Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 124 of 438
Found at i:36568975 original size:94 final size:94
Alignment explanation
Indices: 36568833--36569141 Score: 294
Period size: 94 Copynumber: 3.3 Consensus size: 94
36568823 AGAGTGAGTA
* * * * *
36568833 TAAGACCATGTCTGGGACATGGCATC-GGCATTGAGACGAGGGCTAGTGTAAGATGTGTCCGGGA
1 TAAGACCATGTCTGGGACATGGCATCAGG--TAGAGATGAGTGCTAGTGTAAGATATGTCTGGGA
*
36568897 CATGCATCAGCCAC-ATCATGATAGCCCGTG
64 CATGCATCAGCCACGATCATGATAGCCAGTG
* * * *
36568927 TAAGACCACGTCTGGGACATGGCATCAGTGTAGAGGTGAGTGCCAGTGTAAGACATGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCAG-GTAGAGATGAGTGCTAGTGTAAGATATGTCTGGGAC
* * *
36568992 ATGCATC-GACCTCGATGATGTTAGCCAGTG
65 ATGCATCAG-CCACGATCATGATAGCCAGTG
* * ** *
36569022 TAAG-TCATGTCTGGGACAT-GCATC-GGCTA-AGTTTTGTGCTAGTGTAAG-TCATGTCTAGGA
1 TAAGACCATGTCTGGGACATGGCATCAGG-TAGAGATGAGTGCTAGTGTAAGAT-ATGTCTGGGA
* * *
36569082 CATGCATTAG-CACGTATACATGAGAGCTAGTG
64 CATGCATCAGCCACG-AT-CATGATAGCCAGTG
36569114 TAAGACCATGTCTGGGACATGGCATCAG
1 TAAGACCATGTCTGGGACATGGCATCAG
36569142 CCTTGATGGA
Statistics
Matches: 175, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
90 3 0.02
91 34 0.19
92 18 0.10
93 20 0.11
94 80 0.46
95 19 0.11
96 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCAGGTAGAGATGAGTGCTAGTGTAAGATATGTCTGGGACA
TGCATCAGCCACGATCATGATAGCCAGTG
Found at i:36568987 original size:47 final size:47
Alignment explanation
Indices: 36568924--36569183 Score: 160
Period size: 47 Copynumber: 5.5 Consensus size: 47
36568914 ATGATAGCCC
* *
36568924 GTGTAAGACCACGTCTGGGACATGGCATCAGTGTAGAGGTGAGTGCCA
1 GTGTAAGACCATGTCTGGGACAT-GCATCAGCGTAGAGGTGAGTGCCA
* *
36568972 GTGTAAGA-CATGTCTGGGACATGCATC-GACCTCGA--TGATGTTAGCCA
1 GTGTAAGACCATGTCTGGGACATGCATCAG-CGTAGAGGTGA-G-T-GCCA
* * * ** *
36569019 GTGTAAG-TCATGTCTGGGACATGCATCGGC-TA-AGTTTTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGCATCAGCGTAGAGGTGAGTGCCA
* * * * ** * *
36569063 GTGTAAG-TCATGTCTAGGACATGCATTAGCACGTATACATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGCATCAG--CGTAGAGGTGAGTGCCA
* * *
36569111 GTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATG-GAGATAGCCA
1 GTGTAAGACCATGTCTGGGACAT-GCATCAGCGTAGAGGTGAG-T-GCCA
**
36569160 AAGTAAGACCATGTCTGGGACATG
1 GTGTAAGACCATGTCTGGGACATG
36569184 GCAGCAGCAA
Statistics
Matches: 168, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
44 32 0.19
45 4 0.02
46 12 0.07
47 50 0.30
48 27 0.16
49 37 0.22
50 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGCATCAGCGTAGAGGTGAGTGCCA
Found at i:36570010 original size:55 final size:55
Alignment explanation
Indices: 36569937--36570055 Score: 161
Period size: 55 Copynumber: 2.2 Consensus size: 55
36569927 CTTAAACTTT
* * * *
36569937 TAAA-TCAGTATTGTCCACGATTAGGCCACACGGGCGTGTGCCATATCCGTG-TC
1 TAAAGTCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCC
* *
36569990 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATAGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCC
36570046 TAAAGTCAGT
1 TAAAGTCAGT
36570056 GTCGTACATG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 50 0.88
56 3 0.05
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCC
Found at i:36572404 original size:13 final size:13
Alignment explanation
Indices: 36572381--36572414 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36572371 TGGGTGTTGA
*
36572381 CCACACTGCCTGC
1 CCACACAGCCTGC
*
36572394 CGACACAGCCTGC
1 CCACACAGCCTGC
36572407 CCACACAG
1 CCACACAG
36572415 GCGTGTGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.50, G:0.18, T:0.09
Consensus pattern (13 bp):
CCACACAGCCTGC
Found at i:36575677 original size:70 final size:71
Alignment explanation
Indices: 36575595--36575757 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
36575585 GAGATGTATC
36575595 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
36575659 AGGACA
66 AGGACA
36575665 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
*
36575730 CGGACA
66 AGGACA
36575736 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
36575758 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 40 0.44
71 51 0.56
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:36580389 original size:71 final size:70
Alignment explanation
Indices: 36580301--36580463 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
36580291 GAGATGTATC
36580301 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTG-
36580366 AGGACA
65 AGGACA
36580372 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
36580437 GGACA
66 GGACA
36580442 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
36580464 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 28 0.30
71 64 0.70
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
GGACA
Found at i:36587920 original size:71 final size:71
Alignment explanation
Indices: 36587832--36587995 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
36587822 GAGATGTATC
36587832 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
36587897 AGGACA
66 AGGACA
*
36587903 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
36587968 CGGACA
66 AGGACA
36587974 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
36587996 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:36590215 original size:42 final size:42
Alignment explanation
Indices: 36590168--36590290 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
36590158 ATTAGGGTCA
36590168 ATGAGACTATGTGTAAGACTATATCTGGGATATGGCATCGAT
1 ATGAGACTATGTGTAAGACTATATCTGGGATATGGCATCGAT
* * * *
36590210 ATGAGACT-TCGTGTAAGACCATAGCTGAGCTATTGGCATCGAT
1 ATGAGACTAT-GTGTAAGACTATATCTGGGATA-TGGCATCGAT
* ** *
36590253 ATGAGATTACATGTAAGACTATATCTAGGATATGGCAT
1 ATGAGACTATGTGTAAGACTATATCTGGGATATGGCAT
36590291 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 32 0.48
43 33 0.50
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
ATGAGACTATGTGTAAGACTATATCTGGGATATGGCATCGAT
Found at i:36599941 original size:58 final size:57
Alignment explanation
Indices: 36599801--36599942 Score: 162
Period size: 57 Copynumber: 2.5 Consensus size: 57
36599791 TTTCGTACTA
* *
36599801 CAGGATTACCAGTCTAGGCTAAATCCTTTATGTAACATATGCTCATAAGAGCTCAAT
1 CAGGATTACCAGTCTAGGCTAAATCCTATATGTAACATATGCTCATAAGAGATCAAT
* * * * * *
36599858 TAGGATTACCAGTCCATGCTAAATCCTA-ATTGTAACATATGCTCGA-GAGGGATTACAT
1 CAGGATTACCAGTCTAGGCTAAATCCTATA-TGTAACATATGCTC-ATAAGAGATCA-AT
*
36599916 CAGGATTACCCGTCTAGGCTAAATCCT
1 CAGGATTACCAGTCTAGGCTAAATCCT
36599943 TTCCAGAATG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 1 0.01
57 43 0.61
58 26 0.37
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (57 bp):
CAGGATTACCAGTCTAGGCTAAATCCTATATGTAACATATGCTCATAAGAGATCAAT
Found at i:36605076 original size:27 final size:28
Alignment explanation
Indices: 36605020--36605089 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
36605010 AAACTTGTAC
36605020 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
36605048 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
36605075 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36605090 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:36605100 original size:27 final size:27
Alignment explanation
Indices: 36605020--36605101 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
36605010 AAACTTGTAC
* *
36605020 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
36605048 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
36605075 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
36605102 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:36606847 original size:24 final size:24
Alignment explanation
Indices: 36606819--36606867 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
36606809 ATTTTCTGAG
36606819 AATAACAATTCTACTAGTTTCTAA
1 AATAACAATTCTACTAGTTTCTAA
*
36606843 AATAACAATTCTACTGGTTTCTAA
1 AATAACAATTCTACTAGTTTCTAA
36606867 A
1 A
36606868 CGAGAGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (24 bp):
AATAACAATTCTACTAGTTTCTAA
Found at i:36615959 original size:15 final size:16
Alignment explanation
Indices: 36615934--36615963 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36615924 TGATTGAGAA
36615934 GATAGTGGGGAGTTAG
1 GATAGTGGGGAGTTAG
36615950 GATA-TGGGGAGTTA
1 GATAGTGGGGAGTTA
36615964 TTCGACTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (16 bp):
GATAGTGGGGAGTTAG
Found at i:36622482 original size:45 final size:48
Alignment explanation
Indices: 36622273--36622542 Score: 165
Period size: 46 Copynumber: 5.8 Consensus size: 48
36622263 TCATTTGTGC
* * **
36622273 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAACA-TTATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGAT-AGA
* * * * ** *
36622319 GCCATTGTAAGACCATGTCTGGGACATGGCATTGGC-ATTGAAATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGAT-AGA
* * *
36622367 GCTAGTGTAAGA-CATGTCTAGGATAT-GCATCAGCCTCGCA-ACG-TA-A
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATC-GGCT-ACAGA-GATAGA
* * * *
36622413 GCCA-TCGTAAGA-CATGTCAAGGACAT-GCATCGGCTAC-TAGAT-GT
1 GCTAGT-GTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGATAGA
* *
36622457 GTTAGTGTAAGACCATGTCTCGGACATGGCATCGG-TACGAAGAGATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAC--AGAGAT-AGA
*
36622507 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
36622543 ATTACACCTT
Statistics
Matches: 173, Mismatches: 31, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.01
44 11 0.06
45 20 0.12
46 48 0.28
47 30 0.17
48 29 0.17
50 34 0.20
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGATAGA
Found at i:36625053 original size:46 final size:46
Alignment explanation
Indices: 36624874--36625179 Score: 221
Period size: 46 Copynumber: 6.5 Consensus size: 46
36624864 TTTGTGTGCT
* * *
36624874 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGATGAGAGCC
* ** * *
36624920 AGTGTAAGACCATTTCTGGGACATGGCATCGGCATTGA-GACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACATGATGAGAGCC
* *
36624968 AGTGTAAGAAATGTCTGGGACATGCATCGGCCT-CTTGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACATGATG-AGAGCC
* * * *
36625014 AGTGTAAGACATGTCTGAGACATGCATTGGCTACATGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGATGAGAGCC
* * * * * * * **
36625058 AATATAAGACCATGTCTGGGACATGGCATTGGCAAGGATACATGGGATTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAT-GATGAGAGCC
* *
36625108 AGTGTAAGACCATGTCTGGGACATTGCATCGACTTA-ACG-TGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGC-TACATGATGAGAGCC
36625155 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
36625180 GCATAGGCAT
Statistics
Matches: 206, Mismatches: 38, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
44 9 0.04
45 15 0.07
46 66 0.32
47 57 0.28
48 25 0.12
49 2 0.01
50 30 0.15
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACATGATGAGAGCC
Found at i:36626269 original size:21 final size:22
Alignment explanation
Indices: 36626229--36626270 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
36626219 GAAATTAATT
36626229 CCACACGGGCGTGTTGCCCCTC
1 CCACACGGGCGTGTTGCCCCTC
36626251 CCACACGGGCGTG-TGCCCCT
1 CCACACGGGCGTGTTGCCCCT
36626271 GTGTCTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.10, C:0.45, G:0.29, T:0.17
Consensus pattern (22 bp):
CCACACGGGCGTGTTGCCCCTC
Found at i:36630044 original size:31 final size:30
Alignment explanation
Indices: 36630002--36630061 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
36629992 GAAGTTGGGG
* *
36630002 GTGTGGGCCACACGGGCAATCCACACGGGC
1 GTGTGGGCCACACAGGCAAGCCACACGGGC
36630032 GTGTGGGCCCACACAGGCAAGCCACACGGG
1 GTGTGGG-CCACACAGGCAAGCCACACGGG
36630062 TATGTAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.22, C:0.33, G:0.37, T:0.08
Consensus pattern (30 bp):
GTGTGGGCCACACAGGCAAGCCACACGGGC
Found at i:36630072 original size:31 final size:31
Alignment explanation
Indices: 36630009--36630073 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
36629999 GGGGTGTGGG
* * * *
36630009 CCACACGGGCAATCCACACGGGCGTGTGGGC
1 CCACACAGGCAAGCCACACGGGCATGTAGGC
*
36630040 CCACACAGGCAAGCCACACGGGTATGTAGGC
1 CCACACAGGCAAGCCACACGGGCATGTAGGC
36630071 CCA
1 CCA
36630074 TAATTTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.35, G:0.31, T:0.09
Consensus pattern (31 bp):
CCACACAGGCAAGCCACACGGGCATGTAGGC
Found at i:36634031 original size:47 final size:47
Alignment explanation
Indices: 36633961--36634490 Score: 844
Period size: 47 Copynumber: 11.3 Consensus size: 47
36633951 CCCTTCGGGA
* * *
36633961 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * * *
36634008 CTTATCACATATATACACCTTCACATCCATCACATCGGTCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36634055 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36634102 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36634149 CTTGTCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36634196 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36634243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36634290 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
36634337 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
36634384 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
36634431 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
36634478 CTTATCACATATA
1 CTTATCACATATA
36634491 CATATCTTGT
Statistics
Matches: 442, Mismatches: 41, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 442 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:36637901 original size:28 final size:29
Alignment explanation
Indices: 36637842--36637906 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
36637832 TTTTCATTTA
* * *
36637842 TTTCACAATTTAACCCCTCAATTTACCTT
1 TTTCTCAATTTAACCCCTCAATTGACATT
*
36637871 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACATT
*
36637899 TTTGTCAA
1 TTTCTCAA
36637907 AAATCACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACATT
Found at i:36639141 original size:17 final size:17
Alignment explanation
Indices: 36639119--36639154 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
36639109 ATCACTTTCA
36639119 CTTTTTCTTCAGTCTCT
1 CTTTTTCTTCAGTCTCT
36639136 CTTTTTCTTCAGTCTCT
1 CTTTTTCTTCAGTCTCT
36639153 CT
1 CT
36639155 AATCAGATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.31, G:0.06, T:0.58
Consensus pattern (17 bp):
CTTTTTCTTCAGTCTCT
Found at i:36644907 original size:31 final size:32
Alignment explanation
Indices: 36644864--36644944 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
36644854 TCTATACTTT
36644864 AATTT-GATCAATTTTAGT-TCTTATACTTTTCG
1 AATTTGGA-CAATTTTAGTCTCTT-TACTTTTCG
* *
36644896 -ATTTGGACAATTTTAGTCTCTTTCCTTTTTG
1 AATTTGGACAATTTTAGTCTCTTTACTTTTCG
*
36644927 AATTTTGA-AATTTTAGTC
1 AATTTGGACAATTTTAGTC
36644945 CTAACCCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 31 0.72
32 12 0.28
ACGTcount: A:0.23, C:0.12, G:0.11, T:0.53
Consensus pattern (32 bp):
AATTTGGACAATTTTAGTCTCTTTACTTTTCG
Found at i:36648481 original size:29 final size:27
Alignment explanation
Indices: 36648448--36648505 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
36648438 AATTTTAAAT
*
36648448 TTATATATGAATTATAATTTATTGTATAA
1 TTATATATAAATTATAA-TT-TTGTATAA
* *
36648477 TTATATATAAATTTTTATTTTGTATAA
1 TTATATATAAATTATAATTTTGTATAA
36648504 TT
1 TT
36648506 TTGTACAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 2 0.08
29 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TTATATATAAATTATAATTTTGTATAA
Found at i:36654767 original size:58 final size:59
Alignment explanation
Indices: 36654666--36654856 Score: 312
Period size: 58 Copynumber: 3.2 Consensus size: 59
36654656 GACAAGATTG
* * * * * *
36654666 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
36654726 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
36654784 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
36654843 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
36654857 GATTCACTAT
Statistics
Matches: 124, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
58 55 0.44
59 54 0.44
60 15 0.12
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:36654826 original size:88 final size:87
Alignment explanation
Indices: 36654696--36654856 Score: 304
Period size: 88 Copynumber: 1.8 Consensus size: 87
36654686 AAAATTGTAC
36654696 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
36654761 AGTGTGCGAGCTGAAAATATAT
66 AGTGTGCGAGCTGAAAATATAT
*
36654783 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
36654848 AAGTGTGCG
65 AAGTGTGCG
36654857 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
87 23 0.32
88 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (87 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
AGTGTGCGAGCTGAAAATATAT
Found at i:36654868 original size:29 final size:29
Alignment explanation
Indices: 36654696--36654856 Score: 304
Period size: 29 Copynumber: 5.5 Consensus size: 29
36654686 AAAATTGTAC
*
36654696 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36654725 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36654754 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36654783 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
36654813 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36654842 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36654857 GATTCACTAT
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
29 101 0.78
30 29 0.22
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:36662362 original size:59 final size:58
Alignment explanation
Indices: 36662266--36662397 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
36662256 AAAATTGTAC
36662266 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
36662324 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
36662383 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36662398 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:36662386 original size:88 final size:89
Alignment explanation
Indices: 36662236--36662397 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
36662226 GACAAGATTG
* * *
36662236 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
36662301 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
36662325 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
36662389 AAGTGTGCG
66 AAGTGTGCG
36662398 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:36662409 original size:29 final size:29
Alignment explanation
Indices: 36662266--36662397 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
36662256 AAAATTGTAC
*
36662266 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36662295 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36662324 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
36662354 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36662383 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36662398 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:36664152 original size:16 final size:16
Alignment explanation
Indices: 36664131--36664162 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36664121 TAGTTTGCAT
36664131 TAAATCTCATGATTAC
1 TAAATCTCATGATTAC
36664147 TAAATCTCATGATTAC
1 TAAATCTCATGATTAC
36664163 CACTTACTCA
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:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAAATCTCATGATTAC
Found at i:36675348 original size:59 final size:58
Alignment explanation
Indices: 36675252--36675383 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
36675242 AAAATTGTAC
36675252 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
36675310 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
36675369 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36675384 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:36675372 original size:88 final size:89
Alignment explanation
Indices: 36675222--36675383 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
36675212 GACAAGATTG
* * *
36675222 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
36675287 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
36675311 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
36675375 AAGTGTGCG
66 AAGTGTGCG
36675384 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:36675395 original size:29 final size:29
Alignment explanation
Indices: 36675252--36675383 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
36675242 AAAATTGTAC
*
36675252 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36675281 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36675310 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
36675340 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
36675369 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36675384 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:36679803 original size:42 final size:43
Alignment explanation
Indices: 36679695--36679811 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 43
36679685 GTACCAATGC
* *
36679695 CATATCCCAAATATGGTCTTACATGTAATCTTGTATCGATGCT
1 CATATCCCAAATATGGTCTTACACGTAATCTTGTATCGATGAT
* * *
36679738 AATAGCCCAAATATGGTCTTACACG-AAGTCTTTTATCGAT-AT
1 CATATCCCAAATATGGTCTTACACGTAA-TCTTGTATCGATGAT
*
36679780 CATATCCCAGATATGGTCTTACACGTAATCTT
1 CATATCCCAAATATGGTCTTACACGTAATCTT
36679812 AGTAACCCTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (43 bp):
CATATCCCAAATATGGTCTTACACGTAATCTTGTATCGATGAT
Found at i:36686804 original size:40 final size:39
Alignment explanation
Indices: 36686760--36686941 Score: 136
Period size: 40 Copynumber: 4.5 Consensus size: 39
36686750 AATTTGGATA
* *
36686760 TATATATGGCACTTAGTGTACGATTCAAGAAAGTTTCGGC
1 TATATATGACACTTAGTGTACGATTC-AGAAAGCTTCGGC
* *
36686800 TATATATGACACTTAGTGTGCGATTCGGAATAGCTTCGGC
1 TATATATGACACTTAGTGTACGATTCAGAA-AGCTTCGGC
* * *
36686840 TATATATGACACTTTGTGTGA-GA-TCGAGATAGCTTCAGC
1 TATATATGACACTTAGTGT-ACGATTC-AGAAAGCTTCGGC
* * * * * *
36686879 TATGTAAGGCACTTAGTGTGCGAAATT-ATAATAGCTTCAGC
1 TATATATGACACTTAGTGTACG--ATTCAGAA-AGCTTCGGC
* *
36686920 TATGTATTGGCACTTAGTGTAC
1 TATATA-TGACACTTAGTGTAC
36686942 CAGATTTCGA
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
39 29 0.25
40 56 0.49
41 16 0.14
42 14 0.12
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (39 bp):
TATATATGACACTTAGTGTACGATTCAGAAAGCTTCGGC
Found at i:36686853 original size:80 final size:79
Alignment explanation
Indices: 36686760--36686941 Score: 188
Period size: 80 Copynumber: 2.3 Consensus size: 79
36686750 AATTTGGATA
* * *
36686760 TATATATGGCACTTAGTGTACGATTCAAGAAAGTTTCGGCTATATATGACACTTAGTGTGCG-AT
1 TATATATGGCACTTAGTGTACGA-TCAAGAAAGCTTCAGCTATATAAGACACTTAGTGTGCGAAT
* *
36686824 TCGGAATAGCTTCGGC
65 T-AGAATAGCTTCAGC
* * * * * *
36686840 TATATATGACACTTTGTGTGA-GATCGAGATAGCTTCAGCTATGTAAGGCACTTAGTGTGCGAAA
1 TATATATGGCACTTAGTGT-ACGATCAAGAAAGCTTCAGCTATATAAGACACTTAGTGTGCG-AA
*
36686904 TTATAATAGCTTCAGC
64 TTAGAATAGCTTCAGC
*
36686920 TATGTATTGGCACTTAGTGTAC
1 TATATA-TGGCACTTAGTGTAC
36686942 CAGATTTCGA
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
79 31 0.38
80 36 0.44
81 15 0.18
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (79 bp):
TATATATGGCACTTAGTGTACGATCAAGAAAGCTTCAGCTATATAAGACACTTAGTGTGCGAATT
AGAATAGCTTCAGC
Found at i:36689342 original size:27 final size:27
Alignment explanation
Indices: 36689308--36689507 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
36689298 TGGATAAGTT
*
36689308 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
36689335 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** * *
36689362 GTTGAATTATTGAAATACCTCTGGAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
36689389 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
36689416 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
36689443 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
36689470 GTAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
36689497 GTAAAATTACC
1 GTAGAATTACC
36689508 ATTTTGCCCT
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:36690259 original size:2 final size:2
Alignment explanation
Indices: 36690254--36690285 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36690244 ACACACACAC
36690254 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36690286 TTGTTCTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36691898 original size:48 final size:48
Alignment explanation
Indices: 36691827--36692092 Score: 365
Period size: 48 Copynumber: 5.5 Consensus size: 48
36691817 AGTACCAATT
*
36691827 CCATGTCCCCA-ACATGGTCTTACACTGGCACATATATCATCACCGATG
1 CCATGT-CCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
*
36691875 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCAGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
** *
36691923 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATTACCGATT
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* *
36691971 CCATGTCCCAGACATGGTCTTACACTGGCACATATATTATCGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * * * *
36692019 CCATGTCCCAAACATGGTCGTACACAGGTACATATCTCAGAT-GCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATC--ATCGCCGATG
* *
36692068 CCATGTTCTAGACATGGTCTTACAC
1 CCATGTCCCAGACATGGTCTTACAC
36692093 GGAATCTCAT
Statistics
Matches: 193, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
47 4 0.02
48 160 0.83
49 27 0.14
50 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
Found at i:36693575 original size:46 final size:45
Alignment explanation
Indices: 36693522--36693696 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
36693512 TGGTTGAGCA
*
36693522 TCCGAACTCGTTGAGTTGGGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
36693568 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
36693615 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATTGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
36693661 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCAC-TATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36693697 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
44 3 0.03
45 7 0.07
46 58 0.56
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:36693678 original size:93 final size:93
Alignment explanation
Indices: 36693519--36693689 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
36693509 CAATGGTTGA
* * *
36693519 GCATCCGAACTCGTTGAGTTGGGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
36693584 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
36693612 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATTGATACGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCGTTGAG
36693676 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
36693690 ACTATGGGCG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:36696518 original size:47 final size:45
Alignment explanation
Indices: 36696414--36696726 Score: 183
Period size: 47 Copynumber: 6.8 Consensus size: 45
36696404 ATATATGCGT
*
36696414 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAG
* * * * *
36696459 TC-GATGCATGTCCCAGGCACGTCTTACACTGGC-TATCTCTGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCT-T--AG
* * *
36696505 GCTGATGCATGTCCTAGACATGTCTTACTCTGGCAC-TCATCTCT-G
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAAC-TCT-TAG
* * * * **
36696550 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTA-TAATATG
1 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC-AACTCTTA-G
* ** * *
36696599 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-CTTCGTCTGGAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAAC-TCT-TAG
* * * *
36696645 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-G
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGG--CACA-ACTCTTAG
* *
36696693 GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGC
36696727 GCACAAATCA
Statistics
Matches: 208, Mismatches: 38, Indels: 45
0.71 0.13 0.15
Matches are distributed among these distances:
43 5 0.02
44 31 0.15
45 3 0.01
46 40 0.19
47 84 0.40
48 41 0.20
49 1 0.00
50 1 0.00
51 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAG
Found at i:36696609 original size:94 final size:93
Alignment explanation
Indices: 36696366--36696723 Score: 394
Period size: 94 Copynumber: 3.8 Consensus size: 93
36696356 GGTAAATTGT
*
36696366 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAT--G-GCTGATGCATGTCCCAG
* *
36696431 ACATGTCTTACACTAGCA--CAACTCT-TAGT
63 ACATGTCTTACACTAGCACTCATCTCTGT-GC
** * * *
36696460 CGATG-CATGTCCCAGGCA-CGTCTTACACTGGCTATCTC-TGTCGA-GGCTGATGCATGTCCTA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGC--TCTCATAT--ATGGCTGATGCATGTCCCA
* *
36696521 GACATGTCTTACTCTGGCACTCATCTCTGTGC
62 GACATGTCTTACACTAGCACTCATCTCTGTGC
*
36696553 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATATGGCTGATGCATGTCCCAGAC
36696618 ATGTCTTACACTAGC-CT--TCGTCTGGATGC
65 ATGTCTTACACTAGCACTCATC-TCT-G-TGC
* * * *
36696647 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATATGGCTGATGCATGTCCCAGAC
36696712 ATGTCTTACACT
65 ATGTCTTACACT
36696724 GGCGCACAAA
Statistics
Matches: 226, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
91 34 0.15
92 16 0.07
93 32 0.14
94 129 0.57
95 15 0.07
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGC
Found at i:36696624 original size:141 final size:140
Alignment explanation
Indices: 36696366--36696726 Score: 360
Period size: 141 Copynumber: 2.6 Consensus size: 140
36696356 GGTAAATTGT
* * * * * * *
36696366 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATA-ATGTG-GCCGAAGCATGTCCCAA
* * * ** * * *
36696431 ACATGTCTTACACTAGCAC-AACTCTTA-GTC-GATGCATGTCCCAGGCACGTCTTACACT-GGC
64 ACATGTCTTACACTGGCTCTTA-TAATATGGCTGATGCATGTCCCAGACACGTCTTACACTAGCC
36696492 TATC-TCTGTCGAGGC
128 T-TCGTCTG--GAGGC
* * * * * *
36696507 TGATG-CATGTCCTAGACAT-GTCTTACTCTGGCACTCAT-CTCTGTGCCGATGCCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTG-GCCGAAG-CATGTCCCAA
*
36696569 ACATGGTCTTACACTGGCTCTTATAATATGGCTGATGCATGTCCCAGACATGTCTTACACTAGCC
64 ACAT-GTCTTACACTGGCTCTTATAATATGGCTGATGCATGTCCCAGACACGTCTTACACTAGCC
*
36696634 TTCGTCTGGATGC
128 TTCGTCTGGAGGC
* *
36696647 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAAAC
36696712 ATGTCTTACACTGGC
66 ATGTCTTACACTGGC
36696727 GCACAAATCA
Statistics
Matches: 181, Mismatches: 29, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
137 9 0.05
138 13 0.07
139 32 0.18
140 36 0.20
141 58 0.32
142 30 0.17
143 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (140 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAAAC
ATGTCTTACACTGGCTCTTATAATATGGCTGATGCATGTCCCAGACACGTCTTACACTAGCCTTC
GTCTGGAGGC
Found at i:36697285 original size:33 final size:33
Alignment explanation
Indices: 36697243--36697310 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
36697233 TTTTGCAACT
36697243 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
1 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
36697276 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
1 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
36697309 TA
1 TA
36697311 ACACCTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (33 bp):
TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
Found at i:36698950 original size:4 final size:4
Alignment explanation
Indices: 36698941--36698987 Score: 58
Period size: 4 Copynumber: 11.0 Consensus size: 4
36698931 CCTCAAAATA
*
36698941 GAAT GAAT GAAT AGAAT GAAT GAAT AGAAT AAAT GAAT AGAAT GAAT
1 GAAT GAAT GAAT -GAAT GAAT GAAT -GAAT GAAT GAAT -GAAT GAAT
36698988 TATAAGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 26 0.68
5 12 0.32
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.23
Consensus pattern (4 bp):
GAAT
Found at i:36698955 original size:13 final size:13
Alignment explanation
Indices: 36698937--36698987 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
36698927 ATTACCTCAA
36698937 AATAGAATGAATG
1 AATAGAATGAATG
36698950 AATAGAATGAATG
1 AATAGAATGAATG
*
36698963 AATAGAATAAATG
1 AATAGAATGAATG
36698976 AATAGAATGAAT
1 AATAGAATGAAT
36698988 TATAAGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.24
Consensus pattern (13 bp):
AATAGAATGAATG
Found at i:36706119 original size:24 final size:24
Alignment explanation
Indices: 36706086--36706144 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
36706076 GAACCTTTAA
* *
36706086 GCAAAACCTTATGTGATTTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
*
36706110 GCGAACCCTTATGTGATCTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
36706134 GCAAACCCTTA
1 GCAAACCCTTA
36706145 CATAAATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (24 bp):
GCAAACCCTTATGTGATCTAGTAT
Found at i:36713663 original size:148 final size:148
Alignment explanation
Indices: 36713395--36713689 Score: 511
Period size: 148 Copynumber: 2.0 Consensus size: 148
36713385 CTCCTTGTAG
*
36713395 ACCCTGAGATAGAACGAACCTTTCAGCAGCGAAGAAGACAAGCGAACCAGAGAAAGACTGAAGGA
1 ACCCTGAGATAGAACGAACCTTTCAGCAGAGAAGAAGACAAGCGAACCAGAGAAAGACTGAAGGA
36713460 ATGAATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGC
66 ATGAATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGC
36713525 TGATGATAGGGATAGAGA
131 TGATGATAGGGATAGAGA
* * *
36713543 ACCCTGAGATAGAATGAACCTTTC-GACAGATAAGAAGACAAGCGAACCAGAGAATGACTGAAGG
1 ACCCTGAGATAGAACGAACCTTTCAG-CAGAGAAGAAGACAAGCGAACCAGAGAAAGACTGAAGG
** *
36713607 AATGAATTTTGAGAATATGAGTCAATGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTG
65 AATGAATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTG
36713672 CTGATGATAGGGATAGAG
130 CTGATGATAGGGATAGAG
36713690 CCTTGAGATA
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
147 1 0.01
148 138 0.99
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (148 bp):
ACCCTGAGATAGAACGAACCTTTCAGCAGAGAAGAAGACAAGCGAACCAGAGAAAGACTGAAGGA
ATGAATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGC
TGATGATAGGGATAGAGA
Found at i:36720776 original size:19 final size:19
Alignment explanation
Indices: 36720726--36720777 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
36720716 AATTAGAATT
* *
36720726 AGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGGTAAC
* *
36720745 AGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGGTAAC
*
36720764 AGAATCAAAATCAG
1 AGAATCAGAATCAG
36720778 AATGTGAATG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:36720947 original size:27 final size:26
Alignment explanation
Indices: 36720899--36720958 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
36720889 ATGAGGCTGC
*
36720899 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
36720926 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
36720952 CAGATAT
1 CAGATAT
36720959 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36720962 original size:2 final size:2
Alignment explanation
Indices: 36720955--36720982 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36720945 ACCAGAACAG
36720955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36720983 GTGGCGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36721328 original size:27 final size:27
Alignment explanation
Indices: 36721298--36721894 Score: 725
Period size: 27 Copynumber: 22.1 Consensus size: 27
36721288 AACATCCTAG
** *
36721298 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
36721325 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
36721352 GGATAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
** * *
36721379 GGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
36721406 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
36721433 GGGTAAAACTGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
36721460 GGGTAAAATAGTAATTCTATAAATAGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
36721487 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
36721514 GGGTAAAACAGTAATTCTGTAAA-CTGA
1 GGGTAAAACAGTAATTTTGTAAATC-GA
*
36721541 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
**
36721568 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
36721595 GGGTAAAAC-GATAATTCTGTAAATCAA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
*
36721622 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
36721649 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * **
36721676 GTGTGAAATGGTAATTCTT-TAAATCGA
1 GGGTAAAACAGTAATT-TTGTAAATCGA
* * *
36721703 GGGTAAAACGGTAATTTTATGAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
36721730 GGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
36721757 GGGTAAAAC-GATAATTTTGTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
*
36721784 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
36721811 GGGTAAAACAGTAAATCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
36721838 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
36721865 GGGTAAAACAGTAATTCTGTATATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
36721892 GGG
1 GGG
36721895 GTACTTTGGT
Statistics
Matches: 499, Mismatches: 63, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.01
27 489 0.98
28 5 0.01
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:36721933 original size:27 final size:27
Alignment explanation
Indices: 36721887--36722043 Score: 165
Period size: 27 Copynumber: 5.8 Consensus size: 27
36721877 AATTCTGTAT
*
36721887 ATCGAGGGGTACTTTGGTAATTTTACA
1 ATCGAGGGGTATTTTGGTAATTTTACA
* *
36721914 AGTCGA-GGGTATTTTAGTAATTTCACA
1 A-TCGAGGGGTATTTTGGTAATTTTACA
*** *
36721941 AAATAGAGGTATTTTGGTAATTTTACA
1 ATCGAGGGGTATTTTGGTAATTTTACA
* * *
36721968 AACTAGGGGCATTTTGGTAATTTTACA
1 ATCGAGGGGTATTTTGGTAATTTTACA
* *
36721995 AACCAGGGGTATTTTGGTAATTTTACA
1 ATCGAGGGGTATTTTGGTAATTTTACA
*
36722022 GGTCGA-GGGTATTTTGGTAATT
1 -ATCGAGGGGTATTTTGGTAATT
36722044 CTACCCTATA
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 103 0.94
28 6 0.05
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (27 bp):
ATCGAGGGGTATTTTGGTAATTTTACA
Found at i:36721968 original size:54 final size:54
Alignment explanation
Indices: 36721894--36722043 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 54
36721884 TATATCGAGG
* * *
36721894 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAAATAGA
1 GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTTGGTAATTTCACAAAACAGA
* * * * * *
36721948 GGTATTTTGGTAATTTTACAA-ACTAGGGGCATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAGTCGA-GGGTATTTTGGTAATTTCACAAAACAGA
*
36722002 GGTATTTTGGTAATTTTACAGGTCGAGGGTATTTTGGTAATT
1 GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTTGGTAATT
36722044 CTACCCTATA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 77 0.95
55 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTTGGTAATTTCACAAAACAGA
Found at i:36722057 original size:54 final size:52
Alignment explanation
Indices: 36721891--36722062 Score: 166
Period size: 54 Copynumber: 3.2 Consensus size: 52
36721881 CTGTATATCG
* * *
36721891 AGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAAAT
1 AGGGGTATTTTGGTAATTTTAC-AGTCGAGGGTATTTTGGTAATTT-ACCAAAT
* ** * * *
36721945 AGAGGTATTTTGGTAATTTTACAAACTAGGGGCATTTTGGTAATTTTA-CAAACC
1 AGGGGTATTTTGGTAATTTTACAGTCGA-GGGTATTTTGGTAA-TTTACCAAA-T
**
36721999 AGGGGTATTTTGGTAATTTTACAGGTCGAGGGTATTTTGGTAATTCTACCCTAT
1 AGGGGTATTTTGGTAATTTTACA-GTCGAGGGTATTTTGGTAATT-TACCAAAT
*
36722053 AGGGGCATTT
1 AGGGGTATTT
36722063 CAGTAATTCT
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
53 8 0.09
54 79 0.84
55 7 0.07
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (52 bp):
AGGGGTATTTTGGTAATTTTACAGTCGAGGGTATTTTGGTAATTTACCAAAT
Found at i:36722062 original size:27 final size:27
Alignment explanation
Indices: 36722027--36722107 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
36722017 TTACAGGTCG
* * * *
36722027 AGGGTATTTTGGTAATTCTACCCTATA
1 AGGGCATTTTAGTAATTCTAACCTACA
* *
36722054 GGGGCATTTCAGTAATTCTAACCTACA
1 AGGGCATTTTAGTAATTCTAACCTACA
* * *
36722081 AGGGTATTTTAGTAATGCTAGCCTACA
1 AGGGCATTTTAGTAATTCTAACCTACA
36722108 GATATGAGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (27 bp):
AGGGCATTTTAGTAATTCTAACCTACA
Found at i:36722062 original size:81 final size:81
Alignment explanation
Indices: 36721899--36722047 Score: 194
Period size: 81 Copynumber: 1.8 Consensus size: 81
36721889 CGAGGGGTAC
** *
36721899 TTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAAATAGAGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTCACAAAATAGAGGTATTTTGGTAATTC
36721964 TACAAACTAGGGGCAT
66 TACAAACTAGGGGCAT
* * ** *
36721980 TTTGGTAATTTTACAAACC-AGGGGTATTTTGGTAATTTTAC-AGGTCGAGGGTATTTTGGTAAT
1 TTTGGTAATTTTACAAACCGA-GGGTATTTTAGTAATTTCACAAAATAGA-GGTATTTTGGTAAT
36722043 TCTAC
64 TCTAC
36722048 CCTATAGGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.09
81 53 0.91
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTCACAAAATAGAGGTATTTTGGTAATTC
TACAAACTAGGGGCAT
Found at i:36734351 original size:23 final size:22
Alignment explanation
Indices: 36734306--36734351 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
36734296 CAACGAATCC
* * *
36734306 AATTCAACATATTTTTAAGATA
1 AATTCAACATATATATAAAATA
36734328 AATTCAAGCATATATATAAAATA
1 AATTCAA-CATATATATAAAATA
36734351 A
1 A
36734352 CGTCATCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (22 bp):
AATTCAACATATATATAAAATA
Found at i:36742805 original size:22 final size:22
Alignment explanation
Indices: 36742780--36742821 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36742770 TGATAATCTT
36742780 TAATATATA-ATTATATCTTTTA
1 TAATATATATATTA-ATCTTTTA
*
36742802 TAATTTATATATTAATCTTT
1 TAATATATATATTAATCTTT
36742822 ATCAACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATATATATATTAATCTTTTA
Found at i:36747066 original size:40 final size:40
Alignment explanation
Indices: 36746970--36747188 Score: 260
Period size: 40 Copynumber: 5.5 Consensus size: 40
36746960 CGAATGGTAT
* * * *
36746970 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
36747011 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
36747051 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
36747091 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
36747131 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
36747171 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
36747189 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
40 131 0.84
41 25 0.16
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:36747184 original size:120 final size:121
Alignment explanation
Indices: 36746970--36747188 Score: 307
Period size: 120 Copynumber: 1.8 Consensus size: 121
36746960 CGAATGGTAT
* * *
36746970 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * *
36747035 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
36747091 CCGGGTTAAGACCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
36747154 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
36747189 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
119 1 0.01
120 59 0.69
121 25 0.29
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:36747209 original size:40 final size:40
Alignment explanation
Indices: 36747131--36747214 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
36747121 GTTACTAAAT
* * *
36747131 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
36747171 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
36747211 CCGG
1 CCGG
36747215 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:36747213 original size:80 final size:80
Alignment explanation
Indices: 36746968--36747214 Score: 181
Period size: 80 Copynumber: 3.1 Consensus size: 80
36746958 TTCGAATGGT
** * * * * ** *
36746968 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGG-TCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TCACCAAAACCGGGCT-AAGACCCGAAGACA
* * * * *
36747032 TTTGTGCGAGTTACCAA
64 ATCGAGCGAGTCACTAA
* * * * * * * *
36747049 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGACCCGAAGACAAT
* * *
36747114 TGTGCGAGTTACTAA
66 CGAGCGAGTCACTAA
* * * * *
36747129 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGACCCGAAGACAAT
* *
36747194 CGAGCGAGTCGCTAT
66 CGAGCGAGTCACTAA
36747209 ATCCGG
1 ATCCGG
36747215 TTAAATTCCG
Statistics
Matches: 136, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 107 0.79
81 29 0.21
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGACCCGAAGACAAT
CGAGCGAGTCACTAA
Found at i:36755252 original size:40 final size:39
Alignment explanation
Indices: 36755048--36755265 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 39
36755038 CGAATGGTAT
* * *
36755048 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36755088 TCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
36755128 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
*
36755168 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
36755207 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36755248 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
36755266 ACAATCGAGC
Statistics
Matches: 157, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 9 0.06
40 145 0.92
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36755261 original size:120 final size:120
Alignment explanation
Indices: 36755048--36755265 Score: 305
Period size: 120 Copynumber: 1.8 Consensus size: 120
36755038 CGAATGGTAT
* *
36755048 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCGGGTCAATTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCGGGTCAATTCCCGAAGGCAATTG
* * *
36755113 TGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 TGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
36755168 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAAT-CGGGTC-AATTCCCGAAGGCAAT
* * *
36755231 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
64 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
36755266 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 11 0.13
120 74 0.87
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCGGGTCAATTCCCGAAGGCAATTG
TGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:36755286 original size:40 final size:40
Alignment explanation
Indices: 36755208--36755291 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
36755198 GTTACTAAAT
* * *
36755208 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
36755248 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
36755288 CCGG
1 CCGG
36755292 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:36755290 original size:80 final size:80
Alignment explanation
Indices: 36755046--36755291 Score: 190
Period size: 80 Copynumber: 3.1 Consensus size: 80
36755036 TTCGAATGGT
** * * * * * *
36755046 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGA-CTAAATCGGG-TCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TCACCAAAACCGGGCT-AAGTCCCGAAGACA
* * * * *
36755109 TTTGTGCGAGTTACCAA
64 ATCGAGCGAGTCACTAA
* * * * * * * *
36755126 AACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAAT
* * *
36755191 TGTGCGAGTTACTAA
66 CGAGCGAGTCACTAA
* * * *
36755206 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAAT
* *
36755271 CGAGCGAGTCGCTAT
66 CGAGCGAGTCACTAA
36755286 ATCCGG
1 ATCCGG
36755292 TTAAATTCCG
Statistics
Matches: 137, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
79 2 0.01
80 134 0.98
81 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGACAAT
CGAGCGAGTCACTAA
Found at i:36762240 original size:17 final size:18
Alignment explanation
Indices: 36762218--36762251 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36762208 TTTTTGTTTG
36762218 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
36762235 AATAAATTAATATGCAT
1 AATAAATTAATATGCAT
36762252 ATATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:36764511 original size:22 final size:19
Alignment explanation
Indices: 36764486--36764533 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
36764476 TATCATTTCG
36764486 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
36764508 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
36764526 ATTAAATT
1 ATTAAATT
36764534 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:36768207 original size:41 final size:41
Alignment explanation
Indices: 36768162--36768243 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
36768152 CTTTTGCCTA
*
36768162 AAATGTGAAATTGATTGAATTGAATATGGATTTTATTAAAT
1 AAATGTGAAATTGATTGAATTGAATATGAATTTTATTAAAT
36768203 AAATGTGAAATTGATTGAATTGAATATGAATTTTATTAAAT
1 AAATGTGAAATTGATTGAATTGAATATGAATTTTATTAAAT
36768244 TAAGTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (41 bp):
AAATGTGAAATTGATTGAATTGAATATGAATTTTATTAAAT
Found at i:36768244 original size:21 final size:21
Alignment explanation
Indices: 36768179--36768244 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
36768169 AAATTGATTG
*
36768179 AATTGAATATGGATTTTATTA
1 AATTGAATATGAATTTTATTA
* * * * *
36768200 AA-TAAATGTGAAATTGATTG
1 AATTGAATATGAATTTTATTA
36768220 AATTGAATATGAATTTTATTA
1 AATTGAATATGAATTTTATTA
36768241 AATT
1 AATT
36768245 AAGTTAAATT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (21 bp):
AATTGAATATGAATTTTATTA
Found at i:36768629 original size:23 final size:23
Alignment explanation
Indices: 36768572--36768629 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
36768562 AAAGAGTGTC
* * *
36768572 TTATAGCCCTTTCAAGCTTCCTG
1 TTATAGCTCTTGCAAGCTTCCCG
*
36768595 TATATAGTTCTTGCAAGCTTCCCG
1 T-TATAGCTCTTGCAAGCTTCCCG
36768619 TTATAGCTCTT
1 TTATAGCTCTT
36768630 CGGAGCATCC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (23 bp):
TTATAGCTCTTGCAAGCTTCCCG
Found at i:36780487 original size:3 final size:3
Alignment explanation
Indices: 36780479--36780506 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36780469 TTGTTCTTAA
36780479 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
36780507 CATACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36780513 original size:4 final size:4
Alignment explanation
Indices: 36780504--36780577 Score: 121
Period size: 4 Copynumber: 18.5 Consensus size: 4
36780494 AATAATAATA
* *
36780504 ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
36780552 ATAC ATAC ATGC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
36780578 TTATAGCGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:36801060 original size:26 final size:27
Alignment explanation
Indices: 36801017--36801068 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
36801007 AAGTGTCATT
*
36801017 TATTTACTGATCACAAAAT-TTTGAAG
1 TATTTAATGATCACAAAATATTTGAAG
36801043 TATTTAATGACTCA-AAAATATTTGAA
1 TATTTAATGA-TCACAAAATATTTGAA
36801069 TTTGCGACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (27 bp):
TATTTAATGATCACAAAATATTTGAAG
Found at i:36803997 original size:42 final size:43
Alignment explanation
Indices: 36803896--36804006 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 43
36803886 AACAAGTACA
* * * *
36803896 ATGCCAACGTCTCAGAC-GTGGTCTTACATGCAATTCAATATTG
1 ATGCCAATGTCTCAGACAG-GGTCTTACAAGCAAATCAATATCG
** *
36803939 ATGCCTCTGTCCCAGACAGGGTCTTACAAG-AAATCAGATA-CG
1 ATGCCAATGTCTCAGACAGGGTCTTACAAGCAAATCA-ATATCG
*
36803981 ATGCCAATGTCTCAGACATGGTCTTA
1 ATGCCAATGTCTCAGACAGGGTCTTA
36804007 TACATAAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
42 28 0.51
43 26 0.47
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCTCAGACAGGGTCTTACAAGCAAATCAATATCG
Found at i:36810578 original size:27 final size:27
Alignment explanation
Indices: 36810538--36810662 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
36810528 GGATAAGTTA
*
36810538 TAGAATTACCGAAATACCCATGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
** *
36810565 TAGAATTATTGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
36810592 TAGAATTACCGAACTACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
36810619 TAGAATTACTGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
36810646 TAGAATTACCGAGATAC
1 TAGAATTACCGAAATAC
36810663 TCTTATGGGG
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:36810621 original size:54 final size:54
Alignment explanation
Indices: 36810537--36810662 Score: 198
Period size: 54 Copynumber: 2.3 Consensus size: 54
36810527 TGGATAAGTT
* *
36810537 ATAGAATTACCGAAATACCCATGTAGGGTAGAATTATTGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCCTGTAGG
* *
36810591 ATAGAATTACCGAACTACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCCTGTAGG
* *
36810645 GTAGAATTACCGAGATAC
1 ATAGAATTACCGAAATAC
36810663 TCTTATGGGG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
ATAGAATTACCGAAATACCCATGTAAGGTAGAATTACTGAAATACCCCTGTAGG
Found at i:36810696 original size:27 final size:27
Alignment explanation
Indices: 36810666--36810717 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36810656 GAGATACTCT
*
36810666 TATGGGGTAAAATTACCATTTTGCCCC
1 TATGGGGTAAAATGACCATTTTGCCCC
* * *
36810693 TATGGTGTTAAATGACTATTTTGCC
1 TATGGGGTAAAATGACCATTTTGCC
36810718 TCTCGTGCGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (27 bp):
TATGGGGTAAAATGACCATTTTGCCCC
Found at i:36813048 original size:27 final size:28
Alignment explanation
Indices: 36812992--36813061 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
36812982 AAACTTGTAC
36812992 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
36813020 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
36813047 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36813062 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:36813072 original size:27 final size:27
Alignment explanation
Indices: 36812992--36813073 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
36812982 AAACTTGTAC
* *
36812992 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
36813020 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
36813047 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
36813074 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:36818739 original size:21 final size:20
Alignment explanation
Indices: 36818713--36818751 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36818703 GTTTGTTTTG
36818713 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
36818734 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
36818752 ACAAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:36820732 original size:19 final size:19
Alignment explanation
Indices: 36820695--36820732 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36820685 CAAGAGTGTG
*
36820695 TCCCCTCTTTTGAGAAAAA
1 TCCCCTCTTTTGAAAAAAA
*
36820714 TCCCCTGTTTTGAAAAAAA
1 TCCCCTCTTTTGAAAAAAA
36820733 AATTCTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (19 bp):
TCCCCTCTTTTGAAAAAAA
Found at i:36823186 original size:27 final size:26
Alignment explanation
Indices: 36823144--36823195 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
36823134 GCGAGGCTGC
*
36823144 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
36823170 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
36823196 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36828227 original size:19 final size:18
Alignment explanation
Indices: 36828190--36828233 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
36828180 ATACATACAG
36828190 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
36828207 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
36828226 TACTAATT
1 TAATAATT
36828234 AAAATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:36829276 original size:45 final size:45
Alignment explanation
Indices: 36829227--36829472 Score: 305
Period size: 45 Copynumber: 5.5 Consensus size: 45
36829217 TGATGTCCCA
** * * * * *
36829227 GTCTTACACGTTACCACATAGATCAATACCAACGTCCCAGATGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* * * * *
36829272 GTCTTACACAAAAACAAATATATTGATGCCAACGTCCTAGACGTT
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
*
36829317 GTCTTACACGAAAACACATTTATCGATGCCAACGTCCCAGACGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* * *
36829362 GTCTTACACAAAAATACATATATCAATGCCAACGTCCCAGACGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* * *
36829407 GTCTTGCACGAAAACACATATATCGATGTCAACGTCCCAGACATG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
36829452 GTCTTACAC-AAAATCACATAT
1 GTCTTACACGAAAA-CACATAT
36829473 CAGAATACTG
Statistics
Matches: 171, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 4 0.02
45 167 0.98
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
Found at i:36837572 original size:45 final size:44
Alignment explanation
Indices: 36837507--36837674 Score: 183
Period size: 45 Copynumber: 3.7 Consensus size: 44
36837497 CGATGCTGAT
* * * * *
36837507 GTCCCAGACATGGTCTTACACATAACCACATAGATCGATGCCAAC
1 GTCCCAAACGTGGTCTTACACA-AAACACATATATAGATGCCAAC
* * * *
36837552 GTACCAAACGTGGTTTTACACGAAAATACATATATTGATGCCAAC
1 GTCCCAAACGTGGTCTTACAC-AAAACACATATATAGATGCCAAC
*
36837597 GTCCCAGACGTGGTCTTACACAAAAACACATATATAGATGCCAAC
1 GTCCCAAACGTGGTCTTACAC-AAAACACATATATAGATGCCAAC
* * *
36837642 GTCCCAAATGCGGTCTTACACGAAAACGCATAT
1 GTCCCAAACGTGGTCTTACAC-AAAACACATAT
36837675 CAAAATCCTG
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 102 0.99
46 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (44 bp):
GTCCCAAACGTGGTCTTACACAAAACACATATATAGATGCCAAC
Found at i:36837674 original size:90 final size:90
Alignment explanation
Indices: 36837507--36837674 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 90
36837497 CGATGCTGAT
* * * * *
36837507 GTCCCAGACATGGTCTTACACATAACCACATAGATCGATGCCAACGTACCAAACGTGGTTTTACA
1 GTCCCAGACATGGTCTTACACAAAAACACATAGATAGATGCCAACGTACCAAACGCGGTCTTACA
*
36837572 CGAAAATACATATATTGATGCCAAC
66 CGAAAACACATATATTGATGCCAAC
* * * *
36837597 GTCCCAGACGTGGTCTTACACAAAAACACATATATAGATGCCAACGTCCCAAATGCGGTCTTACA
1 GTCCCAGACATGGTCTTACACAAAAACACATAGATAGATGCCAACGTACCAAACGCGGTCTTACA
*
36837662 CGAAAACGCATAT
66 CGAAAACACATAT
36837675 CAAAATCCTG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 67 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (90 bp):
GTCCCAGACATGGTCTTACACAAAAACACATAGATAGATGCCAACGTACCAAACGCGGTCTTACA
CGAAAACACATATATTGATGCCAAC
Found at i:36838782 original size:14 final size:15
Alignment explanation
Indices: 36838765--36838793 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36838755 TCACAAAAAT
36838765 TTCACACAT-ATAAA
1 TTCACACATAATAAA
36838779 TTCACACATAATAAA
1 TTCACACATAATAAA
36838794 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:36842189 original size:43 final size:42
Alignment explanation
Indices: 36842125--36842290 Score: 138
Period size: 42 Copynumber: 3.9 Consensus size: 42
36842115 AAGACTATAC
*** **
36842125 CAATGCCAT-GTCCCAGATATGGTCTTACATGTAATCTTGTAT
1 CAATGCCATAG-CCCAGATATGGTCTTACACAAAATCTCATAT
* *
36842167 CAATGCCAATAGCCCAGCTATGGTCATACACAAAATCTCATAT
1 CAATGCC-ATAGCCCAGATATGGTCTTACACAAAATCTCATAT
* * * * *
36842210 CATTGCCATATCCCAGATATGGTCTTATACGAAGTCTCATA-
1 CAATGCCATAGCCCAGATATGGTCTTACACAAAATCTCATAT
* ** * *
36842251 CTGATTTCATATCCCAGATATGGTCTTACACATAATCTCA
1 C-AATGCCATAGCCCAGATATGGTCTTACACAAAATCTCA
36842291 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.66
43 32 0.32
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
CAATGCCATAGCCCAGATATGGTCTTACACAAAATCTCATAT
Found at i:36848771 original size:40 final size:40
Alignment explanation
Indices: 36848716--36848933 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
36848706 CGGATGATAA
* *
36848716 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
36848756 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
36848796 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
36848836 CCGAGCCAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
36848876 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
36848916 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36848934 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 17 0.10
40 146 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36851365 original size:64 final size:64
Alignment explanation
Indices: 36851285--36851416 Score: 248
Period size: 64 Copynumber: 2.1 Consensus size: 64
36851275 TATTTTCACT
*
36851285 AAAA-CTTACTTTGTAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATC
1 AAAATCTTACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATC
36851348 AAAATCTTACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATC
1 AAAATCTTACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATC
36851412 AAAAT
1 AAAAT
36851417 ACAACCATGT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 4 0.06
64 63 0.94
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (64 bp):
AAAATCTTACTTAGTAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATC
Found at i:36855494 original size:42 final size:42
Alignment explanation
Indices: 36855435--36855519 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
36855425 GTTTTGAACC
36855435 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
1 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
36855477 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
1 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
36855519 T
1 T
36855520 TAGTAAGCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.48
Consensus pattern (42 bp):
TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
Found at i:36859211 original size:40 final size:40
Alignment explanation
Indices: 36859103--36859312 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
36859093 CGGGATTTAA
* * * * *
36859103 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
36859143 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
36859183 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
36859223 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
36859263 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
36859303 CCGGATATAT
1 CCGGATATAT
36859313 TTTCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:36861765 original size:19 final size:17
Alignment explanation
Indices: 36861733--36861771 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
36861723 ATAATAGGGG
36861733 AAAATTGTAATTTTGAT
1 AAAATTGTAATTTTGAT
*
36861750 AAAATGTGTAAATTTTGTT
1 AAAAT-TGT-AATTTTGAT
36861769 AAA
1 AAA
36861772 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (17 bp):
AAAATTGTAATTTTGAT
Found at i:36866741 original size:17 final size:16
Alignment explanation
Indices: 36866721--36866754 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36866711 TTCATAAGCA
*
36866721 TATATCATTCATTTCAT
1 TATATCAAT-ATTTCAT
36866738 TATATCAATATTTCAT
1 TATATCAATATTTCAT
36866754 T
1 T
36866755 CTCCATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATCAATATTTCAT
Found at i:36867034 original size:46 final size:45
Alignment explanation
Indices: 36866974--36867239 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
36866964 TTTGACATGA
* * * * * *
36866974 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
36867020 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
36867066 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
36867112 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
36867158 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
36867196 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
36867240 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:36867203 original size:38 final size:38
Alignment explanation
Indices: 36867152--36867227 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
36867142 ACATTTTATA
36867152 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
36867190 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
36867228 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:36869394 original size:11 final size:11
Alignment explanation
Indices: 36869378--36869429 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
36869368 TATACTAAAT
36869378 AAATAATAATA
1 AAATAATAATA
*
36869389 AAATAAT-ATT
1 AAATAATAATA
* *
36869399 AAATATCTCATA
1 AAATA-ATAATA
*
36869411 AAATATTAATA
1 AAATAATAATA
36869422 AAATAATA
1 AAATAATA
36869430 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:36871856 original size:43 final size:42
Alignment explanation
Indices: 36871725--36871878 Score: 195
Period size: 42 Copynumber: 3.6 Consensus size: 42
36871715 AGAGACTATG
36871725 TGTAAGACCATATC-TGAGATATGGCATC-ATTATGAGATTTCA
1 TGTAAGACCATATCTTG-GATATGGCATCGA-TATGAGATTTCA
* * *
36871767 TGTAAGACCATATCTGGGATATGGCATCGATATGATATTTCG
1 TGTAAGACCATATCTTGGATATGGCATCGATATGAGATTTCA
* * **
36871809 TGTAAGACCATAGCTTGGCTATAGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTTGGATAT-GGCATCGATATGAGATTTCA
*
36871852 TGTAAGACCAAATCTTGGATATGGCAT
1 TGTAAGACCATATCTTGGATATGGCAT
36871879 TGGTGTGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
42 59 0.61
43 37 0.39
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTTGGATATGGCATCGATATGAGATTTCA
Found at i:36871872 original size:85 final size:84
Alignment explanation
Indices: 36871724--36871878 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
36871714 TAGAGACTAT
* ** *
36871724 GTGTAAGACCATATCTGAGATATGGCATCATTATGAGATTTCATGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATAGCTGAGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGGGATAT
36871789 GGCATCGATATGATATTTC
66 GGCATCGATATGATATTTC
* *
36871808 GTGTAAGACCATAGCTTG-GCTATAGGCATCGA-TATGAGATCCCATGTAAGACCAAATCTTGGA
1 GTGTAAGACCATAGC-TGAGATAT-GGCATC-ATTATGAGATCCCATGTAAGACCAAATCTGGGA
36871871 TATGGCAT
63 TATGGCAT
36871879 TGGTGTGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
84 18 0.29
85 43 0.69
86 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGAGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGGGATAT
GGCATCGATATGATATTTC
Found at i:36871897 original size:85 final size:84
Alignment explanation
Indices: 36871719--36871897 Score: 202
Period size: 85 Copynumber: 2.1 Consensus size: 84
36871709 GGTTATAGAG
* ** *
36871719 ACTATGTGTAAGACCATATCTGAGATATGGCATCATTATGAGATTTCATGTAAGACCATATCTGG
1 ACTATGTGTAAGACCATAGCTGAGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGG
36871784 GATATGGCATCGATATGAT
66 GATATGGCATCGATATGAT
* *
36871803 A-TTTCGTGTAAGACCATAGCTTG-GCTATAGGCATCGA-TATGAGATCCCATGTAAGACCAAAT
1 ACTAT-GTGTAAGACCATAGC-TGAGATAT-GGCATC-ATTATGAGATCCCATGTAAGACCAAAT
* * * * *
36871865 CTTGGATATGGCATTGGTGTGGT
62 CTGGGATATGGCATCGATATGAT
36871888 ACTATGTGTA
1 ACTATGTGTA
36871898 CGAGATACCC
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
83 2 0.03
84 19 0.24
85 54 0.69
86 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (84 bp):
ACTATGTGTAAGACCATAGCTGAGATATGGCATCATTATGAGATCCCATGTAAGACCAAATCTGG
GATATGGCATCGATATGAT
Found at i:36873799 original size:47 final size:48
Alignment explanation
Indices: 36873727--36874043 Score: 236
Period size: 47 Copynumber: 6.7 Consensus size: 48
36873717 TTATTTGTGT
* *
36873727 GCCAGTGTAAGA-CATGTCTAGGACAT-GTATCGGCCACATTATGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTATGATGA
*
36873773 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GACGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT-ATGATG--A
* * *
36873821 GCTAGTGTAAGA-CATGTCTGGGACA-GGCATCGGCTAC--GA-GATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATTATGATGA
* * *
36873865 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATG-TGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-TTATGAT--GA
* * * * ** *
36873915 GCTAGTGTATGACTATGTCTAGGACATGGCATCAACCTCGATT-TCGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCAC-ATTAT-GATGA
*
36873964 GTCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT-AT-GATGA
*
36874011 GCCAGTGTAAGACCATGTCTGGGACATGCCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
36874044 AGCATTAGTG
Statistics
Matches: 216, Mismatches: 31, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
44 12 0.06
45 20 0.09
46 40 0.19
47 58 0.27
48 20 0.09
49 31 0.14
50 30 0.14
51 3 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGATGA
Found at i:36873893 original size:92 final size:95
Alignment explanation
Indices: 36873775--36874044 Score: 302
Period size: 96 Copynumber: 2.8 Consensus size: 95
36873765 TTATGAGAGC
*
36873775 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAAAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-GAGAGCTAGTGTAAGACATGTCT
**
36873840 GGGACA-GGCATC-GGCTACGAGAT-G-T-GT
65 GGGACATGGCATCAACCT-CGAGATCGATAGT
* * *
36873867 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGTGAGAGCTAGTGTATGACTATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GAGAGAGCTAGTGTAAGAC-ATG
* **
36873932 TCTAGGACATGGCATCAACCTCGATTTCGATAGT
62 TCTGGGACATGGCATCAACCTCGAGATCGATAGT
* *
36873966 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG-GATGAGCCAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAGA-GAGCTAGTGTAAGA-CATGT
*
36874029 CTGGGACATGCCATCA
63 CTGGGACATGGCATCA
36874045 GCATTAGTGA
Statistics
Matches: 152, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
92 37 0.24
94 16 0.11
95 14 0.09
96 43 0.28
97 4 0.03
98 3 0.02
99 35 0.23
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGAGAGCTAGTGTAAGACATGTCTG
GGACATGGCATCAACCTCGAGATCGATAGT
Found at i:36873994 original size:99 final size:92
Alignment explanation
Indices: 36873775--36873997 Score: 277
Period size: 92 Copynumber: 2.3 Consensus size: 92
36873765 TTATGAGAGC
*
36873775 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAAAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAAAGCTAGTGTAAGACATGTCT
* **
36873840 GGGACAGGCATCGGCTACGAGATGTGT
66 AGGACAGGCATCACCTACGAGATGTGT
* * * *
36873867 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGATATGTGAGAGCTAGTGTATGACTATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGA--CGAAAGCTAGTGTAAGAC-ATG
**
36873932 TCTAGGACATGGCATCAACCT-CGATTTCGATAGT
63 TCTAGGACA-GGCATC-ACCTACGAGAT-G-T-GT
36873966 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
36873998 ACTTGATGGA
Statistics
Matches: 113, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
92 39 0.35
94 15 0.13
95 11 0.10
96 10 0.09
97 3 0.03
98 1 0.01
99 34 0.30
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAAAGCTAGTGTAAGACATGTCT
AGGACAGGCATCACCTACGAGATGTGT
Found at i:36880229 original size:33 final size:32
Alignment explanation
Indices: 36880170--36880233 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
36880160 ATGAAGTCAC
* *
36880170 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
36880202 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCGAAGCCACCAGA
36880234 TTGCAGCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:36882932 original size:27 final size:26
Alignment explanation
Indices: 36882884--36882943 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
36882874 GCGAGGCTGC
* *
36882884 CAGATATTGTGACGAAGTCACCAGCTA
1 CAGATATTGTGACGAAGCCACCAG-AA
* * *
36882911 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
36882937 CAGATAT
1 CAGATAT
36882944 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36884597 original size:181 final size:182
Alignment explanation
Indices: 36884287--36884622 Score: 593
Period size: 181 Copynumber: 1.9 Consensus size: 182
36884277 CCAGATTTGA
* *
36884287 ACCCAAGACTTCTCTAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAGCGAAAT
1 ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAGCAAAAT
**
36884352 TAACACGTACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCTGAAACTTC
66 TAACACGTACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCCAAAACTTC
36884417 TAGGCCCAAATTCAGAGTGTTACAACTCTACCTCCCTTAAAGCTTACCTACT
131 TAGGCCCAAATTCAGAGTGTTACAACTCTACCTCCCTTAAAGCTTACCTACT
36884469 ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAG-CTTCATTAGCAAAAT
1 ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAGCAAAAT
* * *
36884533 TTACACGTACAACAAAATATTATAAGCTGCCTTCAACCGCTCCCATGCTCAAGGCCCAAAACTTC
66 TAACACGTACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCCAAAACTTC
*
36884598 TAGGCCCAAATTCAGGGTGTTACAA
131 TAGGCCCAAATTCAGAGTGTTACAA
36884623 TTCGAGTTAT
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
181 98 0.67
182 48 0.33
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (182 bp):
ACCCAAGACTTCTCCAACACTTCTCAGCACACTTAACCACTAAAACAAGCCTTCATTAGCAAAAT
TAACACGTACAACAAAATATTATAAGCTACCTTCAACCGCTCCAATGCTCAAGGCCCAAAACTTC
TAGGCCCAAATTCAGAGTGTTACAACTCTACCTCCCTTAAAGCTTACCTACT
Found at i:36886083 original size:37 final size:37
Alignment explanation
Indices: 36886028--36886103 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
36886018 TCCGAGAAGT
36886028 CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
1 CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
* *
36886065 CAAATTTTTGGGATATATTGTTTCAGGTGATTGTATC
1 CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
36886102 CA
1 CA
36886104 TGTTGATCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (37 bp):
CAAATTTTTGGGACATATTGTTTCAGGTGATGGTATC
Found at i:36888995 original size:17 final size:17
Alignment explanation
Indices: 36888970--36889003 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36888960 AAATATGTGT
*
36888970 AAAAGTGTGATTAAATG
1 AAAAATGTGATTAAATG
36888987 AAAAATGTGATTAAATG
1 AAAAATGTGATTAAATG
36889004 TGAGTTGTTA
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:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
AAAAATGTGATTAAATG
Found at i:36889495 original size:42 final size:42
Alignment explanation
Indices: 36889448--36889609 Score: 193
Period size: 42 Copynumber: 3.8 Consensus size: 42
36889438 TCGAGACTAT
*
36889448 GTGTAAGACCATAACTGGGATATGGCATC-ATTATGAGATTTA
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTA
* *
36889490 GTGTAAGACCATATCTGGGATATGGCATCGATATGATATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTA
* * * *
36889532 GTGTAAGACCATAGCTGGGCTATAGGCATCGATACGAGATCTCA
1 GTGTAAGACCATATCTGGGATAT-GGCATCGATATGAGAT-TTA
* * *
36889576 -TTTAAGACCATATCTAGGATATGGCATTGATATG
1 GTGTAAGACCATATCTGGGATATGGCATCGATATG
36889610 GTACTATGTG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 68 0.67
43 33 0.32
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTA
Found at i:36889590 original size:85 final size:84
Alignment explanation
Indices: 36889448--36889609 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
36889438 TCGAGACTAT
* * *
36889448 GTGTAAGACCATAACTGGGATATGGCATCATTATGAGATTTAGTGTAAGACCATATCTGGGATAT
1 GTGTAAGACCATAACTGGGATATGGCATCATTACGAGATTCAGTGTAAGACCATATCTAGGATAT
36889513 GGCATCGATATGATATTTC
66 GGCATCGATATGATATTTC
* * *
36889532 GTGTAAGACCATAGCTGGGCTATAGGCATCGA-TACGAGATCTCA-TTTAAGACCATATCTAGGA
1 GTGTAAGACCATAACTGGGATAT-GGCATC-ATTACGAGAT-TCAGTGTAAGACCATATCTAGGA
*
36889595 TATGGCATTGATATG
63 TATGGCATCGATATG
36889610 GTACTATGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 21 0.31
85 44 0.65
86 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCATAACTGGGATATGGCATCATTACGAGATTCAGTGTAAGACCATATCTAGGATAT
GGCATCGATATGATATTTC
Found at i:36896138 original size:14 final size:14
Alignment explanation
Indices: 36896119--36896155 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
36896109 AGTTTACAAT
* *
36896119 TATAATAGATATAA
1 TATAATAAATAAAA
36896133 TATAATAAATAAAA
1 TATAATAAATAAAA
36896147 TATAATAAA
1 TATAATAAA
36896156 ATATACCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TATAATAAATAAAA
Found at i:36896776 original size:25 final size:24
Alignment explanation
Indices: 36896740--36896790 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
36896730 TTATTGTATA
*
36896740 TAAAAAAGAATTGTTAAGTTATATG
1 TAAAAAAGAATTGTTAAATT-TATG
36896765 TAAATAAA-AATTGTTAAATTTATG
1 TAAA-AAAGAATTGTTAAATTTATG
36896789 TA
1 TA
36896791 CGGAATTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 15 0.62
26 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (24 bp):
TAAAAAAGAATTGTTAAATTTATG
Found at i:36899613 original size:28 final size:28
Alignment explanation
Indices: 36899573--36899630 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
36899563 AACTAAGAAA
36899573 TTAGTTATACCTCTTCAATGTGATAACC
1 TTAGTTATACCTCTTCAATGTGATAACC
36899601 TTAGTTATACCTCTTCAATGTGATAACC
1 TTAGTTATACCTCTTCAATGTGATAACC
36899629 TT
1 TT
36899631 TCTTTGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (28 bp):
TTAGTTATACCTCTTCAATGTGATAACC
Found at i:36910404 original size:81 final size:83
Alignment explanation
Indices: 36910260--36910419 Score: 261
Period size: 81 Copynumber: 1.9 Consensus size: 83
36910250 ATCAAATAAA
*
36910260 GAAAATAAAATTATGTTAAAAAAAAAGAGTGAGACTCAAATAAACAAAACTAAAAGATACATATA
1 GAAAATAAAATTATGTT--AAAAAAAGAGTGAGAATCAAATAAACAAAACTAAAAGATACATATA
36910325 GCAAGTGCTTACATTTATTT
64 GCAAGTGCTTACATTTATTT
* *
36910345 GAAAGTAAAATTATGTT-AAAAAA-AGTGAGAATCAAATAAACAAAGCTAAAAGATACATATAGC
1 GAAAATAAAATTATGTTAAAAAAAGAGTGAGAATCAAATAAACAAAACTAAAAGATACATATAGC
36910408 AAGTGCTTACAT
66 AAGTGCTTACAT
36910420 ATTGCATTTA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
81 50 0.69
82 6 0.08
85 16 0.22
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.24
Consensus pattern (83 bp):
GAAAATAAAATTATGTTAAAAAAAGAGTGAGAATCAAATAAACAAAACTAAAAGATACATATAGC
AAGTGCTTACATTTATTT
Found at i:36910728 original size:17 final size:17
Alignment explanation
Indices: 36910697--36910739 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
36910687 AAATTTAAAC
36910697 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
36910713 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
*
36910730 -TTTTATTTAA
1 ATTTTAATTAA
36910740 TAAATCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:36910739 original size:16 final size:16
Alignment explanation
Indices: 36910697--36910736 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
36910687 AAATTTAAAC
36910697 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
36910713 ATTTTAATTAAGATAAT
1 ATTTT-ATTAAAATAAT
36910730 -TTTTATT
1 ATTTTATT
36910737 TAATAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:36911228 original size:43 final size:42
Alignment explanation
Indices: 36911148--36911229 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
36911138 TCAATAGAAA
* * *
36911148 TAAAAGTTTAATATTGAATAAAAAATTGAATTTTTAATGAAC
1 TAAAAGTTTAATATTGAATAAAAAAATAAAATTTTAATGAAC
*
36911190 TAAAAGTTTAA-ATTTACATAAAAAAGATAAAATTTTAATG
1 TAAAAGTTTAATATTGA-ATAAAAAA-ATAAAATTTTAATG
36911230 GGTATTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.12
42 19 0.56
43 11 0.32
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (42 bp):
TAAAAGTTTAATATTGAATAAAAAAATAAAATTTTAATGAAC
Done.