Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 40 of 143
Found at i:12397571 original size:13 final size:14
Alignment explanation
Indices: 12397545--12397576 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12397535 ACTACTAGTG
12397545 TAGT-TTTTGTGGT
1 TAGTCTTTTGTGGT
12397558 TAGTCTTTTG-GGT
1 TAGTCTTTTGTGGT
12397571 TAGTCT
1 TAGTCT
12397577 GTTAACGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.09, C:0.06, G:0.28, T:0.56
Consensus pattern (14 bp):
TAGTCTTTTGTGGT
Found at i:12401757 original size:73 final size:73
Alignment explanation
Indices: 12401675--12401944 Score: 281
Period size: 73 Copynumber: 3.7 Consensus size: 73
12401665 TGAGAATTCA
* * *
12401675 GAAATAGTAAGTTACACGATCTGGGCCCACGGGCGTGTGCCAGACCGTGTGGTTATTTTAAATGG
1 GAAACAGTAAGTTACACGATCTGGGCCCACGGGCATGTGCCAGACCATGTGGTTATTTTAAATGG
*
12401740 CGAAGTTG
66 CGAAATTG
* * ** ** * *
12401748 GAAACAGTAAGTTTCACGGTCTGGGTTCATAGGCATGTTCCAGACCATGTGGTTATGTTAAATGG
1 GAAACAGTAAGTTACACGATCTGGGCCCACGGGCATGTGCCAGACCATGTGGTTATTTTAAATGG
*
12401813 CAAAATTG
66 CGAAATTG
* * * * **
12401821 GAAACAGTGAGTTACACGATCTGGGCCCACGGGCATGTGCCAGA-TAGTGTGGATATTTTGAGGG
1 GAAACAGTAAGTTACACGATCTGGGCCCACGGGCATGTGCCAGACCA-TGTGGTTATTTTAAATG
12401885 GCGAAATTG
65 GCGAAATTG
* * * * * * * *
12401894 GAAATAGTGAGTTACACGGTCTGGACACACGGGCGTGAGCCAAACCATGTG
1 GAAACAGTAAGTTACACGATCTGGGCCCACGGGCATGTGCCAGACCATGTG
12401945 AGCATACTAT
Statistics
Matches: 159, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
72 1 0.01
73 157 0.99
74 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (73 bp):
GAAACAGTAAGTTACACGATCTGGGCCCACGGGCATGTGCCAGACCATGTGGTTATTTTAAATGG
CGAAATTG
Found at i:12402231 original size:39 final size:38
Alignment explanation
Indices: 12402096--12402237 Score: 194
Period size: 38 Copynumber: 3.7 Consensus size: 38
12402086 TAGATTACTG
* * **
12402096 AACTAGTAGTGACATTGTAAACACAACAATGCCTATTA
1 AACTAGCAGTGACACTGTAAACACTGCAATGCCTATTA
* *
12402134 AACTAGCATTGACATTGTAAACACTGCAATGCCTATTA
1 AACTAGCAGTGACACTGTAAACACTGCAATGCCTATTA
*
12402172 AACTAGCAGTGACACTGTAAACACTGCAATGCCTTATTG
1 AACTAGCAGTGACACTGTAAACACTGCAATGCC-TATTA
* *
12402211 AACTGGCAGTAACACTGTAAACACTGC
1 AACTAGCAGTGACACTGTAAACACTGC
12402238 GATACACTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 65 0.69
39 29 0.31
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.25
Consensus pattern (38 bp):
AACTAGCAGTGACACTGTAAACACTGCAATGCCTATTA
Found at i:12402249 original size:39 final size:38
Alignment explanation
Indices: 12402094--12402271 Score: 185
Period size: 38 Copynumber: 4.6 Consensus size: 38
12402084 ACTAGATTAC
* * * **
12402094 TGAACTAGTAGTGACATTGTAAACACAACAATGCCTAT
1 TGAACTGGCAGTGACACTGTAAACACTGCAATGCCTAT
* * * *
12402132 TAAACTAGCATTGACATTGTAAACACTGCAATGCCTAT
1 TGAACTGGCAGTGACACTGTAAACACTGCAATGCCTAT
* *
12402170 TAAACTAGCAGTGACACTGTAAACACTGCAATGCCTTAT
1 TGAACTGGCAGTGACACTGTAAACACTGCAATGCC-TAT
* * *
12402209 TGAACTGGCAGTAACACTGTAAACACTGCGATACACTAT
1 TGAACTGGCAGTGACACTGTAAACACTGCAATGC-CTAT
* * *
12402248 TGAACGGGCAATGACACTATAAAC
1 TGAACTGGCAGTGACACTGTAAAC
12402272 CAAGCCATGC
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 66 0.54
39 55 0.45
40 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (38 bp):
TGAACTGGCAGTGACACTGTAAACACTGCAATGCCTAT
Found at i:12403057 original size:58 final size:56
Alignment explanation
Indices: 12402995--12403158 Score: 173
Period size: 48 Copynumber: 3.0 Consensus size: 56
12402985 CGAGTACTTA
* *
12402995 AGCATTTAACACAACACATATTAATCACATTTAATCACAGTATTCACATGAATATTTT
1 AGCATTTATCACATCACATATTAATCACATTT-ATCACAGTA-TCACATGAATATTTT
*
12403053 AGCATTTATCACATCACATATTAATCAC--TT-T---AG--TCTCATGAATATTTT
1 AGCATTTATCACATCACATATTAATCACATTTATCACAGTATCACATGAATATTTT
* * *
12403101 AACATTTATCACATCACATATTAATCATATTTAGTCACATTTAATCACATGAATATTT
1 AGCATTTATCACATCACATATTAATCACATTTA-TCACA-GT-ATCACATGAATATTT
12403159 AAGTAGAAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
48 40 0.45
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
55 1 0.01
56 2 0.02
58 26 0.30
59 13 0.15
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (56 bp):
AGCATTTATCACATCACATATTAATCACATTTATCACAGTATCACATGAATATTTT
Found at i:12403064 original size:23 final size:23
Alignment explanation
Indices: 12403038--12403114 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
12403028 ATCACAGTAT
*
12403038 TCACATGAATATTTTAGCATTTA
1 TCACATGAATATTTTAACATTTA
*
12403061 TCACATCACATA--TTAATCACTTTA
1 TCACATGA-ATATTTTAA-CA-TTTA
*
12403085 GTCTCATGAATATTTTAACATTTA
1 -TCACATGAATATTTTAACATTTA
12403109 TCACAT
1 TCACAT
12403115 CACATATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
22 3 0.07
23 14 0.33
24 14 0.33
25 8 0.19
26 4 0.09
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (23 bp):
TCACATGAATATTTTAACATTTA
Found at i:12403084 original size:24 final size:23
Alignment explanation
Indices: 12403055--12403128 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 23
12403045 AATATTTTAG
12403055 CATTTATCACATCACATATTAAT
1 CATTTATCACATCACATATTAAT
* *
12403078 CACTTTAGTCTCATGA-ATATTTTAA-
1 CA-TTTA-TCACATCACATA--TTAAT
12403103 CATTTATCACATCACATATTAAT
1 CATTTATCACATCACATATTAAT
12403126 CAT
1 CAT
12403129 ATTTAGTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 4 0.10
23 11 0.27
24 14 0.34
25 8 0.20
26 4 0.10
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (23 bp):
CATTTATCACATCACATATTAAT
Found at i:12403093 original size:48 final size:48
Alignment explanation
Indices: 12403018--12403140 Score: 176
Period size: 48 Copynumber: 2.6 Consensus size: 48
12403008 ACACATATTA
** * *
12403018 ATCACAT-TTAATCACAGTATTCACATGAATATTTTAGCATTTATCAC
1 ATCACATATTAATCACTTTAGTCACATGAATATTTTAACATTTATCAC
*
12403065 ATCACATATTAATCACTTTAGTCTCATGAATATTTTAACATTTATCAC
1 ATCACATATTAATCACTTTAGTCACATGAATATTTTAACATTTATCAC
*
12403113 ATCACATATTAATCATATTTAGTCACAT
1 ATCACATATTAATCA-CTTTAGTCACAT
12403141 TTAATCACAT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 7 0.10
48 50 0.75
49 10 0.15
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (48 bp):
ATCACATATTAATCACTTTAGTCACATGAATATTTTAACATTTATCAC
Found at i:12403139 original size:26 final size:24
Alignment explanation
Indices: 12403056--12403140 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 24
12403046 ATATTTTAGC
12403056 ATTTATCACATCACATATTAATCA
1 ATTTATCACATCACATATTAATCA
* * *
12403080 CTTTAGTCTCATGA-ATATTTTAA-C-
1 ATTTA-TCACATCACATA--TTAATCA
12403104 ATTTATCACATCACATATTAATCA
1 ATTTATCACATCACATATTAATCA
12403128 TATTTAGTCACAT
1 -ATTTA-TCACAT
12403141 TTAATCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
22 4 0.09
23 7 0.15
24 14 0.30
25 12 0.26
26 10 0.21
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTTATCACATCACATATTAATCA
Found at i:12403216 original size:23 final size:23
Alignment explanation
Indices: 12403189--12403319 Score: 219
Period size: 23 Copynumber: 5.7 Consensus size: 23
12403179 TTTAAGCATG
*
12403189 ATTAATAATTAAGCATAAATCAC
1 ATTAATATTTAAGCATAAATCAC
*
12403212 ATTAACATTTAAGCATAAATCAC
1 ATTAATATTTAAGCATAAATCAC
*
12403235 ATTAATATTTAAGCACAAATCAC
1 ATTAATATTTAAGCATAAATCAC
12403258 ATTAATATTTAAGCATAAATCAC
1 ATTAATATTTAAGCATAAATCAC
*
12403281 ATTAACATTTAAGCATAAATCAC
1 ATTAATATTTAAGCATAAATCAC
12403304 ATTAATATTTAA-CATA
1 ATTAATATTTAAGCATA
12403320 TTTAATAATA
Statistics
Matches: 101, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
22 4 0.04
23 97 0.96
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTAATATTTAAGCATAAATCAC
Found at i:12403256 original size:46 final size:46
Alignment explanation
Indices: 12403143--12403319 Score: 215
Period size: 46 Copynumber: 4.0 Consensus size: 46
12403133 AGTCACATTT
* * * *
12403143 AATCACATGAATATTTAAGTAGAAATCATATTAACATTTAAGC---
1 AATCACATTAATATTTAAGCATAAATCACATTAACATTTAAGCATA
* *
12403186 -AT--GATTAATAATTAAGCATAAATCACATTAACATTTAAGCATA
1 AATCACATTAATATTTAAGCATAAATCACATTAACATTTAAGCATA
* *
12403229 AATCACATTAATATTTAAGCACAAATCACATTAATATTTAAGCATA
1 AATCACATTAATATTTAAGCATAAATCACATTAACATTTAAGCATA
* *
12403275 AATCACATTAACATTTAAGCATAAATCACATTAATATTTAA-CATA
1 AATCACATTAATATTTAAGCATAAATCACATTAACATTTAAGCATA
12403320 TTTAATAATA
Statistics
Matches: 116, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
40 32 0.28
42 2 0.02
44 2 0.02
45 4 0.03
46 76 0.66
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.33
Consensus pattern (46 bp):
AATCACATTAATATTTAAGCATAAATCACATTAACATTTAAGCATA
Found at i:12403521 original size:66 final size:67
Alignment explanation
Indices: 12403402--12403540 Score: 190
Period size: 66 Copynumber: 2.1 Consensus size: 67
12403392 GATACGTGGA
* * * * * *
12403402 TCTCCAAACACACCAAATATGACTCGTAGAGTCGAACATATCCCAAAACTGAAGCATATATCTAA
1 TCTCCAAAAACACCAAAAAT-ACTCATAGAATCAAACATATCCCAAAACTGAAGCATATAGCTAA
12403467 CAC
65 CAC
* *
12403470 TCTCCAAAAACACCAAAAAT-CTCATAGAATCAAACATGTCCCAAAAGTGAAGCATATAGCTAAC
1 TCTCCAAAAACACCAAAAATACTCATAGAATCAAACATATCCCAAAACTGAAGCATATAGCTAAC
12403534 AC
66 AC
12403536 TCTCC
1 TCTCC
12403541 TTATTTTCCC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 45 0.71
68 18 0.29
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.20
Consensus pattern (67 bp):
TCTCCAAAAACACCAAAAATACTCATAGAATCAAACATATCCCAAAACTGAAGCATATAGCTAAC
AC
Found at i:12403839 original size:36 final size:36
Alignment explanation
Indices: 12403799--12403982 Score: 251
Period size: 36 Copynumber: 5.1 Consensus size: 36
12403789 TATTCACTAA
12403799 CACATGGCATGAATAACATACCCACATATTTACTGT
1 CACATGGCATGAATAACATACCCACATATTTACTGT
* *
12403835 CACATGACATGAATAACATACCCACATTTTTACTGT
1 CACATGGCATGAATAACATACCCACATATTTACTGT
* * **
12403871 CTCATGGCATGAATAACATACCTACGCATTTACTGT
1 CACATGGCATGAATAACATACCCACATATTTACTGT
* * *
12403907 CACATGACATGAATAACATACCAACATATTTACTAT
1 CACATGGCATGAATAACATACCCACATATTTACTGT
* * * *
12403943 CTCATGGCATGAATAACATACTCAGATATTTACTTT
1 CACATGGCATGAATAACATACCCACATATTTACTGT
12403979 CACA
1 CACA
12403983 ACAGTCATCA
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 127 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (36 bp):
CACATGGCATGAATAACATACCCACATATTTACTGT
Found at i:12403918 original size:72 final size:72
Alignment explanation
Indices: 12403784--12403982 Score: 281
Period size: 72 Copynumber: 2.8 Consensus size: 72
12403774 ATCATTAGCA
* * * *
12403784 CAACATATTCACTAACACATGGCATGAATAACATACCCACATATTTACTGTCACATGACATGAAT
1 CAACATATTTACTATCTCATGGCATGAATAACATACCCACACATTTACTGTCACATGACATGAAT
12403849 AACATAC
66 AACATAC
* * * * *
12403856 CCACATTTTTACTGTCTCATGGCATGAATAACATACCTACGCATTTACTGTCACATGACATGAAT
1 CAACATATTTACTATCTCATGGCATGAATAACATACCCACACATTTACTGTCACATGACATGAAT
12403921 AACATAC
66 AACATAC
* * * *
12403928 CAACATATTTACTATCTCATGGCATGAATAACATACTCAGATATTTACTTTCACA
1 CAACATATTTACTATCTCATGGCATGAATAACATACCCACACATTTACTGTCACA
12403983 ACAGTCATCA
Statistics
Matches: 109, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (72 bp):
CAACATATTTACTATCTCATGGCATGAATAACATACCCACACATTTACTGTCACATGACATGAAT
AACATAC
Found at i:12404451 original size:102 final size:102
Alignment explanation
Indices: 12404319--12404511 Score: 332
Period size: 102 Copynumber: 1.9 Consensus size: 102
12404309 AATAATCAAT
*
12404319 CAATAACTTATCTTAAACAATCACAAACAATAAAATAAGCTATGTTCTCTTTTTAATCAAAACCT
1 CAATAACTTATCTTAAACAATCACAAACAATAAAATAAGCTATATTCTCTTTTTAATCAAAACCT
*
12404384 TTAACATAGGAAACTTCAAATTCTAAACAGTCACAAA
66 TTAACATAAGAAACTTCAAATTCTAAACAGTCACAAA
* **
12404421 CAATAATTTATCTTAAACAATCACAAACAATAACTTAAGCTATATTCTCTTTTTAATCAAAACCT
1 CAATAACTTATCTTAAACAATCACAAACAATAAAATAAGCTATATTCTCTTTTTAATCAAAACCT
*
12404486 TTAACATAAGAAACTTTAAATTCTAA
66 TTAACATAAGAAACTTCAAATTCTAA
12404512 TATCTCGGTG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (102 bp):
CAATAACTTATCTTAAACAATCACAAACAATAAAATAAGCTATATTCTCTTTTTAATCAAAACCT
TTAACATAAGAAACTTCAAATTCTAAACAGTCACAAA
Found at i:12406786 original size:10 final size:10
Alignment explanation
Indices: 12406771--12406803 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
12406761 CAAATTAATG
12406771 ACATTTAGTC
1 ACATTTAGTC
*
12406781 ACATTTAATC
1 ACATTTAGTC
12406791 ACA-TTAGTC
1 ACATTTAGTC
12406800 ACAT
1 ACAT
12406804 GAATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (10 bp):
ACATTTAGTC
Found at i:12406799 original size:19 final size:20
Alignment explanation
Indices: 12406765--12406847 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 20
12406755 ACATCACAAA
*
12406765 TTAATGACATTTAGTCACAT
1 TTAATCACATTTAGTCACAT
12406785 TTAATCACA-TTAGTCACA-
1 TTAATCACATTTAGTCACAT
* *
12406803 TGAAT---ATTT--TAACAT
1 TTAATCACATTTAGTCACAT
* *
12406818 TTACTCACATTTAGTCTCAT
1 TTAATCACATTTAGTCACAT
12406838 TTAATCACAT
1 TTAATCACAT
12406848 GAATATTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 2 0.04
18 8 0.17
19 9 0.19
20 21 0.44
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (20 bp):
TTAATCACATTTAGTCACAT
Found at i:12406819 original size:43 final size:44
Alignment explanation
Indices: 12406771--12406855 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 44
12406761 CAAATTAATG
* *
12406771 ACATTTAGTCACATTTAATCACA-TTAGTCACATGAATATTTTA
1 ACATTTACTCACATTTAATCACATTTAATCACATGAATATTTTA
* *
12406814 ACATTTACTCACATTTAGTCTCATTTAATCACATGAATATTT
1 ACATTTACTCACATTTAATCACATTTAATCACATGAATATTT
12406856 AAGCATAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 20 0.54
44 17 0.46
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (44 bp):
ACATTTACTCACATTTAATCACATTTAATCACATGAATATTTTA
Found at i:12406879 original size:23 final size:23
Alignment explanation
Indices: 12406840--12406965 Score: 171
Period size: 23 Copynumber: 5.5 Consensus size: 23
12406830 AGTCTCATTT
* *
12406840 AATCACATGAATATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* * *
12406863 AACCATATTAACATTTAAACATA
1 AATCACATTAACATTTAAGCATA
*
12406886 AATCACATTAATATTTAAGCATA
1 AATCACATTAACATTTAAGCATA
* *
12406909 AATCACATTAATATTTAAGCACA
1 AATCACATTAACATTTAAGCATA
*
12406932 AATCACATTAACATTTAAGTATA
1 AATCACATTAACATTTAAGCATA
12406955 AATCACATTAA
1 AATCACATTAA
12406966 TATATAACAC
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (23 bp):
AATCACATTAACATTTAAGCATA
Found at i:12406914 original size:69 final size:69
Alignment explanation
Indices: 12406840--12406968 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
12406830 AGTCTCATTT
* *
12406840 AATCACATGAATATTTAAGCATAAACCATATTAACATTTAAACATAAATCACATTAATATTTAAG
1 AATCACATGAATATTTAAGCACAAACCACATTAACATTTAAACATAAATCACATTAATATTTAAG
12406905 CATA
66 CATA
* * **
12406909 AATCACATTAATATTTAAGCACAAATCACATTAACATTTAAGTATAAATCACATTAATAT
1 AATCACATGAATATTTAAGCACAAACCACATTAACATTTAAACATAAATCACATTAATAT
12406969 ATAACACATT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.33
Consensus pattern (69 bp):
AATCACATGAATATTTAAGCACAAACCACATTAACATTTAAACATAAATCACATTAATATTTAAG
CATA
Found at i:12408831 original size:42 final size:43
Alignment explanation
Indices: 12408721--12408922 Score: 230
Period size: 42 Copynumber: 4.7 Consensus size: 43
12408711 CTTGAGCACT
* * * * * *
12408721 TTATGTATAAAAAGGAAGACTCGTGACTCGGAATAAGCATGACA
1 TTATGT-TTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGA
* * *
12408765 ATATGTTTAAAAGGAAGACCCATGTCTTGGAATGAGAATGAGA
1 TTATGTTTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGA
*
12408808 TTATGTTT-AAAGGAAGACTCATGTCTCGGGATGAGAATGAGA
1 TTATGTTTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGA
* *
12408850 TTATGTTT-AAAGGAAGACTCATGTCTCGAAATGA-ATGTGAGA
1 TTATGTTTAAAAGGAAGACTCATGTCTCGGAATGAGA-ATGAGA
* *
12408892 TTATGTTTAAAAAGGAAGACTTATGCCTCGG
1 TTATGTTT-AAAAGGAAGACTCATGTCTCGG
12408923 TAGAGCATAA
Statistics
Matches: 136, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 76 0.56
43 36 0.26
44 23 0.17
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (43 bp):
TTATGTTTAAAAGGAAGACTCATGTCTCGGAATGAGAATGAGA
Found at i:12408836 original size:85 final size:85
Alignment explanation
Indices: 12408721--12408952 Score: 233
Period size: 85 Copynumber: 2.7 Consensus size: 85
12408711 CTTGAGCACT
* * *
12408721 TTATGTATAAAAAGGAAGACTCGTGACTCGGAATAAGCATGACAATATGTTTAAAAGGAAGACCC
1 TTATGT-TTAAAAGGAAGACTCATGACTCGG-ATAAGCATGAAAATATGTTTAAAAGGAAGACCC
* *
12408786 ATGTCTTGGAATGAGA-ATGAGA
64 ATGTCTCGAAATGA-ATATGAGA
* * * * * *
12408808 TTATGTTT-AAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATGTTT-AAAGGAAGACTCA
1 TTATGTTTAAAAGGAAGACTCATGACTC-GGATAAGCATGAAAATATGTTTAAAAGGAAGACCCA
*
12408871 TGTCTCGAAATGAATGTGAGA
65 TGTCTCGAAATGAATATGAGA
* *
12408892 TTATGTTTAAAAAGGAAGACTTATGCCTCGG-TAGAGCAT-AAAAT-TGTTTAAAAAGGAAGAC
1 TTATGTTT-AAAAGGAAGACTCATGACTCGGATA-AGCATGAAAATATGTTT-AAAAGGAAGAC
12408953 TTATGTACTT
Statistics
Matches: 121, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
83 6 0.05
84 40 0.33
85 49 0.40
86 20 0.17
87 6 0.05
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (85 bp):
TTATGTTTAAAAGGAAGACTCATGACTCGGATAAGCATGAAAATATGTTTAAAAGGAAGACCCAT
GTCTCGAAATGAATATGAGA
Found at i:12409637 original size:21 final size:21
Alignment explanation
Indices: 12409605--12409657 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
12409595 GAGTTTTTAA
* *
12409605 TATCGGTAGAAGTAAGACTTG
1 TATCGATAGAAGTAACACTTG
* *
12409626 TTTCGATAGAAGTTACACTTG
1 TATCGATAGAAGTAACACTTG
*
12409647 TATCGGTAGAA
1 TATCGATAGAA
12409658 CTATCATAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (21 bp):
TATCGATAGAAGTAACACTTG
Found at i:12411614 original size:12 final size:12
Alignment explanation
Indices: 12411597--12411649 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
12411587 TGGGTGTAAG
*
12411597 ATCTGTGTCTGC
1 ATCTGTATCTGC
12411609 ATCTGTATCTG-
1 ATCTGTATCTGC
12411620 ATTCTGTATCTGC
1 A-TCTGTATCTGC
* *
12411633 ATTTGTATCTGA
1 ATCTGTATCTGC
12411645 ATCTG
1 ATCTG
12411650 AATATGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 33 0.94
13 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (12 bp):
ATCTGTATCTGC
Found at i:12411625 original size:24 final size:24
Alignment explanation
Indices: 12411597--12411649 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
12411587 TGGGTGTAAG
*
12411597 ATCTGTGTCTGCATCTGTATCTGA
1 ATCTGTATCTGCATCTGTATCTGA
* *
12411621 TTCTGTATCTGCATTTGTATCTGA
1 ATCTGTATCTGCATCTGTATCTGA
12411645 ATCTG
1 ATCTG
12411650 AATATGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (24 bp):
ATCTGTATCTGCATCTGTATCTGA
Found at i:12411643 original size:18 final size:18
Alignment explanation
Indices: 12411622--12411664 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12411612 TGTATCTGAT
* *
12411622 TCTGTATCTGCATTTGTA
1 TCTGTATCTGAATATGTA
*
12411640 TCTGAATCTGAATATGTA
1 TCTGTATCTGAATATGTA
*
12411658 TTTGTAT
1 TCTGTAT
12411665 TTGATTATGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (18 bp):
TCTGTATCTGAATATGTA
Found at i:12411660 original size:24 final size:24
Alignment explanation
Indices: 12411606--12411664 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
12411596 GATCTGTGTC
* * * *
12411606 TGCATCTGTATCTGATTCTGTATC
1 TGCATTTGTATCTGAATCTGAATA
12411630 TGCATTTGTATCTGAATCTGAATA
1 TGCATTTGTATCTGAATCTGAATA
*
12411654 TGTATTTGTAT
1 TGCATTTGTAT
12411665 TTGATTATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TGCATTTGTATCTGAATCTGAATA
Found at i:12413371 original size:10 final size:9
Alignment explanation
Indices: 12413341--12413373 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
12413331 TAACTTCTTC
12413341 TTTTTTA-T
1 TTTTTTATT
*
12413349 TTCTTTATT
1 TTTTTTATT
12413358 TTTTTTATT
1 TTTTTTATT
12413367 TTTTTTA
1 TTTTTTA
12413374 AGAAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:12413726 original size:256 final size:256
Alignment explanation
Indices: 12413179--12418409 Score: 5868
Period size: 256 Copynumber: 20.5 Consensus size: 256
12413169 TTAAAGTATA
* * * * * * *
12413179 AAAATTGAATATGCAACTTAAAAATTAAAAATAAAATTTAACAATATAAATTATAGTTAGAGCTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12413244 CAAAAAGTTTTACTTTTTGAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * * * * * *
12413309 CTGTTTTAAGGAGTTGTTAGTTTAA---CTTCTTC-TTT-TTTATTTCTTTATTTTTTTTATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTA-TTT
** * * * * * *
12413369 TTTTAAGAAAA-TGATTGTAGGTAGAAAACACAATGATGTAAAATG-TGTTTACACGACCATG
195 TTAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGT-AAAGGAAGTTTACACAACCATG
* * * *
12413430 AAAATAT-AATATGCAACTTAAAAAATAATAATAAAATTTAACAGTTCAAATTATAGATAGAATT
1 AAAAT-TGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTT
* ** * * *
12413494 TGAAGAAGTTTTACTTTTTAAATTATTTTATTTAAAATATTATTAATTAGTGGAAGATAAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATA
* * * **
12413559 TCCACTTCGAGGAGTTATTGGTTTAATTTCTTTTTCTTTTCTTAATTTCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * * * *
12413624 TTAGAAAAAAAGTAATTTTGGGTAAAAGACACAATGATATAAAGGTAGTTTACACAACCATG
195 TTAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * *
12413686 AAAATTAAATATGCAACTTAAAAACTAATAATAGAATTTAACAATTTAAATTGTAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12413751 CAAGAAGTTTT--TTTTT-GAGTATTTTATTTAAAATATTTTTAATTAAT-GAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * * * * *
12413812 CCGTTTTAAGGAGTTATTAGTTTAACTTTTTTTTTCTTTACTTT-TTTACTTTATTATTTTTATT
131 CCGCTTTGAGGAGTTGTTGGTTTAA-TTTCTTTTTCTTTTCTTTCTTT-CTTTATTATTTTTATT
* * *
12413876 TTTAGAAAAAAAAAGTGATCGTGTGTATAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
194 TTTAG--AAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12413941 AAAATTGAATACGCAACTTAAAAACTAATAATAGAATTTAATAGTTTAAATTATATATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
*** * *
12414006 -AAGAAGTTTTACTTTTCAAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATACAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * * * * * * *
12414070 CCGTTTTGAAGAGTTATTGGTTTAACTTCTTTTTCTTTTCTTTCTTTTTTTTTTTTTTTTTTTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTC-TTTCTTTATTATTTTTATTT
* * * * *
12414135 TTA-TAAAAAA-TGATTGTGGATAAAAGACACAATGATATAAAAGAAGTTTACACAACCATG
195 TTAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* ** *
12414195 AAAATTAAATACACAACTTAAAAACTAATAATAGAATTTAACAATTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12414260 -AAGAAGTTTTACTTTTCGAAATATTTTATTTAAAATA-TCATTAATTAGTGGAAGATAAAGATA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAAATA
*** * * *
12414323 TCTATTTTGAGGAGTTGTTGGTTTAATATCTTTTTCTTTTCTTTCTTTATTTACTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * *
12414388 TTAGAAAAAAGAAGTGATTGTAGGTA-AGTGACACAATGATGTAAAGGAAGTTTTCACAACCATG
195 TTAG-AAAAA-AAGTGATTGTGGGTAGA-AGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * *
12414452 AAAATTGAACACGTAACTTAAAAATTAATGATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12414517 -AAGAAGTTTTACTTTTCGAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * * * * **
12414581 CCGCTTTAAGGAATTGTTGGTTTAATATATTTTTCTTTTCTTTCTTTATTTGCTATTTTTATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
* ** * * *
12414646 TAGAAAAGAACAGTGATTGTAGGTAGGTGACACAATGATATAAAGGAACTTTACACAATCATG
196 TAGAAAA-AA-AGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
*
12414709 AAAATTGAATACGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12414774 CAAAAAAATTTTACTTTTTGGAGTATTTTATTTAAAATA-TCGTTAATTAGTAGAAGATAAAAAT
66 C-AAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAAAT
* * * **
12414838 ATCCGCTTTGAAGAGTTGTTGATTTAACTTCTTTTTCTTTTCTTTCTTGATTTATTATTTTTATT
129 ATCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATT
* * * *
12414903 TTTAAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTGAAGGTAGTTTACACAACCATG
194 TTTAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12414966 AAAATTGAATATGCAACTTAAAAACTAATAATAAAATTTAATA-TTTCAAATTATAGATAAAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTT-AAATTATAGATAGAGTT
* ** * * *
12415030 TCAAGAGGTTTTACTTTTCAGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATGAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATA
* * ** *
12415095 TCCGCTTTAAGGGGTTGTTGGTTTAACATCTTTTTCTTTTATTTCTTTCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
** * * * * *
12415160 TTAGAAAAAAAAGTGATTGTATGTAGAAGACACAGTGATGTAAAGGTAGTTAAAACAACCATT
195 TTAG-AAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * *
12415223 AAAATTAAATACGCAACTTAAAGACTAATAATAGATTTTAACAGTTCAAATTATAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * * *
12415288 CAAGAAGTTTTACTTTTCGGAATATTATAATTAAAATATCCTTAATTAGTAGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
** * *
12415353 CCATTTTTAGGAGTTGTTGGTTTAACTTCTTTTTC---T-TTTCTTTCTTTATTATTTTTATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
** * * * * * *
12415414 TTTAAAAAAA-TGATTGTGGATAAAAGACAAAATGATGTAAAAGTAGTTTACACAACCATT
196 TAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * *
12415474 AAAATTGAATTTCCAACCTAAAAATTAATAATAGAATTTAACGGTTTAAATTATAGATAGAATTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12415539 CAAGAAATTTTACTGTTTGGAGTATTTTATTTAAAATGTTCTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * *
12415604 CCGCTTTTAGCAGTTGTTGGTTTAACTTCTTTTTCTCTTCTTTTCTTTCTTTCTTTATTATTTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAA--T-TTCTT-T-TTCTTTTCTTTCTTTCTTTATTATTTTT
* * *
12415669 ATTTTTACAAAAAAAAAAGTGATTGTGTGTAGAAGACACAATGATGTAAAGGAAGTTTACACAAT
191 ATTTTT---AGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAAC
12415734 CATG
253 CATG
* * *
12415738 AAAATTGAATATACAACTTAAAAACTAATAATAGAATTTAACGGTTTAAATTATATATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * * *
12415803 -AAAAAGTTTTACTTTTCGAAATATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAATATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
** * * * * *
12415867 TTGCTGTGA-G-GTTGTTGG-TT--TTTGTTTTCCTTTTCTATCTTT-TTTATTATTTTAATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
* * * *
12415926 TAAAAAAGAAAATGTGATTGTGGGTAGAAGAGACAATGACGTAAAGGAACTTTACACAACCATG
196 T-AGAAA-AAAA-GTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12415990 AAAATTAAATATGCAACTTAAAAACTAATAATA-AGTTTTAACAGCTTAAATTATAGATAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGA-ATTTAACAGTTTAAATTATAGATAGAGTT
* * * * * *
12416054 TTAAAAAATTTTATTTTTTGGAGTATTTTATTTAAAATATTTTTAATTAGTGGAAGATAAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATA
* * ** * * * * *
12416119 TCCGCTTGGAAGAGTTGTTGGTTTAATTGGTTTTCCTTTTATTT-ATTATTTATTATTATTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * * * * * * *
12416183 TTA-AAAAAATAGTGATTATAGATAGAAAACACAATGATGCAAAGAAAATTTTCACAACCATG
195 TTAGAAAAAA-AGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
** * *
12416245 AAAATAAAATATGCAACTTAAAAACTAATAATAGAATTT-A-AGTTTAAATTGTAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12416308 CAAGAAGTTTTTCTTTTTGGAGTATTTTATTTAAAATA-TCTTTAATTAGTGGAAGATAAAAAAA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGAT-AAAAAT
* * * *
12416372 ATCCGTTTTGAGGCGTTGTTGGTTTATTTTCTTTTTCTTTACTTTCTTTCTTTATTATTTTTATT
129 ATCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTA-T
* * * * *
12416437 TTTATATTTTTAAAAAAAGTGATTATGGGTAGAAGATACAATGATGTAAAGGATGTTTACAAAAC
193 TTT-TA----GAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAAC
12416502 CATG
253 CATG
* * *
12416506 AAAATTGAATATGCAACTTAAAAACTAATAATA-AGTTTTAACAATTTAAATTATAGGTAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGA-ATTTAACAGTTTAAATTATAGATAGAGTT
* *
12416570 TCAAGAAATTTTATTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATA
* * ** * * * *
12416635 TCCGCTTGGAGGAGTTGTTGGTTTAACTGGTTTTTCTTTT-ATTATTTATTTATTATTATTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * * * *
12416699 TTATTAAAAATAGTGATTGTGGATAGAAAACACAATGATGTAAAGGAAGTTTACATAACCATG
195 TTA-GAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * * *
12416762 AAAATTTAATATGCAATTTAGAAATTAATAATAGAATTTAACAGTTTAAATTGTAGACAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12416827 CAAGAAGTTTTTCTTTTTGGAGTATTTAATTTAAAATA-TCTTTAATTAGTGGAAGATAAAAATA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAAATA
* * * *
12416891 TCCGCTTTAAGGAGTTGTTGGTTTATTTTCTTTTTCTTTACTTTCTTCCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * * * *
12416956 TTATTTTTAAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGATGTTTACAAAATCAT
195 TTA----GAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCAT
12417021 G
256 G
* * *
12417022 AAAATTGAATATGCAACTTAGAAACTAACAATAAAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * ** *
12417087 CGAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTAAAAGATAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * *
12417152 CCGATTTGGGGAGTTGTTGGTTTAA---------C--TTC-TT-TTTC--T-TT-TTTTTATTCT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
* *
12417200 TAG-AAAAAAGTGATTGTGGGTAGAAGACATAATGATGTAAAGGAAGTTTACACCACCATG
196 TAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* *
12417260 AAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12417325 GATGAAGTTTTATTTTTTGGAATATTTTATTTAAAATA-TCTTTAATTAGTGGAA-ACTAAAAAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGA-TAAAAAT
* *
12417388 ATTCGTTTTGAGGAGTTGTTGGTTTAA----TTTTTCTTTTCTTTTCTTTCTTTATTATTTTTAT
129 ATCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTC-TTTCTTTCTTTATTATTTTTAT
* * * * * **
12417449 TTTTAGAAAAAATAATAATTCTGAGTAGAAGACACAATGATGTAAAAGAAGTTTACACAATTATG
193 TTTTAGAAAAAA-AGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * *
12417514 AAAATTAAATATGCAACTTAAAAACCAAAAATAGAATTTAACAATTTAAATTATAGATATAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12417579 CAAGAAGTTTTACTTTTCGGAGTATTTTATTTAAAATA-TCTTTAATTAG-GGAAGATAAATATA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAAATA
* * *
12417642 TCTGCTTTGAGGAGTTGTTGATTTAACTTCTTTTT-TTTTCTTTCTTTCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * * * *
12417706 CTAGAGAAAAAAGTGATTGTGAGTAGAAGGCATAATGATTTAAA-GATAGTTTACACAACCATG
195 TTAGA-AAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGA-AGTTTACACAACCATG
* * * * * *
12417769 AAAATTGAATATGTAACTTAAAAACTAATGATAGGATTTAACCGTTTAAATTATAGATAAAGCTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * * *
12417834 CAAGAAGTTTTACTTTTCGGAGTATTTTACTTAAAATATCCTTAATTAATGGAAGTTAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
* * * *
12417899 CCGCTTTGAGTAGTTGTTGGTTTAACTTCTTTTT-TTTTCGTTT-TTTATTTATTATTTTTATCT
131 CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTC-TTTCTTTCTTTATTATTTTTATTT
* * * * *
12417962 TTAGAAAAAAAATGATTGTAGGTAAAAAACACAATGATGTTAAGGTAA-TTTACACAACCATG
195 TTAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGG-AAGTTTACACAACCATG
* * *
12418024 AAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAATAGTTTATATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12418089 TAAGAAATTTTACTTTTTTGAGTATTTTATTTAAAATA-TCTTTATTTAGTGGAAGATAAAAATA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAAATA
** * * *
12418153 TTTG-TATTAAGGAGTTGTTGGTTTAACTTATTTTTCTTTTCTTTCTTTCTTTATTATTTTTATT
130 TCCGCT-TTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATT
* * * * * ** * * *
12418217 TTAAAAAAAAAAGTGATTGTGAGTAAAAGGCACAATGACATAAA-GATAGTTTACGCAATCATA
194 TTTAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGA-AGTTTACACAACCATG
* * ** *
12418280 AAAATTGAATATGCAACTTGAAAACTAATAATAAAATTTATTTA-TTTAAATTATAAATAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTA-ACAGTTTAAATTATAGATAGAGTT
* * ** * * *
12418344 TTAAGAAATTTTACTTTTTAAAGTATTTTATTTAAAATA-TCTTTAATTAGTAGAAAATAAAGAT
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAAAT
12418408 AT
129 AT
12418410 TCACTTTTAA
Statistics
Matches: 4262, Mismatches: 599, Indels: 233
0.84 0.12 0.05
Matches are distributed among these distances:
237 2 0.00
238 184 0.04
243 12 0.00
244 2 0.00
245 4 0.00
247 5 0.00
248 6 0.00
249 2 0.00
250 7 0.00
251 311 0.07
252 177 0.04
253 289 0.07
254 418 0.10
255 600 0.14
256 725 0.17
257 702 0.16
258 88 0.02
259 122 0.03
260 219 0.05
261 102 0.02
262 45 0.01
263 137 0.03
264 103 0.02
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (256 bp):
AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATAT
CCGCTTTGAGGAGTTGTTGGTTTAATTTCTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
TAGAAAAAAAGTGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
Found at i:12414116 original size:15 final size:13
Alignment explanation
Indices: 12414096--12414136 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
12414086 TTGGTTTAAC
12414096 TTCTTTTTCTTTTCT
1 TTCTTTTT-TTTT-T
12414111 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
12414124 TT-TTTTTTTTTT
1 TTCTTTTTTTTTT
12414136 T
1 T
12414137 ATAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.42
13 3 0.12
14 4 0.15
15 8 0.31
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:12414126 original size:9 final size:9
Alignment explanation
Indices: 12414099--12414136 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
12414089 GTTTAACTTC
12414099 TTTTTCTTT
1 TTTTTCTTT
*
12414108 TCTTTCTTT
1 TTTTTCTTT
12414117 TTTTT-TTT
1 TTTTTCTTT
12414125 TTTTT-TTT
1 TTTTTCTTT
12414133 TTTT
1 TTTT
12414137 ATAAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 15 0.56
9 12 0.44
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:12414521 original size:257 final size:256
Alignment explanation
Indices: 12413179--12418409 Score: 5946
Period size: 257 Copynumber: 20.5 Consensus size: 256
12413169 TTAAAGTATA
* * * * * * *
12413179 AAAATTGAATATGCAACTTAAAAATTAAAAATAAAATTTAACAATATAAATTATAGTTAGAGCTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12413244 CAAAAAGTTTTACTTTTTGAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * * * * *
12413309 CTGTTTTAAGGAGTTGTTAGTTTAACTTCTTCTT-TTTTATTTCTTTATTT-TT-TTTATT-TTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTT-TTATTT
* * * * *
12413370 TT-T-AAGAAAA-TGATTGTAGGTAGAAAACACAATGATGTAAAATG-TGTTTACACGACCATG
195 TTATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGT-AAAGGAAGTTTACACAACCATG
* * * *
12413430 AAAATAT-AATATGCAACTTAAAAAATAATAATAAAATTTAACAGTTCAAATTATAGATAGAATT
1 AAAAT-TGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTT
* ** * ** *
12413494 TGAAGAAGTTTTACTTTTTAAATTATTTTATTTAAAATATTATTAATTAGTGGAAGATAAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATA
* * * * ** *
12413559 TCCACTTCGAGGAGTTATTGGTTTAATTTCTTTTTCTTTTCTTAATTTCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * * * * *
12413624 TTA-GAAAAAAAGTAATTTTGGGTAAAAGACACAATGATATAAAGGTAGTTTACACAACCATG
195 TTATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * *
12413686 AAAATTAAATATGCAACTTAAAAACTAATAATAGAATTTAACAATTTAAATTGTAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
** *
12413751 CAAGAAGTTTT--TTTTT-GAGTATTTTATTTAAAATATTTTTAATTAAT-GAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * * * * *
12413812 CCGTTTTAAGGAGTTATTAGTTTAACTTTTTTTTTCTTTACTTT-TTTACTTTATTATTTTTATT
131 CCGCTTTGAGGAGTTGTTGGTTTAAC-TTCTTTTTCTTTTCTTTCTTTA-TTTATTATTTTTATT
* * *
12413876 TTTAGAAAAAAAAAGTGATCGTGTGTATAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
194 TTTA-TAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12413941 AAAATTGAATACGCAACTTAAAAACTAATAATAGAATTTAATAGTTTAAATTATATATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
*** *
12414006 -AAGAAGTTTTACTTTTCAAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATACAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * * * * *
12414070 CCGTTTTGAAGAGTTATTGGTTTAACTTCTTTTTCTTTTCTTTCTTT-TTTTTTTTTTTTTTTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * * *
12414134 TTTATAAAAAA-TGATTGTGGATAAAAGACACAATGATATAAAAGAAGTTTACACAACCATG
196 TATAAAAAAAAGTGATTGTGG-TAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* ** *
12414195 AAAATTAAATACACAACTTAAAAACTAATAATAGAATTTAACAATTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12414260 -AAGAAGTTTTACTTTTCGAAATATTTTATTTAAAATATCATTAATTAGTGGAAGATAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
*** *
12414324 CTATTTTGAGGAGTTGTTGGTTTAA-TATCTTTTTCTTTTCTTTCTTTATTTACTATTTTTATTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACT-TCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * *
12414388 TTAGAAAAAAGAAGTGATTGTAGGTA-AGTGACACAATGATGTAAAGGAAGTTTTCACAACCATG
195 TTATAAAAAA-AAGTGATTGT-GGTAGA-AGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * *
12414452 AAAATTGAACACGTAACTTAAAAATTAATGATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12414517 -AAGAAGTTTTACTTTTCGAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * * **
12414581 CCGCTTTAAGGAATTGTTGGTTTAA-TATATTTTTCTTTTCTTTCTTTATTTGCTATTTTTATTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACT-TCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * ** * * *
12414645 TTAGAAAAGAACAGTGATTGTAGGTAGGTGACACAATGATATAAAGGAACTTTACACAATCATG
195 TTATAAAA-AAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
*
12414709 AAAATTGAATACGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12414774 CAAAAAAATTTTACTTTTTGGAGTATTTTATTTAAAATATCGTTAATTAGTAGAAGATAAAAATA
66 C-AAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATA
* * *
12414839 TCCGCTTTGAAGAGTTGTTGATTTAACTTCTTTTTCTTTTCTTTCTTGATTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * *
12414904 TTA-AAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTGAAGGTAGTTTACACAACCATG
195 TTATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12414966 AAAATTGAATATGCAACTTAAAAACTAATAATAAAATTTAATA-TTTCAAATTATAGATAAAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTT-AAATTATAGATAGAGTT
* ** * *
12415030 TCAAGAGGTTTTACTTTTCAGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATGAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATA
* * * * *
12415095 TCCGCTTTAAGGGGTTGTTGGTTTAACATCTTTTTCTTTTATTTCTTTCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * * * * * *
12415160 TTAGAAAAAAAAGTGATTGTATGTAGAAGACACAGTGATGTAAAGGTAGTTAAAACAACCATT
195 TTATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * *
12415223 AAAATTAAATACGCAACTTAAAGACTAATAATAGATTTTAACAGTTCAAATTATAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12415288 CAAGAAGTTTTACTTTTCGGAATATTATAATTAAAATATCCTTAATTAGTAGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
** *
12415353 CCATTTTTAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTC----TTTATTATTTTTATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * * * *
12415414 T-TTAAAAAAA-TGATTGTGGATAAAAGACAAAATGATGTAAAAGTAGTTTACACAACCATT
196 TATAAAAAAAAGTGATTGTGG-TAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * *
12415474 AAAATTGAATTTCCAACCTAAAAATTAATAATAGAATTTAACGGTTTAAATTATAGATAGAATTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12415539 CAAGAAATTTTACTGTTTGGAGTATTTTATTTAAAATGTTCTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * *
12415604 CCGCTTTTAGCAGTTGTTGGTTTAACTTCTTTTTCTCTTCTTTTCTTTCTTTCTTTATTATTTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTC---TT-T-TTCTTTTCTTTCTTTATTTATTATTTTT
* *
12415669 ATTTTTACAAAAAAAAAAGTGATTGTGTGTAGAAGACACAATGATGTAAAGGAAGTTTACACAAT
191 ATTTTT--ATAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGAAGTTTACACAAC
12415734 CATG
253 CATG
* * *
12415738 AAAATTGAATATACAACTTAAAAACTAATAATAGAATTTAACGGTTTAAATTATATATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12415803 -AAAAAGTTTTACTTTTCGAAATATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAATATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
** * * * * *
12415867 TTGCTGTGA-G-GTTGTTGGTTT---TTGTTTTCCTTTTCTATCTTT-TTTATTATTTTAATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * *
12415926 TAAAAAAGAAAATGTGATTGTGGGTAGAAGAGACAATGACGTAAAGGAACTTTACACAACCATG
196 TATAAAA-AAAA-GTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12415990 AAAATTAAATATGCAACTTAAAAACTAATAATA-AGTTTTAACAGCTTAAATTATAGATAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGA-ATTTAACAGTTTAAATTATAGATAGAGTT
* * * * ** *
12416054 TTAAAAAATTTTATTTTTTGGAGTATTTTATTTAAAATATTTTTAATTAGTGGAAGATAAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATA
* * * * * * *
12416119 TCCGCTTGGAAGAGTTGTTGGTTTAA-TTGGTTTTCCTTTTATTT-ATTATTTATTATTATTATT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTT-CTTTTTCTTTTCTTTCTTTATTTATTATTTTTATT
* * * * * * * *
12416182 TTTA-AAAAAATAGTGATTATAGATAGAAAACACAATGATGCAAAGAAAATTTTCACAACCATG
194 TTTATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
** * *
12416245 AAAATAAAATATGCAACTTAAAAACTAATAATAGAATTT-A-AGTTTAAATTGTAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12416308 CAAGAAGTTTTTCTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAAAAA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGAT-AAAAATA
* * ** * *
12416373 TCCGTTTTGAGGCGTTGTTGGTTTATTTTCTTTTTCTTTACTTTCTTTCTTTATTATTTTTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * * *
12416438 TTATATTTTTAAAAAAAGTGATTATGGGTAGAAGATACAATGATGTAAAGGATGTTTACAAAACC
195 TTATA-----AAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACC
12416503 ATG
254 ATG
* * *
12416506 AAAATTGAATATGCAACTTAAAAACTAATAATA-AGTTTTAACAATTTAAATTATAGGTAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGA-ATTTAACAGTTTAAATTATAGATAGAGTT
* * *
12416570 TCAAGAAATTTTATTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAAATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATA
* ** * * *
12416635 TCCGCTTGGAGGAGTTGTTGGTTTAACTGGTTTTTCTTTT-ATTATTTATTTATTATTATTATTT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * * *
12416699 TTATTAAAAATAGTGATTGTGGATAGAAAACACAATGATGTAAAGGAAGTTTACATAACCATG
195 TTATAAAAAAAAGTGATTGTGG-TAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * * *
12416762 AAAATTTAATATGCAATTTAGAAATTAATAATAGAATTTAACAGTTTAAATTGTAGACAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12416827 CAAGAAGTTTTTCTTTTTGGAGTATTTAATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* ** * **
12416892 CCGCTTTAAGGAGTTGTTGGTTTATTTTCTTTTTCTTTACTTTCTTCCTTTATTATTTTTATTTT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * *
12416957 TATTTTTAAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGATGTTTACAAAATCATG
196 TA---TAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12417022 AAAATTGAATATGCAACTTAGAAACTAACAATAAAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * ** *
12417087 CGAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTAAAAGATAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * *
12417152 CCGATTTGGGGAGTTGTTGGTTTAA---C---TTC--TT-TTTC------T-TT-TTTTTA-TTC
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * *
12417199 T-TAGAAAAAAGTGATTGTGGGTAGAAGACATAATGATGTAAAGGAAGTTTACACCACCATG
196 TATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* *
12417260 AAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12417325 GATGAAGTTTTATTTTTTGGAATATTTTATTTAAAATATCTTTAATTAGTGGAA-ACTAAAAATA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGA-TAAAAATA
* * *
12417389 TTCGTTTTGAGGAGTTGTTGGTTTAA----TTTTTCTTTTCTTTTCTTTCTTTATTATTTTTATT
130 TCCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTC-TTTCTTTATTTATTATTTTTATT
* * * * **
12417450 TTTAGAAAAAATAA-TAATTCTGAGTAGAAGACACAATGATGTAAAAGAAGTTTACACAATTATG
194 TTTATAAAAAA-AAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * *
12417514 AAAATTAAATATGCAACTTAAAAACCAAAAATAGAATTTAACAATTTAAATTATAGATATAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12417579 CAAGAAGTTTTACTTTTCGGAGTATTTTATTTAAAATATCTTTAATTAG-GGAAGATAAATATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* * * *
12417643 CTGCTTTGAGGAGTTGTTGATTTAACTTCTTTTT-TTTTCTTTCTTTCTTTATTATTTTTATTTC
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * * *
12417707 TAGAGAAAAAAGTGATTGTGAGTAGAAGGCATAATGATTTAAA-GATAGTTTACACAACCATG
196 TATAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGA-AGTTTACACAACCATG
* * * * * *
12417769 AAAATTGAATATGTAACTTAAAAACTAATGATAGGATTTAACCGTTTAAATTATAGATAAAGCTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12417834 CAAGAAGTTTTACTTTTCGGAGTATTTTACTTAAAATATCCTTAATTAATGGAAGTTAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
* *
12417899 CCGCTTTGAGTAGTTGTTGGTTTAACTTCTTTTT-TTTTCGTTT-TTTATTTATTATTTTTATCT
131 CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTC-TTTCTTTATTTATTATTTTTATTT
* * * *
12417962 TTAGAAAAAAAA-TGATTGTAGGTAAAAAACACAATGATGTTAAGGTAA-TTTACACAACCATG
195 TTATAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGG-AAGTTTACACAACCATG
* * *
12418024 AAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAATAGTTTATATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12418089 TAAGAAATTTTACTTTTTTGAGTATTTTATTTAAAATATCTTTATTTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
** * * *
12418154 TTG-TATTAAGGAGTTGTTGGTTTAACTTATTTTTCTTTTCTTTCTTTCTTTATTATTTTTA-TT
131 CCGCT-TTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * * ** * * *
12418217 TTAAAAAAAAAAGTGATTGTGAGTAAAAGGCACAATGACATAAA-GATAGTTTACGCAATCATA
195 TTATAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGA-AGTTTACACAACCATG
* * ** *
12418280 AAAATTGAATATGCAACTTGAAAACTAATAATAAAATTTATTTA-TTTAAATTATAAATAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTA-ACAGTTTAAATTATAGATAGAGTT
* * ** * * * *
12418344 TTAAGAAATTTTACTTTTTAAAGTATTTTATTTAAAATATCTTTAATTAGTAGAAAATAAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATA
12418409 T
130 T
12418410 TCACTTTTAA
Statistics
Matches: 4274, Mismatches: 584, Indels: 239
0.84 0.11 0.05
Matches are distributed among these distances:
237 1 0.00
238 186 0.04
239 1 0.00
240 3 0.00
242 5 0.00
243 6 0.00
244 6 0.00
245 1 0.00
250 8 0.00
251 325 0.08
252 182 0.04
253 267 0.06
254 428 0.10
255 629 0.15
256 707 0.17
257 720 0.17
258 81 0.02
259 114 0.03
260 208 0.05
261 117 0.03
262 39 0.01
263 138 0.03
264 101 0.02
265 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (256 bp):
AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
CCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
TATAAAAAAAAGTGATTGTGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
Found at i:12416077 original size:516 final size:511
Alignment explanation
Indices: 12413179--12418426 Score: 5842
Period size: 516 Copynumber: 10.3 Consensus size: 511
12413169 TTAAAGTATA
* * * * * * *
12413179 AAAATTGAATATGCAACTTAAAAATTAAAAATAAAATTTAACAATATAAATTATAGTTAGAGCTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * *
12413244 CAAAAAGTTTTACTTTTTGAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
* * * * * * * *
12413309 CTGTTTTAAGGAGTTGTTAGTTTA-ACTTCTTC-TTT-TTTATTTCTTTATTTTTTTTATTTTT-
131 CCGTTTTGAGGAGTTGTTGGTTTATTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTTTA
** * * * * * *
12413370 TTTAAGAAAATGATTGTAGGTAGAAAACACAATGATGTAAAATG-TGTTTACACGACCATGAAAA
196 TAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGT-AAAGGAAGTTTACACAACCATGAAAA
* * * * *
12413434 TAT-AATATGCAACTTAAAAAATAATAATAAAATTTAACAGTTCAAATTATAGATAGAATTTGAA
260 T-TGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTTCAA
* ** * * *
12413498 GAAGTTTTACTTTTTAAATTATTTTATTTAAAATATTATTAATTAGTGGAAGATAAAGATATCCA
324 GAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATATCCG
** * **
12413563 CTTCGAGGAGTTATTGGTTTAAT-TTCTTTTTCTTTTCTTAATTTCTTTATTATTTTTATTTTT-
389 CTTTAAGGAGTTGTTGGTTTAATCTT-TTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTTTA
* * * * * *
12413626 AGAAAAAAAGTAATTTTGGGTAAAAGACACAATGATATAAAGGTAGTTTACACAACCATG
453 AAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * *
12413686 AAAATTAAATATGCAACTTAAAAACTAATAATAGAATTTAACAATTTAAATTGTAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12413751 CAAGAAGTTTT--TTTTT-GAGTATTTTATTTAAAATATTTTTAATTAAT-GAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
* * * * *
12413812 CCGTTTTAAGGAGTTATTAGTTTAACTTTTTTTTTCTTTACTTT-TTTACTTTATTATTTTTATT
131 CCGTTTTGAGGAGTTGTTGGTTT-A--TTCTTTTTCTTTTCTTTCTTTA-TTTATTATTTTTATT
* * * *
12413876 TTTAGAAAAAAAAAGTGATCGTGTGTATAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
192 TTTATAAAAAAAAA-TGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12413941 AAAATTGAATACGCAACTTAAAAACTAATAATAGAATTTAATAGTTTAAATTATATATAGAGTTT
256 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *** *
12414006 -AAGAAGTTTTACTTTTCAAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATACAA-ATA
321 CAAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATA-AAGATA
* * * * *
12414069 TCCGTTTTGAA-GAGTTATTGGTTTAA-CTTCTTTTTCTTTTCTTTCTTT-TTTTTTTTTTTTTT
385 TCCGCTTT-AAGGAGTTGTTGGTTTAATCTT-TTTTTCTTTTCTTTCTTTCTTTATTATTTTTAT
** * * * *
12414131 TTTTTTATAAAAAA-TGATTGTGGATAAAAGACACAATGATATAAAAGAAGTTTACACAACCATG
448 TTTTAAAAAAAAAAGTGATTGTGG-TAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* ** *
12414195 AAAATTAAATACACAACTTAAAAACTAATAATAGAATTTAACAATTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * *
12414260 -AAGAAGTTTTACTTTTCGAAATATTTTATTTAAAATATCATTAATTAGTGGAAGATAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
** *
12414324 CTATTTTGAGGAGTTGTTGGTTTAATATCTTTTTCTTTTCTTTCTTTATTTACTATTTTTATTTT
131 CCGTTTTGAGGAGTTGTTGGTTT-AT-TCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * * *
12414389 TAGAAAAAAGAAGTGATTGTAGGTA-AGTGACACAATGATGTAAAGGAAGTTTTCACAACCATGA
194 TATAAAAAA-AAATGATTGTGGGTAGA-AGACACAATGATGTAAAGGAAGTTTACACAACCATGA
* * * * *
12414453 AAATTGAACACGTAACTTAAAAATTAATGATAGAATTTAACAGTTTAAATTATAGATAGAGTTT-
257 AAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTTC
* * * *
12414517 AAGAAGTTTTACTTTTCGAAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAAGATATC
322 AAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATATC
* * * * **
12414582 CGCTTTAAGGAATTGTTGGTTTAATATATTTTTCTTTTCTTTCTTTATTTGCTATTTTTATTTTT
387 CGCTTTAAGGAGTTGTTGGTTTAATCTTTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTTT
* * ** * * *
12414647 AGAAAAGAACAGTGATTGTAGGTAGGTGACACAATGATATAAAGGAACTTTACACAATCATG
452 A-AAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
*
12414709 AAAATTGAATACGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12414774 CAAAAAAATTTTACTTTTTGGAGTATTTTATTTAAAATATCGTTAATTAGTAGAAGATAAAAATA
66 C-AAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATA
* * * *
12414839 TCCGCTTTGAAGAGTTGTTGATTTAACTTCTTTTTCTTTTCTTTCTTGATTTATTATTTTTATTT
130 TCCGTTTTGAGGAGTTGTTGGTTT-A-TTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* *
12414904 TTA-AAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTGAAGGTAGTTTACACAACCATGAA
193 TTATAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATGAA
* * *
12414968 AATTGAATATGCAACTTAAAAACTAATAATAAAATTTAATA-TTTCAAATTATAGATAAAGTTTC
258 AATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTT-AAATTATAGATAGAGTTTC
** ** * *
12415032 AAGAGGTTTTACTTTTCAGAGTATTTTATTTAAAATATCCTTAATTAGTGGAAGATGAAGATATC
322 AAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATATC
* * *
12415097 CGCTTTAAGGGGTTGTTGGTTTAA-CATCTTTTTCTTTTATTTCTTTCTTTATTATTTTTATTTT
387 CGCTTTAAGGAGTTGTTGGTTTAATC-TTTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
* * * * * * *
12415161 TAGAAAAAAAAGTGATTGTATGTAGAAGACACAGTGATGTAAAGGTAGTTAAAACAACCATT
451 TAAAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * * * * *
12415223 AAAATTAAATACGCAACTTAAAGACTAATAATAGATTTTAACAGTTCAAATTATAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * * *
12415288 CAAGAAGTTTTACTTTTCGGAATATTATAATTAAAATATCCTTAATTAGTAGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
* *
12415353 CCATTTTTAGGAGTTGTTGGTTTAACTTCTTTTTCTTTTCTTTC----TTTATTATTTTTATTTT
131 CCGTTTTGAGGAGTTGTTGGTTT-A-TTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * * * * *
12415414 T-T-TAAAAAAATGATTGTGGATAAAAGACAAAATGATGTAAAAGTAGTTTACACAACCATTAAA
194 TATAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATGAAA
* * * * * *
12415477 ATTGAATTTCCAACCTAAAAATTAATAATAGAATTTAACGGTTTAAATTATAGATAGAATTTCAA
259 ATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTTCAA
* * *
12415542 GAAATTTTACTGTTTGGAGTATTTTATTTAAAATGTTCTTAATTAGTGGAAGATAAAAATATCCG
324 GAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATATCCG
* *
12415607 CTTTTAGCAGTTGTTGGTTTAACTTCTTTTTCTCTTCTTTTCTTTCTTTCTTTATTATTTTTATT
389 CTTTAAGGAGTTGTTGGTTTAA--TC-TTTT-T-TTCTTTTCTTTCTTTCTTTATTATTTTTATT
*
12415672 TTTACAAAAAAAAAAGTGATTGTGTGTAGAAGACACAATGATGTAAAGGAAGTTTACACAATCAT
449 TTT--AAAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCAT
12415737 G
511 G
* * *
12415738 AAAATTGAATATACAACTTAAAAACTAATAATAGAATTTAACGGTTTAAATTATATATAGAGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * * *
12415803 -AAAAAGTTTTACTTTTCGAAATATTTTATTTAAAATATCCTTAATTAGTGGAAGATAAATATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
** * * * * * *
12415867 TTGCTGTGA-G-GTTGTTGGTTT-TTGTTTTCCTTTTCTATCTTT-TTTATTATTTTAATTTTTA
131 CCGTTTTGAGGAGTTGTTGGTTTATTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTTTA
* * *
12415928 -AAAAAGAAAATGTGATTGTGGGTAGAAGAGACAATGACGTAAAGGAACTTTACACAACCATGAA
196 TAAAAA-AAAA--TGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATGAA
* * * *
12415992 AATTAAATATGCAACTTAAAAACTAATAATA-AGTTTTAACAGCTTAAATTATAGATAGAGTTTT
258 AATTGAATATGCAACTTAAAAACTAATAATAGA-ATTTAACAGTTTAAATTATAGATAGAGTTTC
* * *
12416056 AAAAAATTTTATTTTTTGGAGTATTTTATTTAAAATATTTTTAATTAGTGGAAGATAAAGATATC
322 AAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATATC
* * * * * * *
12416121 CGCTTGGAA-GAGTTGTTGGTTTAAT-TGGTTTTCCTTTTATTT-ATTATTTATTATTATTATTT
387 CGCTT-TAAGGAGTTGTTGGTTTAATCT-TTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTT
* * * * * * * *
12416183 TT-AAAAAAATAGTGATTATAGATAGAAAACACAATGATGCAAAGAAAATTTTCACAACCATG
450 TTAAAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
** * *
12416245 AAAATAAAATATGCAACTTAAAAACTAATAATAGAATTT-A-AGTTTAAATTGTAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12416308 CAAGAAGTTTTTCTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAAAAA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGAT-AAAAATA
* * *
12416373 TCCGTTTTGAGGCGTTGTTGGTTTATTTTCTTTTTCTTTACTTTCTTTCTTTATTATTTTTATTT
130 TCCGTTTTGAGGAGTTGTTGGTTTA--TTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTT
* * * * *
12416438 TTATATTTTTAAAAAAAGTGATTATGGGTAGAAGATACAATGATGTAAAGGATGTTTACAAAACC
193 TTATA-----AAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACC
* * *
12416503 ATGAAAATTGAATATGCAACTTAAAAACTAATAATA-AGTTTTAACAATTTAAATTATAGGTAGA
253 ATGAAAATTGAATATGCAACTTAAAAACTAATAATAGA-ATTTAACAGTTTAAATTATAGATAGA
* *
12416567 GTTTCAAGAAATTTTATTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAA
317 GTTTCAAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAG
** * * * * *
12416632 ATATCCGCTTGGAGGAGTTGTTGGTTTAA-CTGGTTTTTCTTTT-ATTATTTATTTATTATTATT
382 ATATCCGCTTTAAGGAGTTGTTGGTTTAATCT-TTTTTTCTTTTCTTTCTTTCTTTATTATTTTT
** * * *
12416695 ATTTTTATTAAAAATAGTGATTGTGGATAGAAAACACAATGATGTAAAGGAAGTTTACATAACCA
446 ATTTTTAAAAAAAAAAGTGATTGTGG-TAGAAGACACAATGATGTAAAGGAAGTTTACACAACCA
12416760 TG
510 TG
* * * * * * *
12416762 AAAATTTAATATGCAATTTAGAAATTAATAATAGAATTTAACAGTTTAAATTGTAGACAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* *
12416827 CAAGAAGTTTTTCTTTTTGGAGTATTTAATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
* * * **
12416892 CCGCTTTAAGGAGTTGTTGGTTTATTTTCTTTTTCTTTACTTTCTTCCTTTATTATTTTTATTTT
131 CCGTTTTGAGGAGTTGTTGGTTTA--TTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTT
* * * * * *
12416957 TATTTTTAAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGATGTTTACAAAATCATG
194 TA---TAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* * *
12417022 AAAATTGAATATGCAACTTAGAAACTAACAATAAAATTTAACAGTTTAAATTATAGATAGAGTTT
256 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * **
12417087 CGAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTAAAAGATAAAGATAT
321 CAAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATAT
* ** *
12417152 CCGATTTGGGGAGTTGTTGGTTTAA---------C--TTC-TT-TTTC--T-TT-TTTTTATTCT
386 CCGCTTTAAGGAGTTGTTGGTTTAATCTTTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTT
* * *
12417200 T--AGAAAAAAGTGATTGTGGGTAGAAGACATAATGATGTAAAGGAAGTTTACACCACCATG
451 TAAAAAAAAAAGTGATTGT-GGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
* *
12417260 AAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGTGTTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * *
12417325 GATGAAGTTTTATTTTTTGGAATATTTTATTTAAAATATCTTTAATTAGTGGAA-ACTAAAAATA
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGA-TAAAAATA
* * *
12417389 TTCGTTTTGAGGAGTTGTTGGTTTA--ATTTTTCTTTTCTTTTCTTTCTTTATTATTTTTATTTT
130 TCCGTTTTGAGGAGTTGTTGGTTTATTCTTTTTCTTTTC-TTTCTTTATTTATTATTTTTATTTT
* * * * * * **
12417452 TAGAAAAAATAATAATTCTGAGTAGAAGACACAATGATGTAAAAGAAGTTTACACAATTATGAAA
194 TATAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATGAAA
* * * * *
12417517 ATTAAATATGCAACTTAAAAACCAAAAATAGAATTTAACAATTTAAATTATAGATATAGTTTCAA
259 ATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTTCAA
* * * *
12417582 GAAGTTTTACTTTTCGGAGTATTTTATTTAAAATA-TCTTTAATTAG-GGAAGATAAATATATCT
324 GAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAGATATCC
* * *
12417645 GCTTTGAGGAGTTGTTGATTTAA-CTTCTTTTT-TTTTCTTTCTTTCTTTATTATTTTTATTTCT
388 GCTTTAAGGAGTTGTTGGTTTAATCTT-TTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTTT
* * * * *
12417708 AGAGAAAAAAGTGATTGTGAGTAGAAGGCATAATGATTTAAA-GATAGTTTACACAACCATG
452 AAAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGA-AGTTTACACAACCATG
* * * * * *
12417769 AAAATTGAATATGTAACTTAAAAACTAATGATAGGATTTAACCGTTTAAATTATAGATAAAGCTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
* * * * * *
12417834 CAAGAAGTTTTACTTTTCGGAGTATTTTACTTAAAATATCCTTAATTAATGGAAGTTAAAGATAT
66 CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
* * *
12417899 CCGCTTTGAGTAGTTGTTGGTTTAACTTCTTTTT-TTTTCGTTT-TTTATTTATTATTTTTATCT
131 CCGTTTTGAGGAGTTGTTGGTTT-A-TTCTTTTTCTTTTC-TTTCTTTATTTATTATTTTTATTT
* * * * *
12417962 TTA-GAAAAAAAATGATTGTAGGTAAAAAACACAATGATGTTAAGGTAA-TTTACACAACCATGA
193 TTATAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGG-AAGTTTACACAACCATGA
* * * *
12418025 AAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAATAGTTTATATTATAGATAGAGTTTT
257 AAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTTC
* * *
12418090 AAGAAATTTTACTTTTTTGAGTATTTTATTTAAAATA-TCTTTATTTAGTGGAAGATAAAAATAT
322 AAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATTC-TTAATTAGTGGAAGATAAAGATAT
**
12418154 TTG-TATTAAGGAGTTGTTGGTTTAA-CTTATTTTTCTTTTCTTTCTTTCTTTATTATTTTTA-T
386 CCGCT-TTAAGGAGTTGTTGGTTTAATCTT-TTTTTCTTTTCTTTCTTTCTTTATTATTTTTATT
* * ** * * *
12418216 TTTAAAAAAAAAAGTGATTGTGAGTAAAAGGCACAATGACATAAA-GATAGTTTACGCAATCATA
449 TTTAAAAAAAAAAGTGATTGTG-GTAGAAGACACAATGATGTAAAGGA-AGTTTACACAACCATG
* * ** *
12418280 AAAATTGAATATGCAACTTGAAAACTAATAATAAAATTTATTTA-TTTAAATTATAAATAGAGTT
1 AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTA-ACAGTTTAAATTATAGATAGAGTT
* * ** * * *
12418344 TTAAGAAATTTTACTTTTTAAAGTATTTTATTTAAAATATCTTTAATTAGTAGAAAATAAAGATA
65 TCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATA
*
12418409 TTCAC-TTTTAAGGAGTTG
130 -TC-CGTTTTGAGGAGTTG
12418427 ATAAATAATA
Statistics
Matches: 4089, Mismatches: 529, Indels: 241
0.84 0.11 0.05
Matches are distributed among these distances:
491 34 0.01
492 151 0.04
494 10 0.00
495 26 0.01
497 1 0.00
498 185 0.05
499 2 0.00
500 9 0.00
501 5 0.00
502 3 0.00
503 39 0.01
504 31 0.01
505 29 0.01
506 53 0.01
507 177 0.04
508 203 0.05
509 370 0.09
510 288 0.07
511 599 0.15
512 148 0.04
513 167 0.04
514 375 0.09
515 240 0.06
516 701 0.17
517 86 0.02
518 74 0.02
519 82 0.02
521 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (511 bp):
AAAATTGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTT
CAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAGATAAAAATAT
CCGTTTTGAGGAGTTGTTGGTTTATTCTTTTTCTTTTCTTTCTTTATTTATTATTTTTATTTTTA
TAAAAAAAAATGATTGTGGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATGAAAAT
TGAATATGCAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATAGATAGAGTTTCAAGA
AATTTTACTTTTTGGAGTATTTTATTTAAAATATTCTTAATTAGTGGAAGATAAAGATATCCGCT
TTAAGGAGTTGTTGGTTTAATCTTTTTTTCTTTTCTTTCTTTCTTTATTATTTTTATTTTTAAAA
AAAAAAGTGATTGTGGTAGAAGACACAATGATGTAAAGGAAGTTTACACAACCATG
Found at i:12416692 original size:14 final size:12
Alignment explanation
Indices: 12416671--12416704 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
12416661 CTGGTTTTTC
12416671 TTTTATTATTTAT
1 TTTTATTA-TTAT
12416684 TTATTATTATTAT
1 TT-TTATTATTAT
12416697 TTTTATTA
1 TTTTATTA
12416705 AAAATAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 8 0.40
14 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:12417405 original size:238 final size:240
Alignment explanation
Indices: 12416948--12418426 Score: 1382
Period size: 255 Copynumber: 5.9 Consensus size: 240
12416938 CCTTTATTAT
* *
12416948 TTTTATTTTTATTTTTA-AAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGATGTTTA
1 TTTTATTTTTATTCTTAGAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGAAGTTTA
* * * * * *
12417012 CAAAATCATGAAAATTGAATATGCAACTTAGAAACTAACAATAAAATTTAACAGTTTAAATTATA
66 CACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATA
* * * **
12417077 GATAGAGTTTCGAGAAATTTTACTTTTTGGAGTATTTTATTTAAAATATCCTTAATTAGTAAAAG
131 GATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAA-
* * * *
12417142 ATAAAGATATCCGATTTGGGGAGTTGTTGGTTTAACTTC-TTTTTC
195 ATAAAAATATTCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTTC
* *
12417187 -TTT-TTTTTATTCTTAGAAAAAAGTGATTGTGGGTAGAAGACATAATGATGTAAAGGAAGTTTA
1 TTTTATTTTTATTCTTAGAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGAAGTTTA
*
12417250 CACCACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATA
66 CACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATA
* * * * *
12417315 GATAGTGTTTGATGAAGTTTTATTTTTTGGAATATTTTATTTAAAATATCTTTAATTAGTGGAAA
131 GATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAA
*
12417380 CTAAAAATATTCGTTTTGAGGAGTTGTTGGTTTAATTTTTCTTTTCTTTTCTTTC
196 -TAAAAATATTCGCTTTGAGGAGTTGTTGGTTTAA-----C--TTC-TTT-TTTC
* * * * *
12417435 TTTATTATTTTTATTTTTAGAAAAAATAATAATTCTGAGTAGAAGACACAATGATGTAAAAGAAG
1 -TT-TTATTTTTATTCTTAG-AAAAA-AGTGATTGTGAGTAGAAGACACAATGATGTAAAGGAAG
** * * * * *
12417500 TTTACACAATTATGAAAATTAAATATGCAACTTAAAAACCAAAAATAGAATTTAACAATTTAAAT
62 TTTACACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAAT
* *
12417565 TATAGATATAGTTTCAAGAAGTTTTACTTTTCGGAGTATTTTATTTAAAATATCTTTAATTAG-G
127 TATAGATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTG
* *
12417629 GAAGATAAATATA-TCTGCTTTGAGGAGTTGTTGATTTAACTTCTTTTTTTTTCTTTCTTTC
192 GAA-ATAAAAATATTC-GCTTTGAGGAGTTGTTGGTTTAA---C-------TTCTTT-TTTC
* * * *
12417690 TTTATTATTTTTATTTCTAGAGAAAAAAGTGATTGTGAGTAGAAGGCATAATGATTTAAA-GATA
1 -TT-TTATTTTTA-TTCT-TAGAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGA-A
* * *
12417754 GTTTACACAACCATGAAAATTGAATATGTAACTTAAAAACTAATGATAGGATTTAACCGTTTAAA
61 GTTTACACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAA
* * * * * *
12417819 TTATAGATAAAGCTTCAAGAAGTTTTACTTTTCGGAGTATTTTACTTAAAATATCCTTAATTAAT
126 TTATAGATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGT
* * * *
12417884 GGAAGTTAAAGATATCCGCTTTGAGTAGTTGTTGGTTTAACTTCTTTTTTTTTC
191 GGAA-ATAAAAATATTCGCTTTGAGGAGTTGTTGGTTTAACTTC---TTTTTTC
* * *
12417938 GTTTTTTATTTATTATTTTTATCTTTAGAAAAAAAATGATTGT-AGGTAAAAAACACAATGATGT
1 ---TTTTATTT-TTA----T-TC-TTAG-AAAAAAGTGATTGTGA-GTAGAAGACACAATGATGT
* *
12418002 TAAGGTAA-TTTACACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAAT
54 AAAGG-AAGTTTACACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAAC
* * * *
12418066 AGTTTATATTATAGATAGAGTTTTAAGAAATTTTACTTTTTTGAGTATTTTATTTAAAATATCTT
118 AGTTTAAATTATAGATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTT
* * *
12418131 TATTTAGTGGAAGATAAAAATATTTG-TATTAAGGAGTTGTTGGTTTAACTTATTTTTCTTTTCT
183 TAATTAGTGGAA-ATAAAAATATTCGCT-TTGAGGAGTTGTTGGTTT-A---A-----C--TTCT
12418195 TTCTTTC
235 TT-TTTC
* * * **
12418202 TTTATTATTTTTATT-TTAAAAAAAAAAGTGATTGTGAGTAAAAGGCACAATGACATAAA-GATA
1 -TT-TTATTTTTATTCTT--AGAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGA-A
* * * * * * **
12418265 GTTTACGCAATCATAAAAATTGAATATGCAACTTGAAAACTAATAATAAAATTTATTTA-TTTAA
61 GTTTACACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTA-ACAGTTTAA
* * * **
12418329 ATTATAAATAGAGTTTTAAGAAATTTTACTTTTTAAAGTATTTTATTTAAAATATCTTTAATTAG
125 ATTATAGATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAG
* * * *
12418394 TAGAAAATAAAGATATTCACTTTTAAGGAGTTG
190 T-GGAAATAAAAATATTCGC-TTTGAGGAGTTG
12418427 ATAAATAATA
Statistics
Matches: 1041, Mismatches: 131, Indels: 118
0.81 0.10 0.09
Matches are distributed among these distances:
237 12 0.01
238 189 0.18
243 1 0.00
245 3 0.00
246 3 0.00
247 2 0.00
248 8 0.01
249 9 0.01
250 7 0.01
251 5 0.00
252 14 0.01
253 40 0.04
254 155 0.15
255 341 0.33
256 203 0.20
257 23 0.02
258 2 0.00
259 1 0.00
262 6 0.01
263 9 0.01
264 5 0.00
266 3 0.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (240 bp):
TTTTATTTTTATTCTTAGAAAAAAGTGATTGTGAGTAGAAGACACAATGATGTAAAGGAAGTTTA
CACAACCATGAAAATTGAATATGTAACTTAAAAACTAATAATAGAATTTAACAGTTTAAATTATA
GATAGAGTTTCAAGAAGTTTTACTTTTTGGAGTATTTTATTTAAAATATCTTTAATTAGTGGAAA
TAAAAATATTCGCTTTGAGGAGTTGTTGGTTTAACTTCTTTTTTC
Found at i:12424281 original size:31 final size:31
Alignment explanation
Indices: 12424240--12424298 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
12424230 CAAATCACAA
*
12424240 ATTTATATTTTCT-TTTTTAAATTTTTTAAAG
1 ATTTATATTTT-TATTTTCAAATTTTTTAAAG
* *
12424271 ATTTTTATTTTTATTTTCATATTTTTTA
1 ATTTATATTTTTATTTTCAAATTTTTTA
12424299 TAATTAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (31 bp):
ATTTATATTTTTATTTTCAAATTTTTTAAAG
Found at i:12432322 original size:21 final size:21
Alignment explanation
Indices: 12432298--12432344 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
12432288 CAATATCACT
12432298 GAGCTTCTTCTTCTTGGACAA
1 GAGCTTCTTCTTCTTGGACAA
12432319 GAGCTTCTTCTTCTTGGACAA
1 GAGCTTCTTCTTCTTGGACAA
12432340 GAGCT
1 GAGCT
12432345 CTTTCATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (21 bp):
GAGCTTCTTCTTCTTGGACAA
Found at i:12446055 original size:18 final size:18
Alignment explanation
Indices: 12446029--12446069 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12446019 TTACAGCTGC
12446029 AAAAA-GAAGTTGGATCT
1 AAAAAGGAAGTTGGATCT
12446046 AAAAAGGAAGTTGGATCT
1 AAAAAGGAAGTTGGATCT
*
12446064 GAAAAG
1 AAAAAG
12446070 AGATGGGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.49, C:0.05, G:0.27, T:0.20
Consensus pattern (18 bp):
AAAAAGGAAGTTGGATCT
Found at i:12450173 original size:18 final size:18
Alignment explanation
Indices: 12450142--12450176 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12450132 AATATAAATA
12450142 AAATTTAAATTTAATAAT
1 AAATTTAAATTTAATAAT
12450160 AAATTATAAA-TTAATAA
1 AAATT-TAAATTTAATAA
12450177 AAGTCAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAAATTTAATAAT
Found at i:12450575 original size:23 final size:23
Alignment explanation
Indices: 12450547--12450602 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
12450537 GTAAATTAAA
*
12450547 ACAAACATAATGATAGGAGAGTT
1 ACAAACATAATGACAGGAGAGTT
*
12450570 ACAAACATAATGGCAGGAGAGTT
1 ACAAACATAATGACAGGAGAGTT
*
12450593 ATAAA-ATAAT
1 ACAAACATAAT
12450603 AATAATTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.21
Consensus pattern (23 bp):
ACAAACATAATGACAGGAGAGTT
Found at i:12451928 original size:30 final size:30
Alignment explanation
Indices: 12451892--12451950 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12451882 ATTACGTTAA
* *
12451892 TAGGACACCCCTCACATTTTC-AAGTGGTTC
1 TAGGACACCCCCCA-AATTTCGAAGTGGTTC
12451922 TAGGACACCCCCCAAATTTCGAAGTGGTT
1 TAGGACACCCCCCAAATTTCGAAGTGGTT
12451951 GTCTTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (30 bp):
TAGGACACCCCCCAAATTTCGAAGTGGTTC
Found at i:12453960 original size:18 final size:18
Alignment explanation
Indices: 12453925--12453972 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
12453915 AATAAATATA
12453925 AATACAATTTAAATTTAAT
1 AATA-AATTTAAATTTAAT
12453944 AATAAATTGTAAA-TTAAT
1 AATAAATT-TAAATTTAAT
12453962 AA-AAA-TTAAAT
1 AATAAATTTAAAT
12453973 GAACAAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
16 1 0.04
17 3 0.11
18 11 0.41
19 8 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAAATTTAAATTTAAT
Found at i:12454391 original size:25 final size:23
Alignment explanation
Indices: 12454333--12454383 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
12454323 GTAAATTAAA
12454333 ACAAACATAATGGCAAGAGAGTT
1 ACAAACATAATGGCAAGAGAGTT
* *
12454356 ACAAACATAATGGTAGGAGAGTT
1 ACAAACATAATGGCAAGAGAGTT
12454379 ACAAA
1 ACAAA
12454384 ATACTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.18
Consensus pattern (23 bp):
ACAAACATAATGGCAAGAGAGTT
Found at i:12464615 original size:7 final size:7
Alignment explanation
Indices: 12464591--12464623 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
12464581 ACCAACTTTT
12464591 AATTCAA
1 AATTCAA
12464598 TAATT-AA
1 -AATTCAA
12464605 AATTCAA
1 AATTCAA
12464612 AATTCAA
1 AATTCAA
12464619 AATTC
1 AATTC
12464624 CATATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.17
7 16 0.67
8 4 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (7 bp):
AATTCAA
Found at i:12472195 original size:52 final size:52
Alignment explanation
Indices: 12472075--12472366 Score: 422
Period size: 52 Copynumber: 5.6 Consensus size: 52
12472065 TAAATGCAAA
* * * ** *
12472075 AGGTTCGATGACTCTGTATCATCGTGAGTTATATGAATCTTTTACAAATTTTG
1 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCTTTTACGGATTATG
* * * *
12472128 AGGTTCGATGGCTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * *
12472180 AGGTCCGAAGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * *
12472232 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCTTTTACAGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
12472284 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
*
12472336 AGGTCCGATGACTATGTGTCATCGTAAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
12472367 TAAATGAGAA
Statistics
Matches: 218, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
52 193 0.89
53 25 0.11
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
Found at i:12475283 original size:30 final size:29
Alignment explanation
Indices: 12475240--12475305 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
12475230 GTCAAAAACA
* * *
12475240 AAATTTTGGAAAGTTCGGGTGTTAAAATGT
1 AAATTTTTGAAAGTTCAGG-GTTAAAATAT
* *
12475270 AAATTTTTTAAAGTTTAGGGTTAAAATAT
1 AAATTTTTGAAAGTTCAGGGTTAAAATAT
12475299 -AATTTTT
1 AAATTTTT
12475306 AAATAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 7 0.23
29 9 0.29
30 15 0.48
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (29 bp):
AAATTTTTGAAAGTTCAGGGTTAAAATAT
Found at i:12476244 original size:11 final size:11
Alignment explanation
Indices: 12476213--12476246 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12476203 CAATGCTCCC
**
12476213 TTTTGTATTGA
1 TTTTGTATTTT
12476224 TTTTGTATTTT
1 TTTTGTATTTT
12476235 TTTTGTATTTT
1 TTTTGTATTTT
12476246 T
1 T
12476247 CGTGGGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (11 bp):
TTTTGTATTTT
Found at i:12476564 original size:16 final size:15
Alignment explanation
Indices: 12476543--12476572 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12476533 GGGCTTGTGT
12476543 TTGGTTTGGGCTAATA
1 TTGGTTTGGG-TAATA
12476559 TTGGTTTGGGTAAT
1 TTGGTTTGGGTAAT
12476573 GTGTGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (15 bp):
TTGGTTTGGGTAATA
Found at i:12477117 original size:47 final size:47
Alignment explanation
Indices: 12477033--12477180 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
12477023 GCCTTTGCGA
* * * *
12477033 CTTC-AATCTCTAAGGTACAAGATTTGCTATTGTGGCTTCAATCTTTC
1 CTTCTAATCTCT-AGGTATAAGATTCGCCATTGCGGCTTCAATCTTTC
* * * *
12477080 CTT-TCATCTCTAGGGTATAAGATTCGCCATTACGGCTTCGATTTTTCC
1 CTTCTAATCTCTA-GGTATAAGATTCGCCATTGCGGCTTCAATCTTT-C
* * *
12477128 CTTCGTAAT-TCTTAGGTGTAAGATTCACCATTGCGGGTTCAATCTTTTC
1 CTTC-TAATCTC-TAGGTATAAGATTCGCCATTGCGGCTTCAATC-TTTC
12477177 CTTC
1 CTTC
12477181 ACATTTCCAA
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
46 1 0.01
47 35 0.44
48 4 0.05
49 31 0.39
50 8 0.10
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (47 bp):
CTTCTAATCTCTAGGTATAAGATTCGCCATTGCGGCTTCAATCTTTC
Found at i:12477873 original size:49 final size:49
Alignment explanation
Indices: 12477804--12478336 Score: 464
Period size: 49 Copynumber: 10.9 Consensus size: 49
12477794 TCATCTTCAG
* * * *
12477804 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTGT
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * * * *
12477853 GGTACAAGATTCGTTGTTGCGACTTCAATCTTTCCCATCACATCT-TTA
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * * ** * * * *
12477901 GGGTATAAGATTTGCCGTCGTAGCTTTAATCTTTCCCATCACATCACTAA
1 -GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * * * *
12477951 GGTATAAGGTTCGTCGTTGCGGCTTTAACCTTTCCCTCCACATCTCTAA
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * * * * * *
12478000 GGTATAAGGTTCGCCATTGCGACTTTAACCTTTCCCTCCACATCTCT-A
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * ** * * *
12478048 GGGTATAAGATTCATCATTGCAACTTCAATCCTTCCCATCACATCTCTAA
1 -GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * *
12478098 GGTATAAGGTTCTTCGTTGCGGCTTCAATCTTTCGCTTCACATCTCT-A
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
*
12478146 GGATATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCATT-ACATCTCTCA
1 GG-TATAAGATTCGTCGTTGCGGCTTCAATCTTTCCC-TTCACATCTCTGA
* * * * * * *
12478196 GGTATAAGGTTCGTCGTTACAGCTTCAACCTTTCTCTTCACGTCTCTAA
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* * * * *
12478245 AGTATAAGGTTCATCGTTGCGGCTTCAACCTTTCCCTCCACATCTCT-A
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
* ** * *
12478293 GGGTGTAAGATTCACCGTTGCGGGTTTAATCTTTCCCTTCACAT
1 -GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACAT
12478337 GTTTCAACGT
Statistics
Matches: 400, Mismatches: 75, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
48 8 0.02
49 384 0.96
50 8 0.02
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (49 bp):
GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTGA
Found at i:12478084 original size:147 final size:147
Alignment explanation
Indices: 12477804--12478336 Score: 570
Period size: 147 Copynumber: 3.6 Consensus size: 147
12477794 TCATCTTCAG
* * * * * * ** * **
12477804 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTGTGGTACAAGATTCGTTG
1 GGTATAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAAGGTATAAGATTCGCCG
* * * * * * *
12477869 TTGCGACTTCAATCTTTCCCATCACATCTTTAGGGTATAAGATTTGCCGTCGTAGCTTTAATCTT
66 TTGCGACTTCAATCTTTCCCATCACATCTCTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCCT
*
12477934 TCCCATCACATCACTAA
131 TCCCATCACATCTCTAA
* * *
12477951 GGTATAAGGTTCGTCGTTGCGGCTTTAACCTTTCCCTCCACATCTCTAAGGTATAAGGTTCGCCA
1 GGTATAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAAGGTATAAGATTCGCCG
* * * * *
12478016 TTGCGACTTTAACCTTTCCC-TCCACATCTCTAGGGTATAAGATTCATCATTGCAACTTCAATCC
66 TTGCGACTTCAATCTTTCCCAT-CACATCTCTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCC
12478080 TTCCCATCACATCTCTAA
130 TTCCCATCACATCTCTAA
* * * * *
12478098 GGTATAAGGTTCTTCGTTGCGGCTTCAATCTTTCGCTTCACATCTCT-AGGATATAAGATTCGTC
1 GGTATAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAAGG-TATAAGATTCGCC
* * * *
12478162 GTTGCGGCTTCAATCTTTCCCATTACATCTCTCA-GGTATAAGGTTCGTCGTTACAGCTTCAA-C
65 GTTGCGACTTCAATCTTTCCCATCACATCTCT-AGGGTATAAGATTCGTCGTTGCAGCTTCAATC
* * *
12478225 CTTTCTCTTCACGTCTCTAA
129 C-TTCCCATCACATCTCTAA
* * * * *
12478245 AGTATAAGGTTCATCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTGTAAGATTCACCG
1 GGTATAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAAGGTATAAGATTCGCCG
** * *
12478310 TTGCGGGTTTAATCTTTCCCTTCACAT
66 TTGCGACTTCAATCTTTCCCATCACAT
12478337 GTTTCAACGT
Statistics
Matches: 320, Mismatches: 60, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
146 6 0.02
147 310 0.97
148 4 0.01
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (147 bp):
GGTATAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAAGGTATAAGATTCGCCG
TTGCGACTTCAATCTTTCCCATCACATCTCTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCCT
TCCCATCACATCTCTAA
Found at i:12478951 original size:112 final size:112
Alignment explanation
Indices: 12478774--12478976 Score: 325
Period size: 112 Copynumber: 1.8 Consensus size: 112
12478764 ACTAATCGTC
* *
12478774 ATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAAGTGGATAAAATTGAATTTTATTGGAGACAA
1 ATTTCAATACAAAAATGCTTGAACAAGGTTGTAAAGTGGATAAAATTGAATTTTATTGGAGACAA
* *
12478839 AGCTCACGTGAATGAAAAGATTAAAATTCATTAGTCCACTAACCACT
66 AGCTCACATGAATGAAAAAATTAAAATTCATTAGTCCACTAACCACT
** *
12478886 ATTTCAATACAAACGTGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGACAA
1 ATTTCAATACAAAAATGCTTGAACAAGGTTGTAAAGTGGATAAAATTGAATTTTATTGGAGACAA
**
12478951 AGCTTGCATGAATGAAAAAATTAAAA
66 AGCTCACATGAATGAAAAAATTAAAA
12478977 GTGACAAACA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 82 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (112 bp):
ATTTCAATACAAAAATGCTTGAACAAGGTTGTAAAGTGGATAAAATTGAATTTTATTGGAGACAA
AGCTCACATGAATGAAAAAATTAAAATTCATTAGTCCACTAACCACT
Found at i:12480142 original size:14 final size:14
Alignment explanation
Indices: 12480123--12480159 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
12480113 TGCCCTTGAC
12480123 TTTTTCTTTCTCTT
1 TTTTTCTTTCTCTT
*
12480137 TTTTTCTTTCTTTT
1 TTTTTCTTTCTCTT
12480151 TTTTTCTTT
1 TTTTTCTTT
12480160 GGGTTTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTCTCTT
Found at i:12482420 original size:42 final size:42
Alignment explanation
Indices: 12482367--12482640 Score: 295
Period size: 42 Copynumber: 6.5 Consensus size: 42
12482357 TGATATGTAA
* *
12482367 TAAAA-GAAGACTCATGTCTCGGGATGAGCATGAGATTATGT
1 TAAAAGGAAGACTCATGACTCGAGATGAGCATGAGATTATGT
*
12482408 TAAAAGGAAGACTCAT-ATCTCGGGATGAGCATGAGATTATGT
1 TAAAAGGAAGACTCATGA-CTCGAGATGAGCATGAGATTATGT
*
12482450 TAAAAGGAAGACTCATGTCTCGAGATGAGCATGAGATTATGT
1 TAAAAGGAAGACTCATGACTCGAGATGAGCATGAGATTATGT
*** * *
12482492 TAAAAGGAAGACTTGCGACTCGAGAAGAGCATGAAATTATGT
1 TAAAAGGAAGACTCATGACTCGAGATGAGCATGAGATTATGT
** * * *
12482534 TTTAAGGAAGACTCATGACTCG-GAAGGAGTATGAGGTTATGTT
1 TAAAAGGAAGACTCATGACTCGAG-ATGAGCATGAGATTATG-T
* * * *
12482577 TTAAAGGAAGACTCGTGACTCGAGATAAGCAAGAGATT-TCGT
1 TAAAAGGAAGACTCATGACTCGAGATGAGCATGAGATTAT-GT
* * *
12482619 TTAAAGGAAGAATTATGACTCG
1 TAAAAGGAAGACTCATGACTCG
12482641 GTTGATTATG
Statistics
Matches: 198, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
41 6 0.03
42 160 0.81
43 31 0.16
44 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.26
Consensus pattern (42 bp):
TAAAAGGAAGACTCATGACTCGAGATGAGCATGAGATTATGT
Found at i:12483264 original size:21 final size:21
Alignment explanation
Indices: 12483238--12483287 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
12483228 TTTTTAGTAA
12483238 CGGTAGAAGCATGACTTATAC
1 CGGTAGAAGCATGACTTATAC
* *
12483259 CGGTAGAAGCATGACTTGTAT
1 CGGTAGAAGCATGACTTATAC
12483280 CGGTAGAA
1 CGGTAGAA
12483288 CTATAACAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (21 bp):
CGGTAGAAGCATGACTTATAC
Found at i:12489571 original size:42 final size:42
Alignment explanation
Indices: 12489483--12489801 Score: 286
Period size: 42 Copynumber: 7.6 Consensus size: 42
12489473 TTGATGTGTA
** * *
12489483 TTAAAA-GAAGACTCATGTCTCGATATGAGCATGAGATTTTTT
1 TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGA-TTATG
*
12489525 TTAAAAGGAAGACTCATGTCTCGGGATGAACATGAGATTATG
1 TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
*
12489567 TTAAAAGGAAGGCTCATGTCTCGGGATGAGCATGAGATTATG
1 TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
* * *
12489609 TTAAAAGGATGATTCATGTGTCGGGATGAGCATGAGATTATG
1 TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
**** * *
12489651 TTAAAAGGAAGACTCGCAACTCGGGAAGACCATGAGATTATG
1 TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
* * *** * * *
12489693 ATT-TAAGGAAGACTCATGACTCAAAAGGAGTATGAGGTTATG
1 -TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
* ** * * *
12489735 TTTTAAAGGAAGACTTGTGACTCGAGATGAGTATGAGATTTCAT-
1 -TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGA-TT-ATG
* *
12489779 TT-AAAGGAAGACTTATGACTCGG
1 TTAAAAGGAAGACTCATGTCTCGG
12489802 TTCATTATGT
Statistics
Matches: 231, Mismatches: 41, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
42 169 0.73
43 58 0.25
44 2 0.01
45 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (42 bp):
TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
Found at i:12490427 original size:21 final size:21
Alignment explanation
Indices: 12490410--12490454 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
12490400 TTAGTATCAG
12490410 TAGAAGCATGACTTGTATCGA
1 TAGAAGCATGACTTGTATCGA
*
12490431 TAGACGCATGACTTGTATCGA
1 TAGAAGCATGACTTGTATCGA
12490452 TAG
1 TAG
12490455 CACTATAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (21 bp):
TAGAAGCATGACTTGTATCGA
Found at i:12498320 original size:42 final size:41
Alignment explanation
Indices: 12498218--12498492 Score: 262
Period size: 42 Copynumber: 6.6 Consensus size: 41
12498208 TTGATGCGTA
* ** * ** *
12498218 TTAAAGGAAGACTCATGTCTCAAGATAAGCATGAGGGTATA
1 TTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
* *
12498259 TTAAAGAAAGACTCATGTCTCGGGATGAGCATGAGATTATG
1 TTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
*
12498300 TTAAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATG
1 TT-AAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
* *
12498342 TTAAAAGGAAGACTCATGACTTGGGAAGAGCATGAGATTATG
1 TT-AAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
* * * * * * *
12498384 ATTTAAGGAAGACTCATGACTCGGAAGGAGTATAAGGTCATG
1 -TTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
** * * * *
12498426 TTTTAAAGGAAGACTTGTGACTTGAGATGAACATGAGATTTTG
1 --TTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
*
12498469 TTTAAAGGAAGACTCAAGACTCGG
1 -TTAAAGGAAGACTCATGACTCGG
12498493 TTAACTATGT
Statistics
Matches: 193, Mismatches: 38, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
41 36 0.19
42 127 0.66
43 30 0.16
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGACTCGGGATGAGCATGAGATTATG
Found at i:12507167 original size:2 final size:2
Alignment explanation
Indices: 12507160--12507184 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12507150 CTGAATAAAA
12507160 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
12507185 AAGAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12512460 original size:80 final size:80
Alignment explanation
Indices: 12512327--12512485 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
12512317 TTCGGATCTT
12512327 ATCAGATAAGGATGCTATCACTTCATGTTCTTGGAGTGAAACACCTGGCAAATGCTTTTCCTTGT
1 ATCAGATAAGGATGCTATCACTTCATGTTCTTGGAGTGAAACACCTGGCAAATGCTTTTCCTTGT
12512392 TGATAAGCATTAGTC
66 TGATAAGCATTAGTC
*
12512407 ATCAGATAAGGATGCTATCACTTCATGTTGTTGGAGTGAAACACCTGGCAAATGCTTTTCCTTGT
1 ATCAGATAAGGATGCTATCACTTCATGTTCTTGGAGTGAAACACCTGGCAAATGCTTTTCCTTGT
12512472 TGATAAGCATTAGT
66 TGATAAGCATTAGT
12512486 TCTTCCGGAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (80 bp):
ATCAGATAAGGATGCTATCACTTCATGTTCTTGGAGTGAAACACCTGGCAAATGCTTTTCCTTGT
TGATAAGCATTAGTC
Found at i:12523665 original size:29 final size:29
Alignment explanation
Indices: 12523622--12523678 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
12523612 CAATTTTTAA
* * * *
12523622 ATTTTTGGGATTAAATTGTAATTTTAGTG
1 ATTTTAGGGACTAAATTGGAAATTTAGTG
12523651 ATTTTAGGGACTAAATTGGAAATTTAGT
1 ATTTTAGGGACTAAATTGGAAATTTAGT
12523679 AAAATTTAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (29 bp):
ATTTTAGGGACTAAATTGGAAATTTAGTG
Found at i:12523687 original size:30 final size:30
Alignment explanation
Indices: 12523653--12523764 Score: 88
Period size: 30 Copynumber: 3.8 Consensus size: 30
12523643 TTTTAGTGAT
12523653 TTTAGGGACTAAATTGGAAATTTAGTAAAA
1 TTTAGGGACTAAATTGGAAATTTAGTAAAA
** ** * *
12523683 TTTAGGGTGT-AATTCATAAATATAAT-AAA
1 TTTAGGGACTAAATT-GGAAATTTAGTAAAA
12523712 TTTAGGGACTAAATT-G-AATTTAGAATAAAA
1 TTTAGGGACTAAATTGGAAATTTAG--TAAAA
* * *
12523742 TTTTGGGGCTAAATTGGGAATTT
1 TTTAGGGACTAAATTGGAAATTT
12523765 TTTAACTAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
27 5 0.08
29 16 0.26
30 35 0.56
31 1 0.02
32 5 0.08
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.37
Consensus pattern (30 bp):
TTTAGGGACTAAATTGGAAATTTAGTAAAA
Found at i:12525092 original size:29 final size:30
Alignment explanation
Indices: 12525046--12525111 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
12525036 GCCGCTAGAG
* * *
12525046 GTGTGTCTCTGTCTGTGCTACAT-GTTGTT
1 GTGTGTTTCTATCCGTGCTACATAGTTGTT
*
12525075 GTGTGTTTCTATCCGTGCTACATATTTGTT
1 GTGTGTTTCTATCCGTGCTACATAGTTGTT
12525105 GTGTGTT
1 GTGTGTT
12525112 CTGTTTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.50
Consensus pattern (30 bp):
GTGTGTTTCTATCCGTGCTACATAGTTGTT
Found at i:12530538 original size:21 final size:20
Alignment explanation
Indices: 12530493--12530545 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
12530483 TTGTGCTAGC
12530493 TCTATCGATACAAGTATGATT
1 TCTATCGATACAAGTATGA-T
*
12530514 TCTACCGATACAAGTCATGCA-
1 TCTATCGATACAAGT-ATG-AT
12530535 TCTATCGATAC
1 TCTATCGATAC
12530546 CAAAAACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 24 0.86
22 3 0.11
23 1 0.04
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (20 bp):
TCTATCGATACAAGTATGAT
Found at i:12530649 original size:25 final size:24
Alignment explanation
Indices: 12530603--12530650 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12530593 TAAGCATATA
* *
12530603 AACTACTGATACATCAATTTTAAT
1 AACTACCGATACATCAAATTTAAT
*
12530627 AACTACCGATACTTGCAAATTTAA
1 AACTACCGATACAT-CAAATTTAA
12530651 CTACCGATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (24 bp):
AACTACCGATACATCAAATTTAAT
Found at i:12559235 original size:41 final size:41
Alignment explanation
Indices: 12559178--12559273 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
12559168 GAATTATATT
*
12559178 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTTCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
12559219 TTAACAAGAATTCTAGTCACCCAATTTTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
12559260 TTGACAAGAATTCT
1 TTAACAAGAATTCT
12559274 CTACGAACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:12559285 original size:17 final size:17
Alignment explanation
Indices: 12559263--12559301 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
12559253 CTCCACCTTG
* *
12559263 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
12559280 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
12559297 ACAAG
1 ACAAG
12559302 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:12564540 original size:25 final size:26
Alignment explanation
Indices: 12564512--12564561 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
12564502 ATTTTGTTTT
12564512 CTAAATCAAAAT-AATA-TATATATTC
1 CTAAAT-AAAATAAATAGTATATATTC
12564537 CTAAATAAAATGAAATAGTATATAT
1 CTAAATAAAAT-AAATAGTATATAT
12564562 GGATTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 4 0.18
27 7 0.32
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (26 bp):
CTAAATAAAATAAATAGTATATATTC
Found at i:12571343 original size:24 final size:24
Alignment explanation
Indices: 12571291--12571344 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
12571281 GCAATAAAAA
*
12571291 AAGATGATCAAGGAAGAATAATTT
1 AAGATGATCAAGGAAGAATAATCT
*
12571315 TAGATGAAT-AAGGAAGAGA-AATCT
1 AAGATG-ATCAAGGAAGA-ATAATCT
12571339 AAGATG
1 AAGATG
12571345 CAGTAGCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGATGATCAAGGAAGAATAATCT
Found at i:12580217 original size:16 final size:16
Alignment explanation
Indices: 12580196--12580244 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
12580186 ATATTTAGTC
12580196 ATATAATAAATTATTA
1 ATATAATAAATTATTA
*
12580212 ATATAATTAATTATT-
1 ATATAATAAATTATTA
12580227 -T-TAATAAATTATTTA
1 ATATAATAAATTA-TTA
12580242 ATA
1 ATA
12580245 ATTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 9 0.33
14 3 0.11
16 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:12580256 original size:15 final size:15
Alignment explanation
Indices: 12580228--12580268 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
12580218 TTAATTATTT
* *
12580228 TAATAAATTATTTAA
1 TAATACATTTTTTAA
*
12580243 TAATTCATTTTTTAA
1 TAATACATTTTTTAA
12580258 TAATACATTTT
1 TAATACATTTT
12580269 AAAAATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATACATTTTTTAA
Found at i:12587330 original size:17 final size:17
Alignment explanation
Indices: 12587310--12587348 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
12587300 AAATAAGTTT
12587310 AAATTTATTTCAAATTC
1 AAATTTATTTCAAATTC
* *
12587327 AAATTTATTTTAAATTT
1 AAATTTATTTCAAATTC
12587344 AAATT
1 AAATT
12587349 AAATTTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTTATTTCAAATTC
Found at i:12587350 original size:11 final size:11
Alignment explanation
Indices: 12587286--12587354 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
12587276 TAAATTGAAA
*
12587286 TAAATTTAAACT
1 TAAA-TTAAATT
* *
12587298 TAAAATAAGTT
1 TAAATTAAATT
*
12587309 TAAATT-TATT
1 TAAATTAAATT
12587319 TCAAATTCAAATT
1 T-AAATT-AAATT
**
12587332 TATTTTAAATT
1 TAAATTAAATT
12587343 TAAATTAAATT
1 TAAATTAAATT
12587354 T
1 T
12587355 TCAGTCTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
10 3 0.07
11 29 0.67
12 7 0.16
13 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:12589160 original size:29 final size:29
Alignment explanation
Indices: 12589089--12589286 Score: 170
Period size: 30 Copynumber: 6.8 Consensus size: 29
12589079 AAAAGGTCCC
*
12589089 TAAA-TTTTCCAAAATTACATTTTAACCT
1 TAAACTTTTCCAAAATCACATTTTAACCT
* *
12589117 CTAAACTTTTCCAAAATTACATTTTCACCT
1 -TAAACTTTTCCAAAATCACATTTTAACCT
* * *
12589147 TAAACTTTTCCAAAATTACCTTTTTACCCT
1 TAAACTTTTCCAAAATCA-CATTTTAACCT
*
12589177 TAAAC--TTCCAAAAATCACATTTTCACCCT
1 TAAACTTTTCC-AAAATCACATTTT-AACCT
** * *
12589206 TAAGTTTTTCCTAAATCACATTTTAACCGC
1 TAAACTTTTCCAAAATCACATTTTAACC-T
* * *
12589236 CAAACTTTTCAAAAATCACATCTTAACCT
1 TAAACTTTTCCAAAATCACATTTTAACCT
* *
12589265 TGAAC-TTTCAAAAAATCACATT
1 TAAACTTTTC-CAAAATCACATT
12589287 CTGACCCCAA
Statistics
Matches: 140, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
28 13 0.09
29 53 0.38
30 70 0.50
31 4 0.03
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
TAAACTTTTCCAAAATCACATTTTAACCT
Found at i:12589164 original size:59 final size:58
Alignment explanation
Indices: 12589089--12589272 Score: 194
Period size: 59 Copynumber: 3.1 Consensus size: 58
12589079 AAAAGGTCCC
*
12589089 TAAA-TTTTCCAAAATTACATTTTAACCTCTAAACTTTTCCAAAATTACATTTTCACCT
1 TAAACTTTTCCAAAATTACATTTTAACC-CTAAACTTTTCCAAAATCACATTTTCACCT
* *
12589147 TAAACTTTTCCAAAATTACCTTTTTACCCTTAAAC--TTCCAAAAATCACATTTTCACCCT
1 TAAACTTTTCCAAAATTACATTTTAACCC-TAAACTTTTCC-AAAATCACATTTTCA-CCT
** * * * * * *
12589206 TAAGTTTTTCCTAAATCACATTTTAACCGCCAAACTTTTCAAAAATCACATCTTAACCT
1 TAAACTTTTCCAAAATTACATTTTAACC-CTAAACTTTTCCAAAATCACATTTTCACCT
*
12589265 TGAACTTT
1 TAAACTTT
12589273 CAAAAAATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
57 4 0.04
58 19 0.18
59 63 0.61
60 14 0.14
61 3 0.03
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.39
Consensus pattern (58 bp):
TAAACTTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATCACATTTTCACCT
Found at i:12589470 original size:28 final size:29
Alignment explanation
Indices: 12589439--12589506 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
12589429 ATCTTGTATT
12589439 TTTTATTTATT-TTA-ATTCATGATTCGCA
1 TTTTATTTATTATTATATTCAT-ATTCGCA
* *
12589467 TTTTATTT-TTATTATATTCATTTTCGTA
1 TTTTATTTATTATTATATTCATATTCGCA
12589495 TATTTATTTATT
1 T-TTTATTTATT
12589507 CGTATAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 2 0.06
28 17 0.50
29 13 0.38
30 2 0.06
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (29 bp):
TTTTATTTATTATTATATTCATATTCGCA
Found at i:12600004 original size:22 final size:22
Alignment explanation
Indices: 12599978--12600022 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12599968 TATCTATAGG
* *
12599978 ACTATAAATGAATCTAGATTGA
1 ACTATAAACGAATCGAGATTGA
*
12600000 ACTATAAACGAATCGAGTTTGA
1 ACTATAAACGAATCGAGATTGA
12600022 A
1 A
12600023 TGGATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (22 bp):
ACTATAAACGAATCGAGATTGA
Found at i:12600223 original size:12 final size:12
Alignment explanation
Indices: 12600207--12600285 Score: 54
Period size: 12 Copynumber: 6.5 Consensus size: 12
12600197 ACGAACATTA
12600207 AATGAACATGTT
1 AATGAACATGTT
* *
12600219 CATGAACAT-AT
1 AATGAACATGTT
*
12600230 AATTAAACATGTT
1 AA-TGAACATGTT
* *
12600243 CATGAACAT-AT
1 AATGAACATGTT
12600254 AATTGAACATGTT
1 AA-TGAACATGTT
* *
12600267 CACGAACAATGTT
1 AATGAAC-ATGTT
12600280 AATGAA
1 AATGAA
12600286 TAATAAATAA
Statistics
Matches: 48, Mismatches: 14, Indels: 9
0.68 0.20 0.13
Matches are distributed among these distances:
11 4 0.08
12 31 0.65
13 13 0.27
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (12 bp):
AATGAACATGTT
Found at i:12600243 original size:24 final size:24
Alignment explanation
Indices: 12600182--12600274 Score: 134
Period size: 24 Copynumber: 3.9 Consensus size: 24
12600172 TCATTTAACT
*
12600182 TAATTGAACATATTCACGAACAT-
1 TAATTGAACATGTTCACGAACATA
* *
12600205 TAAATGAACATGTTCATGAACATA
1 TAATTGAACATGTTCACGAACATA
* *
12600229 TAATTAAACATGTTCATGAACATA
1 TAATTGAACATGTTCACGAACATA
12600253 TAATTGAACATGTTCACGAACA
1 TAATTGAACATGTTCACGAACA
12600275 ATGTTAATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
23 20 0.32
24 42 0.68
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (24 bp):
TAATTGAACATGTTCACGAACATA
Found at i:12602125 original size:20 final size:21
Alignment explanation
Indices: 12602087--12602129 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
12602077 AAAATTTAAA
*
12602087 AAATATATTTTTATAATTTTT
1 AAATATATTTTAATAATTTTT
*
12602108 AAATA-ATTTTAATGATTTTT
1 AAATATATTTTAATAATTTTT
12602128 AA
1 AA
12602130 TTCTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AAATATATTTTAATAATTTTT
Found at i:12603600 original size:28 final size:28
Alignment explanation
Indices: 12603540--12603607 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
12603530 TTAACTACCT
*
12603540 AGCTAACTCCTAACAAACTTCAACACTC
1 AGCTAACTGCTAACAAACTTCAACACTC
* *
12603568 TGCTAACTGCTAACAGACTTCAACAAC-C
1 AGCTAACTGCTAACAAACTTCAAC-ACTC
*
12603596 AGCTAATTGCTA
1 AGCTAACTGCTA
12603608 GTTGTTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 32 0.94
29 2 0.06
ACGTcount: A:0.37, C:0.31, G:0.09, T:0.24
Consensus pattern (28 bp):
AGCTAACTGCTAACAAACTTCAACACTC
Found at i:12605517 original size:18 final size:17
Alignment explanation
Indices: 12605475--12605517 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
12605465 TGAAAATGAG
*
12605475 TTTAAAATAACTTTAAT
1 TTTAAAATAACATTAAT
*
12605492 TTTGAAAATAAGATTAAT
1 TTT-AAAATAACATTAAT
12605510 TTGTAAAA
1 TT-TAAAA
12605518 AAAGTCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 18 0.82
19 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (17 bp):
TTTAAAATAACATTAAT
Found at i:12606518 original size:23 final size:23
Alignment explanation
Indices: 12606487--12606886 Score: 505
Period size: 23 Copynumber: 17.4 Consensus size: 23
12606477 TTCTTATGTC
*
12606487 TGTGCTTAACTATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* *
12606510 TATGATTAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
*
12606533 TGTGCTCAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* * *
12606556 TATGCTTAAATATTAATGTAATT
1 TGTGCTTAAATATTAATATGATT
12606579 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* * *
12606602 TGTGCTCAAATATTAATGTAATT
1 TGTGCTTAAATATTAATATGATT
12606625 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* *
12606648 TGTGCTCAAATATTAATGTGATT
1 TGTGCTTAAATATTAATATGATT
* * *
12606671 TATGCTTAAATATTAGT-TAATT
1 TGTGCTTAAATATTAATATGATT
* *
12606693 TGTGCTTAAGTATTAATGTGATT
1 TGTGCTTAAATATTAATATGATT
* * *
12606716 TATACTTAAATATTAATATGTTT
1 TGTGCTTAAATATTAATATGATT
* *
12606739 TGTGCTCAAATATTAAAATGATT
1 TGTGCTTAAATATTAATATGATT
12606762 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* *
12606785 TGTGCTCAAATATTAATTTGATT
1 TGTGCTTAAATATTAATATGATT
* * **
12606808 TATGCTTAAATATCAACGTGATT
1 TGTGCTTAAATATTAATATGATT
12606831 TGTGCTTAAATATTAATATGATT
1 TGTGCTTAAATATTAATATGATT
* * * *
12606854 TATGATTAAATATTAATGTAATT
1 TGTGCTTAAATATTAATATGATT
12606877 TGTGCTTAAA
1 TGTGCTTAAA
12606887 GAATTAAGAT
Statistics
Matches: 318, Mismatches: 58, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
22 18 0.06
23 300 0.94
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (23 bp):
TGTGCTTAAATATTAATATGATT
Found at i:12624402 original size:26 final size:28
Alignment explanation
Indices: 12624363--12624431 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 28
12624353 CTTGCTTTTG
* *
12624363 CAGCGACAACTCTGGACAT-A-TTCTTT
1 CAGCGATAATTCTGGACATGAGTTCTTT
12624389 CAGCGATAATTCT-GA-ATGAGTTCTTT
1 CAGCGATAATTCTGGACATGAGTTCTTT
*
12624415 TAGCGATAATTCTGGAC
1 CAGCGATAATTCTGGAC
12624432 GCAATCCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.06
25 3 0.08
26 29 0.81
27 2 0.06
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (28 bp):
CAGCGATAATTCTGGACATGAGTTCTTT
Found at i:12628812 original size:17 final size:17
Alignment explanation
Indices: 12628745--12628812 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
12628735 CATTAAATTA
12628745 CAATGACAAATGGAAATG
1 CAATGAC-AATGGAAATG
*
12628763 CAATGACATTGTG-AATG
1 CAATGACAATG-GAAATG
* **
12628780 CAGTGACAATTAAAATG
1 CAATGACAATGGAAATG
12628797 CAATGACAATGGAAAT
1 CAATGACAATGGAAAT
12628813 ATGATGACAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
17 32 0.80
18 8 0.20
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (17 bp):
CAATGACAATGGAAATG
Found at i:12639365 original size:35 final size:36
Alignment explanation
Indices: 12639310--12639385 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
12639300 TGATGACTAT
* *
12639310 TGTGAAAGTGAATATATGGGTATGTTCGTT-ATGCCA
1 TGTGAAAGAGAATATATGGGTATATTC-TTCATGCCA
*
12639346 TGTGAAA-AGAATATGTGGGTATATTCTTCATGCCA
1 TGTGAAAGAGAATATATGGGTATATTCTTCATGCCA
12639381 TGTGA
1 TGTGA
12639386 TTGATTGTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 2 0.06
35 27 0.75
36 7 0.19
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (36 bp):
TGTGAAAGAGAATATATGGGTATATTCTTCATGCCA
Found at i:12642428 original size:23 final size:23
Alignment explanation
Indices: 12642400--12642613 Score: 275
Period size: 23 Copynumber: 9.3 Consensus size: 23
12642390 TTATGTATGC
* * *
12642400 GCTTAAATATTAAAACGATTTAT
1 GCTTAAATATTAATATGATTTGT
*
12642423 GATTAAATATTAATATGATTTGT
1 GCTTAAATATTAATATGATTTGT
* *
12642446 GCTCAAATATTAATTTGATTTGT
1 GCTTAAATATTAATATGATTTGT
12642469 GCTTAAATATTAATATGATTTGT
1 GCTTAAATATTAATATGATTTGT
12642492 GCTTAAATATTAATATGATTTGT
1 GCTTAAATATTAATATGATTTGT
** *
12642515 GCGCAAATATTAATGTGATTTGT
1 GCTTAAATATTAATATGATTTGT
*
12642538 GCTTAAATATTAATGTGATTTGT
1 GCTTAAATATTAATATGATTTGT
* * *
12642561 ACTTAAATATTAATATTATTTAT
1 GCTTAAATATTAATATGATTTGT
** *
12642584 TATTAAATATTAATGTGATTTGT
1 GCTTAAATATTAATATGATTTGT
*
12642607 GCCTAAA
1 GCTTAAA
12642614 GAATTAAGAT
Statistics
Matches: 165, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 165 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (23 bp):
GCTTAAATATTAATATGATTTGT
Found at i:12643965 original size:51 final size:51
Alignment explanation
Indices: 12643884--12644127 Score: 371
Period size: 51 Copynumber: 4.8 Consensus size: 51
12643874 GCTATAAACG
12643884 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * * **
12643936 AAAGGTCCGGTGGCTAAGTGTCATTGTGAGTAAATGAATCCTTTACAGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
12643987 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * * *
12644038 AAAGGTCTGATGACTAAGTGTCATCGTGAGTAAATGAATCCATGATGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
* * *
12644089 AAAGGTTCGATGACTCAGTGTCATCGTGAGTATATGAAT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT
12644128 TGCTATATGG
Statistics
Matches: 174, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 170 0.98
52 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATT
Found at i:12644933 original size:21 final size:20
Alignment explanation
Indices: 12644888--12644943 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
12644878 ATGCATGACT
*
12644888 TGTATCGGTAGAAATTACAC
1 TGTATCGGTAGAAAGTACAC
12644908 TTGTATCGGTAGAACTAGTACA-
1 -TGTATCGGTAGAA--AGTACAC
* *
12644930 TGTACCAGTAGAAA
1 TGTATCGGTAGAAA
12644944 TCTGCACTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
21 24 0.80
23 5 0.17
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (20 bp):
TGTATCGGTAGAAAGTACAC
Found at i:12645304 original size:36 final size:36
Alignment explanation
Indices: 12645216--12645314 Score: 135
Period size: 36 Copynumber: 2.8 Consensus size: 36
12645206 GTGTTACAAC
* *
12645216 GTGGGTATGTTCTTCACGGCATGTGACAAAAAATAT
1 GTGGGTATGTTCTTCATGCCATGTGACAAAAAATAT
* * * *
12645252 GTGGGAATGTTCTTCATGTCATGTGACAGAGAATAT
1 GTGGGTATGTTCTTCATGCCATGTGACAAAAAATAT
*
12645288 GTGGGTATGTTCTTCATGCCATATGAC
1 GTGGGTATGTTCTTCATGCCATGTGAC
12645315 TGATTATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (36 bp):
GTGGGTATGTTCTTCATGCCATGTGACAAAAAATAT
Found at i:12646833 original size:90 final size:90
Alignment explanation
Indices: 12646680--12646860 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
12646670 ATTAAAGGTG
12646680 AAATTGATGCTTAGTATATGTTTATTTGGTCTAGTATTGATGTTTGAAAGTGATTAGGAGGGCTG
1 AAATTGATGCTTAGTATATGTTTATTTGGTCTAGTATTGATGTTTGAAAGTGATTAGGAGGGCTG
12646745 GAGCGGTCGATTTTGTGAGGAATCA
66 GAGCGGTCGATTTTGTGAGGAATCA
12646770 AAATTGATGCTTAGTATATGTTTATTTGGTCTAGTATTGATGTTTGAAAGTGATTAGGAGGGCTG
1 AAATTGATGCTTAGTATATGTTTATTTGGTCTAGTATTGATGTTTGAAAGTGATTAGGAGGGCTG
12646835 GAGCGGTCGATTTTGTGAGGAATCA
66 GAGCGGTCGATTTTGTGAGGAATCA
12646860 A
1 A
12646861 GTTTTCGACT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.38
Consensus pattern (90 bp):
AAATTGATGCTTAGTATATGTTTATTTGGTCTAGTATTGATGTTTGAAAGTGATTAGGAGGGCTG
GAGCGGTCGATTTTGTGAGGAATCA
Found at i:12648358 original size:31 final size:31
Alignment explanation
Indices: 12648323--12648381 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
12648313 ATGATTACTA
*
12648323 AACTATAAAAAAGTTT-TCATTTAAGTCACTG
1 AACTATAAAAAACTTTCT-ATTTAAGTCACTG
**
12648354 AACTATTTAAAACTTTCTATTTAAGTCA
1 AACTATAAAAAACTTTCTATTTAAGTCA
12648382 TAAGGTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (31 bp):
AACTATAAAAAACTTTCTATTTAAGTCACTG
Found at i:12655342 original size:42 final size:42
Alignment explanation
Indices: 12655271--12655393 Score: 151
Period size: 42 Copynumber: 3.0 Consensus size: 42
12655261 ATCGCTTGAC
* * *
12655271 GTATAAATGGAAGACTCATGTCTCGGGATGAGCATGAGATTAT
1 GTATAAA-GGAAGACTCATGACTCAGGATGAGCATAAGATTAT
*
12655314 GTATAAAGGAAGACTCGTGACTCAGGATGAGCATAAGATTAT
1 GTATAAAGGAAGACTCATGACTCAGGATGAGCATAAGATTAT
* * * *
12655356 GTTTAAAGGAAGACTTATGGCTC-GTA-GAGCATAAGATT
1 GTATAAAGGAAGACTCATGACTCAGGATGAGCATAAGATT
12655394 GTTTTGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
40 12 0.17
41 2 0.03
42 50 0.70
43 7 0.10
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (42 bp):
GTATAAAGGAAGACTCATGACTCAGGATGAGCATAAGATTAT
Found at i:12655421 original size:41 final size:40
Alignment explanation
Indices: 12655342--12655461 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 40
12655332 GACTCAGGAT
* * *
12655342 GAGCATAAGATTATGTTT-AAAGGAAGACTTATGGCTCGTA
1 GAGCATAAGATTGT-TTTGAAAGGAAGACCTATGACTCGTA
12655382 GAGCATAAGATTGTTTTGAAAAGGAAGACCTATGACTCGTA
1 GAGCATAAGATTGTTTTG-AAAGGAAGACCTATGACTCGTA
*
12655423 GAGCATACGATTGTTTTGGAAAGGAAGACCTATGACTCG
1 GAGCATAAGATTGTTTT-GAAAGGAAGACCTATGACTCG
12655462 GTTGAAGCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.04
40 13 0.18
41 56 0.77
42 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (40 bp):
GAGCATAAGATTGTTTTGAAAGGAAGACCTATGACTCGTA
Found at i:12656077 original size:15 final size:15
Alignment explanation
Indices: 12656057--12656088 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12656047 TACAAGTATC
12656057 TGTATAGGTAGAAGT
1 TGTATAGGTAGAAGT
12656072 TGTATAGGTAGAAGT
1 TGTATAGGTAGAAGT
12656087 TG
1 TG
12656089 CAAGGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (15 bp):
TGTATAGGTAGAAGT
Found at i:12661498 original size:42 final size:42
Alignment explanation
Indices: 12661426--12661560 Score: 189
Period size: 42 Copynumber: 3.2 Consensus size: 42
12661416 ATCACTTGAA
* * *
12661426 GTATAAATGGAAGACTCATGTCTCGCGATGAGCATGAGATTAT
1 GTATAAA-GGAAGACTCGTGACTCGGGATGAGCATGAGATTAT
* *
12661469 GTATAAAGGAAGACTCGTGGCTTGGGATGAGCATGAGATTAT
1 GTATAAAGGAAGACTCGTGACTCGGGATGAGCATGAGATTAT
* *
12661511 GTATAAAGGAAGACTTGTGACTCAGGATGAGCATGAGATTAT
1 GTATAAAGGAAGACTCGTGACTCGGGATGAGCATGAGATTAT
*
12661553 GTTTAAAG
1 GTATAAAG
12661561 TTAGACTTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 76 0.92
43 7 0.08
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (42 bp):
GTATAAAGGAAGACTCGTGACTCGGGATGAGCATGAGATTAT
Found at i:12661577 original size:84 final size:84
Alignment explanation
Indices: 12661426--12661591 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
12661416 ATCACTTGAA
* * *
12661426 GTATAAATGGAAGACTCATGTCTCGCGATGAGCATGAGATTATGTATAAAGGAAGACTCGTGGCT
1 GTATAAATGGAAGACTCATGACTCGCGATGAGCATGAGATTATGTATAAAGGAAGACTCATGACT
*
12661491 TGGGATGAGCATGAGATTAT
66 TGGGA-GAGCATAAGATTAT
** * ** *
12661511 GTATAAA-GGAAGACTTGTGACTCAG-GATGAGCATGAGATTATGTTTAAAGTTAGACTTATGAC
1 GTATAAATGGAAGACTCATGACTC-GCGATGAGCATGAGATTATGTATAAAGGAAGACTCATGAC
*
12661574 TTGGTAGAGCATAAGATT
65 TTGGGAGAGCATAAGATT
12661592 GTTTTGAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 11 0.16
84 50 0.72
85 8 0.12
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (84 bp):
GTATAAATGGAAGACTCATGACTCGCGATGAGCATGAGATTATGTATAAAGGAAGACTCATGACT
TGGGAGAGCATAAGATTAT
Found at i:12661603 original size:84 final size:84
Alignment explanation
Indices: 12661426--12661617 Score: 194
Period size: 84 Copynumber: 2.3 Consensus size: 84
12661416 ATCACTTGAA
* * *
12661426 GTATAAATGGAAGA-CTCATGTCTC-GCGATGAGCATGAGATTATGTATAAAGGAAGACTCGTGG
1 GTATAAA-GGAAGACCT-ATGACTCAG-GATGAGCATGAGATTATGTATAAAGGAAGACTCATGA
*
12661489 CTTGGGATGAGCATGAGATTAT
63 CTTGGGATGAGCATAAGATTAT
* * * ** *
12661511 GTATAAAGGAAGACTTGTGACTCAGGATGAGCATGAGATTATGTTTAAAGTTAGACTTATGACTT
1 GTATAAAGGAAGACCTATGACTCAGGATGAGCATGAGATTATGTATAAAGGAAGACTCATGACTT
* *
12661576 GGTA-GAGCATAAGATTGT
66 GGGATGAGCATAAGATTAT
*
12661594 -TTTGAAAAGGAAGACCTATGACTC
1 GTAT--AAAGGAAGACCTATGACTC
12661618 GGTTGGAGCA
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
82 2 0.02
83 12 0.14
84 65 0.74
85 9 0.10
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (84 bp):
GTATAAAGGAAGACCTATGACTCAGGATGAGCATGAGATTATGTATAAAGGAAGACTCATGACTT
GGGATGAGCATAAGATTAT
Found at i:12663056 original size:29 final size:29
Alignment explanation
Indices: 12663023--12663081 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
12663013 GTTATAACAA
12663023 ATATCAGTGTCTACAAATTCCCTAGAATG
1 ATATCAGTGTCTACAAATTCCCTAGAATG
*
12663052 ATATCTGTGTCTACAAATTCCCTAGAATG
1 ATATCAGTGTCTACAAATTCCCTAGAATG
12663081 A
1 A
12663082 CTAAGCAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (29 bp):
ATATCAGTGTCTACAAATTCCCTAGAATG
Found at i:12666765 original size:13 final size:14
Alignment explanation
Indices: 12666736--12666765 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12666726 TTCAGTACAT
12666736 TGACATTTAACCTC
1 TGACATTTAACCTC
12666750 TGACATTTAA-CTC
1 TGACATTTAACCTC
12666763 TGA
1 TGA
12666766 TTGCGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:12672503 original size:52 final size:52
Alignment explanation
Indices: 12672441--12672732 Score: 399
Period size: 52 Copynumber: 5.6 Consensus size: 52
12672431 TTCTCATTTA
* * *
12672441 ATACTCATGATGACACATAGTCATCGGACTTCATAATTTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTTGTAAAAGATTCAT
* * *
12672493 ATACTCATGATGACACATAGTCATCGGACCTCGTAATTAGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTTGTAAAAGATTCAT
* **
12672545 ATACTCACGATGACACATAATCATCGGACCTCATAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTTGTAAAAGATTCAT
* * *
12672597 ATACTCACGATGACACATAGTCATCGGACCTTATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATTTGTAAAAGATTCAT
* * *
12672649 ATACTCACGATAACTCATAGTCATCGAACCTCGA-AATTCT-TAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTC-ATAATT-TGTAAAAGATTCAT
*
12672701 ATAACTCACGATGACACAAAGTCATCGGACCT
1 AT-ACTCACGATGACACATAGTCATCGGACCT
12672733 TTTGCATTTA
Statistics
Matches: 214, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
52 187 0.87
53 27 0.13
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATTTGTAAAAGATTCAT
Found at i:12679831 original size:17 final size:17
Alignment explanation
Indices: 12679793--12679832 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12679783 CGTTGTCATT
*
12679793 ACATTTTAATTGTTATT
1 ACATTTTAATTGTTATC
* *
12679810 GCATTTTACTTGTTATC
1 ACATTTTAATTGTTATC
12679827 ACATTT
1 ACATTT
12679833 GTATTATAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (17 bp):
ACATTTTAATTGTTATC
Found at i:12714891 original size:17 final size:17
Alignment explanation
Indices: 12714869--12714916 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
12714859 ATTTATCTCG
12714869 TTGTCATTAAATTTTAA
1 TTGTCATTAAATTTTAA
* * *
12714886 TTGTCACTACATTTTAC
1 TTGTCATTAAATTTTAA
* *
12714903 TTGTTATCAAATTT
1 TTGTCATTAAATTT
12714917 GCATTGTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGTCATTAAATTTTAA
Found at i:12715519 original size:14 final size:14
Alignment explanation
Indices: 12715500--12715526 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12715490 ATCACATTTG
12715500 TAAATATATATATA
1 TAAATATATATATA
12715514 TAAATATATATAT
1 TAAATATATATAT
12715527 TATTATACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:12717096 original size:23 final size:24
Alignment explanation
Indices: 12717065--12717111 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12717055 ACAATTCATT
*
12717065 TTTTCTATTA-ATTCGCTTTGACA
1 TTTTCTATTATATTCGCATTGACA
* *
12717088 TTTTGTATTATATTTGCATTGACA
1 TTTTCTATTATATTCGCATTGACA
12717112 GATTTAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (24 bp):
TTTTCTATTATATTCGCATTGACA
Found at i:12731795 original size:18 final size:17
Alignment explanation
Indices: 12731752--12731795 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 17
12731742 TTGACAAAGG
12731752 AATTGTGCATAACAAATA
1 AATTGTG-ATAACAAATA
12731770 AA-TGTGATAACAAATA
1 AATTGTGATAACAAATA
12731786 AGATTGTGAT
1 A-ATTGTGAT
12731796 TGTGATTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.46
17 5 0.21
18 8 0.33
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (17 bp):
AATTGTGATAACAAATA
Found at i:12737279 original size:156 final size:156
Alignment explanation
Indices: 12736906--12737361 Score: 725
Period size: 156 Copynumber: 2.9 Consensus size: 156
12736896 ATCAAAATCA
* *
12736906 GGCGATGAATCGAAAAAGAGCGTTATCGAAAAATTGAGCGATCTAAAAAGAGTCACTAAAATGAA
1 GGCGATGAATCGAAAAGGAGCGTTATCGAAAAATTGAGCGATCTAAAAAGAGTCAATAAAATGAA
*
12736971 AGAAAGAGTTTAATTAAATCAATTAGAGAAATGACACAAGGAGAAGGAAAAGAAAATAAATAAAT
66 AGAAAGAGTTTAATTAAATCAATGAGAGAAATGACACAAGGAGAAGGAAAAGAAAA-AAATAAAT
** * *
12737036 ATTTTTTATCACTGATGGTAGCTCGAC
130 ATTTTTGGTCACTGACGATAGCTCGAC
* * * * *
12737063 GGCAATGAATCGAAAAGGAGCGTTCTCAAAAAATTGAGTGATCTAAAAAGAGTCATTAAAATGAA
1 GGCGATGAATCGAAAAGGAGCGTTATCGAAAAATTGAGCGATCTAAAAAGAGTCAATAAAATGAA
*
12737128 AGAAAGAGTTTAATTAAATCAATGAGAGAAATGACACAAGGATAAGGAAAAGAAAAAAATAAATA
66 AGAAAGAGTTTAATTAAATCAATGAGAGAAATGACACAAGGAGAAGGAAAAGAAAAAAATAAATA
12737193 TTTTTGGTCACTGACGATAGCTCGAC
131 TTTTTGGTCACTGACGATAGCTCGAC
* * *
12737219 GGTGATGAATTGAAAAGGAAG-GTTATCGAAAAATTGAGCGATCTAAAAAGTGTCAATAAAATGA
1 GGCGATGAATCGAAAAGG-AGCGTTATCGAAAAATTGAGCGATCTAAAAAGAGTCAATAAAATGA
*
12737283 AAGAAAGAGTTTAATTAGATCAATGAGAGAAATGACACAAGGAGAAGGAAAAGAAAAAAATAAAT
65 AAGAAAGAGTTTAATTAAATCAATGAGAGAAATGACACAAGGAGAAGGAAAAGAAAAAAATAAAT
*
12737348 TTTTTTGGTCACTG
130 ATTTTTGGTCACTG
12737362 GCGGAAGCTC
Statistics
Matches: 275, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
156 160 0.58
157 115 0.42
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.22
Consensus pattern (156 bp):
GGCGATGAATCGAAAAGGAGCGTTATCGAAAAATTGAGCGATCTAAAAAGAGTCAATAAAATGAA
AGAAAGAGTTTAATTAAATCAATGAGAGAAATGACACAAGGAGAAGGAAAAGAAAAAAATAAATA
TTTTTGGTCACTGACGATAGCTCGAC
Found at i:12747388 original size:25 final size:25
Alignment explanation
Indices: 12747331--12747380 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12747321 TAATACGAAG
12747331 TACCCTATATCAATTAAATCATACC
1 TACCCTATATCAATTAAATCATACC
12747356 TACCCTATATCAATTAAATCATACC
1 TACCCTATATCAATTAAATCATACC
12747381 ACTTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (25 bp):
TACCCTATATCAATTAAATCATACC
Found at i:12747397 original size:6 final size:6
Alignment explanation
Indices: 12747386--12747410 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12747376 ATACCACTTC
12747386 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
12747411 TTTGCATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:12759107 original size:15 final size:15
Alignment explanation
Indices: 12759087--12759117 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12759077 AGTGACAATG
12759087 TTCTCAGCATCTTCT
1 TTCTCAGCATCTTCT
*
12759102 TTCTCAGCATTTTCT
1 TTCTCAGCATCTTCT
12759117 T
1 T
12759118 CCTCGTCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.29, G:0.06, T:0.52
Consensus pattern (15 bp):
TTCTCAGCATCTTCT
Found at i:12773391 original size:3 final size:3
Alignment explanation
Indices: 12773385--12773428 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
12773375 TATATACATA
12773385 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12773429 ATGTGACTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12776180 original size:24 final size:24
Alignment explanation
Indices: 12776147--12776201 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
12776137 GTTAAGAGTA
*
12776147 AAAATTGTCAGTGCAAAAGTAATAT
1 AAAA-TGTCAATGCAAAAGTAATAT
*
12776172 AAAATGTCAATGCAAATGTAATAT
1 AAAATGTCAATGCAAAAGTAATAT
12776196 AAAATG
1 AAAATG
12776202 AATTGACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (24 bp):
AAAATGTCAATGCAAAAGTAATAT
Found at i:12778074 original size:38 final size:38
Alignment explanation
Indices: 12777997--12778079 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
12777987 GCAGCGACAT
* * * * *
12777997 TTTTGAACATTGTCATGTAGTGACAATTTTGGGCGTAA
1 TTTTGAACATCGTCATGCAGTGACAATTCTGGCCATAA
*
12778035 TTTTGGACATCGTCATGCAGTGACAATTCTGGCCATAA
1 TTTTGAACATCGTCATGCAGTGACAATTCTGGCCATAA
*
12778073 TTCTGAA
1 TTTTGAA
12778080 TAGACTCATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (38 bp):
TTTTGAACATCGTCATGCAGTGACAATTCTGGCCATAA
Found at i:12788944 original size:20 final size:21
Alignment explanation
Indices: 12788898--12788946 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
12788888 TTTTTAATTT
*
12788898 TTCTTAATTATTTATTTATTG
1 TTCTTAAATATTTATTTATTG
*
12788919 TT-TTAAATATTTA-TTCTTG
1 TTCTTAAATATTTATTTATTG
12788938 TTCTTAAAT
1 TTCTTAAAT
12788947 TTCTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 16 0.64
21 2 0.08
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (21 bp):
TTCTTAAATATTTATTTATTG
Found at i:12795445 original size:5 final size:5
Alignment explanation
Indices: 12795425--12795461 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
12795415 TGTTTAATAT
12795425 AATTA AA-T- AATATA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AAT-TA AATTA AATTA AATTA AATTA AAT
12795462 AATTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.07
4 1 0.03
5 23 0.79
6 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:12795457 original size:15 final size:15
Alignment explanation
Indices: 12795418--12795461 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
12795408 TTCAAAATGT
12795418 TTAATAT-AATTAAA
1 TTAATATAAATTAAA
12795432 -TAATATAAATTAAA
1 TTAATATAAATTAAA
12795446 TTAA-ATTAAATTAAA
1 TTAATA-TAAATTAAA
12795461 T
1 T
12795462 AATTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.22
14 8 0.30
15 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAATATAAATTAAA
Found at i:12798164 original size:13 final size:13
Alignment explanation
Indices: 12798148--12798192 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
12798138 ATGTAATATA
12798148 AAAATTAACAAAT
1 AAAATTAACAAAT
12798161 AAAAAATTAA-AAGAT
1 --AAAATTAACAA-AT
12798176 AAAATTAACAAAT
1 AAAATTAACAAAT
12798189 AAAA
1 AAAA
12798193 AATTACAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 14 0.50
14 4 0.14
15 10 0.36
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAATTAACAAAT
Found at i:12798167 original size:15 final size:15
Alignment explanation
Indices: 12798142--12798197 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
12798132 AAATAAATGT
12798142 AATATAAAAATTAACA
1 AATA-AAAAATTAACA
12798158 AATAAAAAATTAA-A
1 AATAAAAAATTAACA
12798172 AGAT--AAAATTAACA
1 A-ATAAAAAATTAACA
12798186 AATAAAAAATTA
1 AATAAAAAATTA
12798198 CAAGGACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 10 0.28
14 4 0.11
15 18 0.50
16 4 0.11
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (15 bp):
AATAAAAAATTAACA
Found at i:12798385 original size:33 final size:33
Alignment explanation
Indices: 12798348--12798413 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
12798338 TTCTTTTAAC
*
12798348 AAATTTTATTATAAAATTAAAAGTTTAGATAAT
1 AAATTTTATCATAAAATTAAAAGTTTAGATAAT
12798381 AAATTTTATCATAAAATTAAAAGTTTAGATAAT
1 AAATTTTATCATAAAATTAAAAGTTTAGATAAT
12798414 GTAATTGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (33 bp):
AAATTTTATCATAAAATTAAAAGTTTAGATAAT
Found at i:12799547 original size:16 final size:15
Alignment explanation
Indices: 12799521--12799578 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
12799511 TGATAAGTTA
12799521 TTGACTTTTTTTTCTG
1 TTGA-TTTTTTTTCTG
*
12799537 TTGATTCTTTTTCTG
1 TTGATTTTTTTTCTG
* *
12799552 ATTGATAATTTTTT-TA
1 -TTGAT-TTTTTTTCTG
12799568 TTGATTTTTTT
1 TTGATTTTTTT
12799579 AAAATTTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 5 0.14
15 15 0.43
16 10 0.29
17 5 0.14
ACGTcount: A:0.14, C:0.07, G:0.10, T:0.69
Consensus pattern (15 bp):
TTGATTTTTTTTCTG
Done.