATTTTTTT
Found at i:28020746 original size:19 final size:19
Alignment explanation
Indices: 28020701--28020740 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
28020691 AGTTCATGTT
* *
28020701 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
*
28020720 TTCAATTCACTTTTTCAAA
1 TTCAATTCACATTTTCAAA
28020739 TT
1 TT
28020741 ATATTCCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.53
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:28020939 original size:6 final size:6
Alignment explanation
Indices: 28020909--28020950 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
28020899 AGTACCTGAT
* *
28020909 CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
28020951 TTCAACACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:28020979 original size:33 final size:33
Alignment explanation
Indices: 28020942--28021016 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
28020932 AACAGTAACA
* *
28020942 GTAACAGTATTCAACACACAAAGTGTTGAATCT
1 GTAACAGTATTCAACACACAAAGTGTCGAATCG
*
28020975 GTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTATTCAACACACAAAGTGTCGAATCG
28021008 GTAACAGTA
1 GTAACAGTA
28021017 ATAGTAGTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (33 bp):
GTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:28021097 original size:135 final size:134
Alignment explanation
Indices: 28020910--28021258 Score: 451
Period size: 135 Copynumber: 2.5 Consensus size: 134
28020900 GTACCTGATC
* *
28020910 AGTAATCAGTAACGGTAGCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT
1 AGTAATCAGTAAC-GTAGTAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
* *
28020975 GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAATAGTAGTCGGCACGTAAGTGCC
65 GTAACAGTATTCGACACACAAAGTGTCGAATC-GTAACAGTAACAGTAGTCGGCACATAAGTGCC
28021040 TAAT-T
129 TAATCT
* *
28021045 AGTAATTAGTAACTGTAGTAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 AGTAATCAGTAAC-GTAGTAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
28021110 GTAACAGTAACGGTAACAGCATTCGACACACAAAGTGTCGAATCGTAACAGTAACAGTAGTCGGC
65 GTAAC----A--GT------ATTCGACACACAAAGTGTCGAATCGTAACAGTAACAGTAGTCGGC
*
28021175 ACATAAGTGCCTGATCT
118 ACATAAGTGCCTAATCT
28021192 -GTAATCAGTAACG--GTAG---CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTG
1 AGTAATCAGTAACGTAGTAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTG
28021251 TAACAGTA
66 TAACAGTA
28021259 ATGGTAACAG
Statistics
Matches: 191, Mismatches: 10, Indels: 33
0.82 0.04 0.14
Matches are distributed among these distances:
128 1 0.01
134 2 0.01
135 65 0.34
136 1 0.01
139 1 0.01
140 45 0.24
141 2 0.01
143 4 0.02
145 1 0.01
146 44 0.23
147 25 0.13
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (134 bp):
AGTAATCAGTAACGTAGTAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTG
TAACAGTATTCGACACACAAAGTGTCGAATCGTAACAGTAACAGTAGTCGGCACATAAGTGCCTA
ATCT
Found at i:28021139 original size:45 final size:45
Alignment explanation
Indices: 28021065--28021304 Score: 167
Period size: 45 Copynumber: 5.2 Consensus size: 45
28021055 AACTGTAGTA
* * * *
28021065 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGGTAACAGCATTCGACACACAAAGTGCTGAATCT
28021110 GTAACAGTAACGGTAACAGCATTCGACACACAAAGTG-TCGAATC-
1 GTAACAGTAACGGTAACAGCATTCGACACACAAAGTGCT-GAATCT
* * *
28021154 GTAACAGTAACAGT---AG---TCGGCACA-TAAGTGCCTG-ATCT
1 GTAACAGTAACGGTAACAGCATTCGACACACAAAGTG-CTGAATCT
*
28021192 GTAATCAGTAACGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAA-CAGTAAC----G--GTAACAG---C---ATTCGACACACAAAGTGCTGAATCT
* * * *
28021250 GTAACAGTAATGGTAACAGTATTCGCCACACAAAGTGCTGAATCG
1 GTAACAGTAACGGTAACAGCATTCGACACACAAAGTGCTGAATCT
28021295 GTAACAGTAA
1 GTAACAGTAA
28021305 TAGTAGTTGG
Statistics
Matches: 154, Mismatches: 16, Indels: 50
0.70 0.07 0.23
Matches are distributed among these distances:
37 8 0.05
38 12 0.08
39 8 0.05
41 2 0.01
44 14 0.09
45 72 0.47
48 2 0.01
51 7 0.05
53 1 0.01
57 15 0.10
58 13 0.08
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGCATTCGACACACAAAGTGCTGAATCT
Found at i:28021258 original size:57 final size:57
Alignment explanation
Indices: 28021154--28021270 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 57
28021144 GTGTCGAATC
** * *
28021154 GTAACAGTAACAGTAGTCGGCACATAAGTGCCTGATCTGTAATCAGTAACGGTAGCA
1 GTAACAGTAACAGTAGTCAACACAAAAGTGCCTGATCTGTAATCAGTAACGGTAACA
* *
28021211 GTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA-CAGTAATGGTAACA
1 GTAACAGTAACAGTAGTCAACACA-AAAGTGCCTG-ATCTGTAATCAGTAACGGTAACA
28021268 GTA
1 GTA
28021271 TTCGCCACAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 39 0.75
58 13 0.25
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (57 bp):
GTAACAGTAACAGTAGTCAACACAAAAGTGCCTGATCTGTAATCAGTAACGGTAACA
Found at i:28021280 original size:140 final size:144
Alignment explanation
Indices: 28020975--28021336 Score: 547
Period size: 140 Copynumber: 2.5 Consensus size: 144
28020965 TGTTGAATCT
*
28020975 GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAATAGTAGTCGGCACGTAAGTGCC
1 GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAATAGTAGTCGGCACATAAGTGCC
* *
28021040 TAAT-TAGTAATTAGTAACTGTAGTAGTAACAATAACAGTAACAGTATTCAACACACAAAGTGCT
66 TGATCT-GTAATCAGTAACTG-AGTAG--ACAATAACAGTAACAGTATTCAACACACAAAGTGCT
28021104 GAATCTGTAACAGTAACG
127 GAATCTGTAACAGTAACG
* *
28021122 GTAACAGCATTCGACACACAAAGTGTCGAATC-GTAACAGTAACAGTAGTCGGCACATAAGTGCC
1 GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAATAGTAGTCGGCACATAAGTGCC
*
28021186 TGATCTGTAATCAGTAAC-G-GTAG-CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
66 TGATCTGTAATCAGTAACTGAGTAGACAATAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
*
28021248 CTGTAACAGTAATG
131 CTGTAACAGTAACG
* *
28021262 GTAACAGTATTCGCCACACAAAGTG-CTGAATCGGTAACAGTAATAGTAGTTGGCACATAAGTGC
1 GTAACAGTATTCGACACACAAAGTGTC-GAATCGGTAACAGTAATAGTAGTCGGCACATAAGTGC
*
28021326 CTGATCAGTAA
65 CTGATCTGTAA
28021337 GCCGACAAAA
Statistics
Matches: 200, Mismatches: 12, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
139 1 0.00
140 79 0.40
141 39 0.19
143 4 0.02
145 1 0.00
146 44 0.22
147 32 0.16
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (144 bp):
GTAACAGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAATAGTAGTCGGCACATAAGTGCC
TGATCTGTAATCAGTAACTGAGTAGACAATAACAGTAACAGTATTCAACACACAAAGTGCTGAAT
CTGTAACAGTAACG
Found at i:28025580 original size:6 final size:6
Alignment explanation
Indices: 28025564--28025596 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
28025554 AGAAACTTTT
28025564 AATAA- AATAAG AATAAG AATAAG AATAA- AATAA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAA
28025597 AAGATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (6 bp):
AATAAG
Found at i:28025586 original size:12 final size:11
Alignment explanation
Indices: 28025564--28025606 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
28025554 AGAAACTTTT
28025564 AATAAAATAAG
1 AATAAAATAAG
28025575 AATAAGAATAAG
1 AATAA-AATAAG
*
28025587 AATAAAATAAA
1 AATAAAATAAG
28025598 AGATAAAAT
1 A-ATAAAAT
28025607 TTAAGGAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (11 bp):
AATAAAATAAG
Found at i:28039885 original size:15 final size:15
Alignment explanation
Indices: 28039855--28039897 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
28039845 CAAACAACAA
*
28039855 AAAAAATAGAAGAAG
1 AAAAAATAAAAGAAG
*
28039870 AAAAAATAAAATAAG
1 AAAAAATAAAAGAAG
28039885 ATTAAAAATAAAA
1 A--AAAAATAAAA
28039898 ATAAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.58
17 10 0.42
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAAGAAG
Found at i:28044267 original size:24 final size:24
Alignment explanation
Indices: 28044240--28044286 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
28044230 TGGAATTTTA
*
28044240 TTTATCATTCACCAA-AAAGTATTG
1 TTTATCATCCACCAACAAA-TATTG
28044264 TTTATCATCCACCAACAAATATT
1 TTTATCATCCACCAACAAATATT
28044287 TAATATGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (24 bp):
TTTATCATCCACCAACAAATATTG
Found at i:28047251 original size:33 final size:29
Alignment explanation
Indices: 28047179--28047236 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
28047169 ATTTTGAAGC
28047179 ACAATGGCTGTGTTAGTTTCTTCTTCTTT
1 ACAATGGCTGTGTTAGTTTCTTCTTCTTT
28047208 ACAATGGCTGTGTTAGTTTCTTCTTCTTT
1 ACAATGGCTGTGTTAGTTTCTTCTTCTTT
28047237 CTTTCCGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.52
Consensus pattern (29 bp):
ACAATGGCTGTGTTAGTTTCTTCTTCTTT
Found at i:28054775 original size:19 final size:19
Alignment explanation
Indices: 28054733--28054775 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
28054723 GAAAAGAGCG
28054733 AAAAAGAAGAAAAAGAAAA
1 AAAAAGAAGAAAAAGAAAA
* *
28054752 CAAAAGTAAG-AAATGAAAA
1 AAAAAG-AAGAAAAAGAAAA
28054771 AAAAA
1 AAAAA
28054776 ATGAGAACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAAGAAGAAAAAGAAAA
Found at i:28069047 original size:4 final size:4
Alignment explanation
Indices: 28069038--28069067 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
28069028 ATCAAGCAAC
28069038 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
28069068 GAAGGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:28072638 original size:20 final size:22
Alignment explanation
Indices: 28072609--28072649 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
28072599 TTCTCGTAAT
28072609 TTTATATTTT-A-AAAAATAAA
1 TTTATATTTTCATAAAAATAAA
*
28072629 TTTATTTTTTCATAAAAATAA
1 TTTATATTTTCATAAAAATAA
28072650 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATTTTCATAAAAATAAA
Found at i:28074660 original size:24 final size:24
Alignment explanation
Indices: 28074626--28074677 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
28074616 TTTCTAGAAG
* **
28074626 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
28074650 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
28074674 ATTT
1 ATTT
28074678 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:28082366 original size:18 final size:18
Alignment explanation
Indices: 28082343--28082381 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
28082333 AGAATGAGGG
*
28082343 GAAAGGGAGGGAGACAAA
1 GAAAGGGAGGGAGAAAAA
28082361 GAAAGGGAGGGAGAAAAA
1 GAAAGGGAGGGAGAAAAA
28082379 GAA
1 GAA
28082382 GTGCTGCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.44, T:0.00
Consensus pattern (18 bp):
GAAAGGGAGGGAGAAAAA
Found at i:28082411 original size:2 final size:2
Alignment explanation
Indices: 28082404--28082443 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
28082394 ATTAGCATTA
*
28082404 TC TC TC TC TC TC TC TC TC CC T- TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28082444 GTGGACAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:28083155 original size:15 final size:15
Alignment explanation
Indices: 28083135--28083165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28083125 GGCCCAAGTC
28083135 TGACTTGACTATTTT
1 TGACTTGACTATTTT
*
28083150 TGACTTGACTGTTTT
1 TGACTTGACTATTTT
28083165 T
1 T
28083166 AAGTTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (15 bp):
TGACTTGACTATTTT
Found at i:28083370 original size:31 final size:31
Alignment explanation
Indices: 28083305--28083375 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
28083295 AAAAATTAAT
**
28083305 AAATAAAATAATATAAAATTGTTAAATATTA
1 AAATAAAATAATATAAAATTGTTAAATAAAA
* *
28083336 AAATAATATAATATAAATATTTTTAAA-AAAA
1 AAATAAAATAATATAAA-ATTGTTAAATAAAA
28083367 AAATTAAAA
1 AAA-TAAAA
28083376 AAAATGTGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (31 bp):
AAATAAAATAATATAAAATTGTTAAATAAAA
Found at i:28083851 original size:18 final size:20
Alignment explanation
Indices: 28083828--28083873 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
28083818 TATATCTTTA
28083828 AATATTAAT-TTTAATTT-T
1 AATATTAATATTTAATTTGT
*
28083846 AATATT-GTATTTAATTTGT
1 AATATTAATATTTAATTTGT
*
28083865 AAAATTAAT
1 AATATTAAT
28083874 GATAAACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 6 0.27
20 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AATATTAATATTTAATTTGT
Found at i:28084586 original size:15 final size:15
Alignment explanation
Indices: 28084566--28084596 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28084556 CCTTTTTAAA
28084566 ATTTTAAAATTATAT
1 ATTTTAAAATTATAT
*
28084581 ATTTTAAAATTTTAT
1 ATTTTAAAATTATAT
28084596 A
1 A
28084597 AAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTAAAATTATAT
Found at i:28085015 original size:19 final size:18
Alignment explanation
Indices: 28084963--28085015 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
28084953 TTATATATTT
28084963 TAAAAATTCAAAATAATATA
1 TAAAAATT-AAAA-AATATA
* *
28084983 TAAAAATTGAAAAATGGTA
1 TAAAAATTAAAAAAT-ATA
28085002 TAAAAATTAAAAAA
1 TAAAAATTAAAAAA
28085016 ATTAAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.10
19 18 0.62
20 8 0.28
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (18 bp):
TAAAAATTAAAAAATATA
Found at i:28085016 original size:21 final size:19
Alignment explanation
Indices: 28084963--28085017 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
28084953 TTATATATTT
*
28084963 TAAAAATTCAAAATAATATA
1 TAAAAATT-AAAAAAATATA
* *
28084983 TAAAAATT-GAAAAATGGTA
1 TAAAAATTAAAAAAAT-ATA
28085002 TAAAAATTAAAAAAAT
1 TAAAAATTAAAAAAAT
28085018 TAAATTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 14 0.48
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAAAATTAAAAAAATATA
Found at i:28085089 original size:15 final size:15
Alignment explanation
Indices: 28085069--28085098 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28085059 TTTTAGAATT
28085069 TTAGAATTATATATA
1 TTAGAATTATATATA
*
28085084 TTAGAATTTTATATA
1 TTAGAATTATATATA
28085099 AAAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TTAGAATTATATATA
Found at i:28085266 original size:21 final size:22
Alignment explanation
Indices: 28085238--28085287 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
28085228 ATAATTTAAA
*
28085238 TATTTTCTAGA-TTTTATGTATT
1 TATTTTCTA-ATTTTTATATATT
28085260 T-TTTTCTAATTTTTATATATT
1 TATTTTCTAATTTTTATATATT
28085281 TATTTTC
1 TATTTTC
28085288 ATCTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (22 bp):
TATTTTCTAATTTTTATATATT
Found at i:28087060 original size:20 final size:20
Alignment explanation
Indices: 28087028--28087066 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28087018 ATTTAATGGT
28087028 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
28087047 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
28087067 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:28093892 original size:15 final size:16
Alignment explanation
Indices: 28093862--28093895 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
28093852 AAAATACAAT
28093862 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
28093878 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
28093893 TTT
1 TTT
28093896 TTAAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:28100743 original size:13 final size:13
Alignment explanation
Indices: 28100727--28100766 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
28100717 TTTAAACCAA
28100727 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
28100740 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
28100753 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
28100766 A
1 A
28100767 TTGCCAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:28103997 original size:43 final size:43
Alignment explanation
Indices: 28103923--28104009 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
28103913 CACCTAGCAC
*
28103923 TAGCAGCCCCTGTATTCGCCCCAGCTTCATCAATATTTTAATA
1 TAGCAGCCCCTATATTCGCCCCAGCTTCATCAATATTTTAATA
*
28103966 TAGCAGCCCCTATATTC-CCCCTGCTTCCATCAATATTTTAATA
1 TAGCAGCCCCTATATTCGCCCCAGCTT-CATCAATATTTTAATA
28104009 T
1 T
28104010 GTTAGTGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 8 0.20
43 33 0.80
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (43 bp):
TAGCAGCCCCTATATTCGCCCCAGCTTCATCAATATTTTAATA
Found at i:28105425 original size:67 final size:68
Alignment explanation
Indices: 28105248--28105484 Score: 341
Period size: 68 Copynumber: 3.5 Consensus size: 68
28105238 ATTCGGTCAT
* * * *
28105248 GCACTTAATCCAACCGATTTTGTCTTACAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
*
28105313 ATA
66 ACA
* * * *
28105316 GCACTTAATTCAAACAAATTTGTCTTAAAAATTTCACGTTGGACAGCATGTATAACCTCAACGAG
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
28105381 ACA
66 ACA
* * **
28105384 GCA-TTAATTCAACCAAATTTGTCCTAACATTTTCGTATTGGACAGCATGTATAACCTCAACAAG
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
28105448 ACA
66 ACA
*
28105451 ACACTTAATTCAACCAAATTTGTCTTAAAATTTT
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTT
28105485 TGTAACGCCT
Statistics
Matches: 148, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 58 0.39
68 90 0.61
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (68 bp):
GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
ACA
Found at i:28111604 original size:16 final size:16
Alignment explanation
Indices: 28111583--28111624 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
28111573 AATAATTTGA
*
28111583 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
28111599 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
28111615 TAGTTTTAAT
1 TAATTTTAAT
28111625 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Done.