Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 676 of 770
Found at i:212891803 original size:39 final size:39
Alignment explanation
Indices: 212891719--212891871 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
212891709 TATGGTAACC
* * * * *
212891719 CGCACAAATGCCTTCGGGACTTAACTCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
212891759 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
212891798 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
212891837 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAT
212891872 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:212897736 original size:29 final size:29
Alignment explanation
Indices: 212897703--212897863 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
212897693 GTGACGAGAT
212897703 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
212897732 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
212897761 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * ***
212897790 TGGCACTAAGTGTGCAAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
212897819 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
212897848 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212897864 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:212905213 original size:29 final size:29
Alignment explanation
Indices: 212905149--212905308 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
212905139 GTGACGAGAT
212905149 TGGCACTAAGTGTGCGTGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
212905177 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
212905206 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
212905235 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
212905264 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
212905293 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
212905309 AAATCGAGTA
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
28 24 0.21
29 92 0.79
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:212925135 original size:40 final size:40
Alignment explanation
Indices: 212925069--212925235 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
212925059 AAATTGAATG
* * *
212925069 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
212925108 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
212925148 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
212925188 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
212925228 ATATCCGG
1 ATATCCGG
212925236 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:212929240 original size:40 final size:40
Alignment explanation
Indices: 212929195--212929361 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
212929185 CGGAATACAA
212929195 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
212929235 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
212929275 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
212929315 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
212929354 CCGGATAT
1 CCGGATAT
212929362 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:212936615 original size:30 final size:30
Alignment explanation
Indices: 212936559--212936717 Score: 213
Period size: 30 Copynumber: 5.5 Consensus size: 30
212936549 ATAGTGAATC
212936559 CGCACACTTAGTGCTATAT-A-TTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
212936587 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
212936617 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
212936646 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
212936674 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
212936704 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212936718 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
27 2 0.02
28 41 0.34
29 30 0.25
30 45 0.38
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:212936708 original size:87 final size:87
Alignment explanation
Indices: 212936559--212936717 Score: 239
Period size: 87 Copynumber: 1.8 Consensus size: 87
212936549 ATAGTGAATC
* * * * * *
212936559 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACAC
1 CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
212936624 TTAGTGCTATATATTTTCAGCT
66 TTAGTGCTATATATTTTCAGCT
*
212936646 CGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA
1 CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
212936710 CTTAGTGC
65 CTTAGTGC
212936718 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
86 2 0.03
87 62 0.97
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (87 bp):
CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGCT
Found at i:212937214 original size:18 final size:18
Alignment explanation
Indices: 212937191--212937227 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
212937181 CAATGGCCGA
212937191 ATATACTTGAAATTTTAC
1 ATATACTTGAAATTTTAC
212937209 ATATACTTGAAATTTTAC
1 ATATACTTGAAATTTTAC
212937227 A
1 A
212937228 AACATTCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATACTTGAAATTTTAC
Found at i:212944520 original size:29 final size:29
Alignment explanation
Indices: 212944488--212944588 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
212944478 ATAGTGAATC
*
212944488 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
212944517 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
212944545 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
212944575 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212944589 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:212944581 original size:30 final size:29
Alignment explanation
Indices: 212944487--212944588 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
212944477 TATAGTGAAT
* * *
212944487 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
212944516 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
212944544 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
212944574 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
212944589 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:212949645 original size:48 final size:47
Alignment explanation
Indices: 212949544--212949664 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
212949534 ATTATTGTGG
* **
212949544 GCTAGTGTAAGGCATGTCTGGGACAT-GCATCAGCCATGTTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCATGAGATGAGA
* * *
212949590 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGAGATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCAT-GAGATGAGA
* *
212949638 TCTAGTGTAAGACATGTCTCGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
212949665 CATTATCCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 10 0.16
47 32 0.51
48 21 0.33
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCATGAGATGAGA
Found at i:212953788 original size:28 final size:29
Alignment explanation
Indices: 212953756--212953854 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
212953746 ATAATAAGCC
*
212953756 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
212953784 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
212953812 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
212953841 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212953855 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:212961792 original size:28 final size:29
Alignment explanation
Indices: 212961760--212961858 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
212961750 ATAATAAGCC
*
212961760 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
212961788 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
212961816 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
212961845 CGCACACTTAGTGC
1 CGCACACTTAGTGC
212961859 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:212970628 original size:17 final size:18
Alignment explanation
Indices: 212970586--212970634 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
212970576 AGTTGAAAAG
212970586 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
212970605 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
212970622 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
212970635 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:212971523 original size:40 final size:40
Alignment explanation
Indices: 212971457--212971623 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
212971447 AAATTGAATG
* * *
212971457 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
212971496 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
212971536 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
212971576 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
212971616 ATATCCGG
1 ATATCCGG
212971624 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:212973740 original size:30 final size:30
Alignment explanation
Indices: 212973704--212973834 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
212973694 GACAAGATTG
* * * * *
212973704 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
212973734 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
212973762 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
212973792 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
212973821 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
212973835 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:212973795 original size:58 final size:58
Alignment explanation
Indices: 212973704--212973834 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
212973694 GACAAGATTG
* * * * * *
212973704 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
212973762 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
212973821 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
212973835 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:212977909 original size:53 final size:53
Alignment explanation
Indices: 212977714--212977968 Score: 207
Period size: 55 Copynumber: 4.8 Consensus size: 53
212977704 ATTAGGGTTT
* * * * *
212977714 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGTTAAAGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGT-AAG-TTCATAAGGA
** * *
212977769 AAGGATATTATGTAGGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGG-A
* * * * *
212977825 AA-GTTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
** * * * *
212977877 AAGGATACCATGTAAGACCATGTTGACACATGGAAATGGTAAGTT--TCA--A
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
* * *
212977926 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
212977969 GTACCCGTGT
Statistics
Matches: 161, Mismatches: 34, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
49 38 0.24
51 2 0.01
52 5 0.03
53 42 0.26
54 6 0.04
55 66 0.41
56 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
Found at i:212977920 original size:108 final size:110
Alignment explanation
Indices: 212977721--212977921 Score: 255
Period size: 108 Copynumber: 1.8 Consensus size: 110
212977711 TTTAAGGATA
* * ** *
212977721 CCATGTAAGACCATGCCAAGGCATGGAAATTGTTAAAGTTTCTAAGGCAAGGATATTATGTAGGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAAGTTTCTAAGGAAAGGATACCATGTAAGA
* * *
212977786 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGTTC
66 CCATGTCAACACATGGAAATGATAAGTTACTATAAGGCAAAGTTC
* *
212977831 CCATGTAAGACCATGCCAAGGCATGG-CATTGGT-GAG-TTCATAAGGAAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAAGTTTC-TAAGGAAAGGATACCATGTAAG
** *
212977893 ACCATGTTGACACATGGAAATGGTAAGTT
65 ACCATGTCAACACATGGAAATGATAAGTT
212977922 TCAAAAGGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 3 0.04
108 43 0.56
109 5 0.06
110 26 0.34
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAAGTTTCTAAGGAAAGGATACCATGTAAGA
CCATGTCAACACATGGAAATGATAAGTTACTATAAGGCAAAGTTC
Found at i:212981563 original size:30 final size:30
Alignment explanation
Indices: 212981529--212981589 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
212981519 TTCCCGAGCC
212981529 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
212981559 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
212981589 T
1 T
212981590 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:212981913 original size:18 final size:19
Alignment explanation
Indices: 212981880--212981915 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
212981870 TTAAATTTAG
*
212981880 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
212981899 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
212981916 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:212985451 original size:27 final size:28
Alignment explanation
Indices: 212985395--212985464 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
212985385 AAATTTGTAC
212985395 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
212985423 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
212985450 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
212985465 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:212985475 original size:27 final size:27
Alignment explanation
Indices: 212985395--212985476 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
212985385 AAATTTGTAC
* *
212985395 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
212985423 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
212985450 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
212985477 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:212999633 original size:40 final size:40
Alignment explanation
Indices: 212999589--212999698 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
212999579 TTCACAATTT
* *
212999589 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
212999629 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
212999669 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
212999699 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:213006721 original size:27 final size:28
Alignment explanation
Indices: 213006664--213006733 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
213006654 AAACTTGTAC
*
213006664 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
213006692 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
213006719 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
213006734 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:213006744 original size:27 final size:27
Alignment explanation
Indices: 213006664--213006745 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
213006654 AAACTTGTAC
* * *
213006664 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
213006692 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
213006719 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
213006746 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:213010470 original size:40 final size:40
Alignment explanation
Indices: 213010411--213010618 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
213010401 CAATTGAATG
* * * *
213010411 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
213010451 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
213010491 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* **
213010531 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
213010571 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
213010611 ATATCCGG
1 ATATCCGG
213010619 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:213010546 original size:80 final size:80
Alignment explanation
Indices: 213010413--213010618 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
213010403 ATTGAATGAT
* * ** * * *
213010413 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
213010477 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* *
213010493 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
213010558 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
213010573 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
213010619 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 104 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:213012330 original size:29 final size:29
Alignment explanation
Indices: 213012298--213012375 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
213012288 ATACCCTCCG
** **
213012298 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTACATTTCC
* *
213012327 AGCTTGCACACTTAGTGCCATACATTTCC
1 AGCTCGCACACTTAGTGCCGTACATTTCC
*
213012356 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
213012376 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.26
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTACATTTCC
Found at i:213028565 original size:29 final size:29
Alignment explanation
Indices: 213028504--213028602 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
213028494 ACAGTAAGTC
213028504 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
213028532 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
213028561 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
213028589 CGCACACTTAGTGC
1 CGCACACTTAGTGC
213028603 CAATCTCATT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:213033001 original size:43 final size:43
Alignment explanation
Indices: 213032844--213033002 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
213032834 TATGTGTTTT
*
213032844 CGTGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTA
* * * * * *
213032888 CGTGTAAGGCCATGTCTAGGATATCGGCATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
*
213032930 CGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTA
* * **
213032973 CATGTAAGACCACATCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
213033003 TGTACGACCT
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
42 28 0.30
43 36 0.39
44 28 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:213051051 original size:40 final size:39
Alignment explanation
Indices: 213050985--213051134 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
213050975 AAATTGAATG
* * *
213050985 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
213051024 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
213051063 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* *
213051103 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
213051135 ACTGATTATA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 41 0.45
40 45 0.49
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:213051069 original size:39 final size:40
Alignment explanation
Indices: 213050986--213051134 Score: 146
Period size: 39 Copynumber: 3.8 Consensus size: 40
213050976 AATTGAATGA
* * **
213050986 TATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGA-TAC
* * *
213051025 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATAC
* *
213051065 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATAC
*
213051104 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
213051135 ACTGATTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 44 0.48
40 42 0.46
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATAC
Found at i:213057525 original size:48 final size:47
Alignment explanation
Indices: 213057449--213057669 Score: 271
Period size: 48 Copynumber: 4.6 Consensus size: 47
213057439 TAAGGACCCA
* *
213057449 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCGTTGATATATGAGCCAG
* * *
213057497 TGTAAGACTATGTCTGGGACAGGTCATCGGGGTTGATATATGAGTCAG
1 TGTAAGACCATGTCTGGGACAGG-CATCGGCGTTGATATATGAGCCAG
* * *
213057545 TGTAAGACCATGTATGGGACAGGGCATCGGCATTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCGTTGATATATGAGCCAG
* * * *
213057593 TGTAAGACAATGTCTAGGACATGACATCGGCGTGGATATATGAGCCAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCGTTGATATATGAGCCAG
* *
213057641 TGTAAGACCAAGTTTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACA-GGCATCG
213057670 ACATTGACAT
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 2 0.01
48 144 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACAGGCATCGGCGTTGATATATGAGCCAG
Found at i:213057613 original size:96 final size:96
Alignment explanation
Indices: 213057449--213057676 Score: 330
Period size: 96 Copynumber: 2.4 Consensus size: 96
213057439 TAAGGACCCA
* ** * *
213057449 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAGCCAGTGTAAGACTATGTCTGG
1 TGTAAGACCATGTATGGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
* * * *
213057514 GACAGGTCATCGGGGTTGATATATGAGTCAG
66 GACAGGACATCGGCGTGGATATATGAGCCAG
*
213057545 TGTAAGACCATGTATGGGACAGGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
1 TGTAAGACCATGTATGGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
*
213057610 GACATGACATCGGCGTGGATATATGAGCCAG
66 GACAGGACATCGGCGTGGATATATGAGCCAG
* * *
213057641 TGTAAGACCAAGTTTGGGACATGGCATCGACATTGA
1 TGTAAGACCATGTATGGGACATGGCATCGGCATTGA
213057677 CATGAGATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 117 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTATGGGACATGGCATCGGCATTGATATGTGAGCCAGTGTAAGACAATGTCTAG
GACAGGACATCGGCGTGGATATATGAGCCAG
Found at i:213060095 original size:39 final size:40
Alignment explanation
Indices: 213060040--213060160 Score: 174
Period size: 39 Copynumber: 3.0 Consensus size: 40
213060030 CGGATGATAA
*
213060040 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * *
213060080 CCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
213060119 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATAT
213060159 CC
1 CC
213060161 AGCTAAATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.51
40 35 0.49
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:213060142 original size:40 final size:40
Alignment explanation
Indices: 213060036--213060157 Score: 183
Period size: 40 Copynumber: 3.1 Consensus size: 40
213060026 TATTCGGATG
* *
213060036 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
* *
213060076 ATATCCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
* *
213060115 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
213060155 ATA
1 ATA
213060158 TCCAGCTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 36 0.49
40 38 0.51
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
Found at i:213060414 original size:11 final size:11
Alignment explanation
Indices: 213060398--213060422 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
213060388 TTTGAGAATA
213060398 TTTGTAAAGGG
1 TTTGTAAAGGG
213060409 TTTGTAAAGGG
1 TTTGTAAAGGG
213060420 TTT
1 TTT
213060423 CTTGATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (11 bp):
TTTGTAAAGGG
Found at i:213064236 original size:40 final size:40
Alignment explanation
Indices: 213064177--213064255 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
213064167 CGGATGATAA
*
213064177 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
*
213064217 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATA
213064256 ACTGTAACAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
Found at i:213067156 original size:40 final size:40
Alignment explanation
Indices: 213067102--213067216 Score: 194
Period size: 40 Copynumber: 2.9 Consensus size: 40
213067092 AAATCAGGAT
*
213067102 GTTACAATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 GTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
213067142 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 GTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
* *
213067182 GTTGCTATAACCGGGCTAAGTACCGAAGGCATTTG
1 GTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
213067217 AGCAAGTAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
Found at i:213067229 original size:40 final size:40
Alignment explanation
Indices: 213067108--213067249 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
213067098 GGATGTTACA
213067108 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCT
* *
213067148 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCT
* * *
213067188 ATAACCGGGCTAAGTACCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCT
* * *
213067228 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
213067250 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 15 0.16
40 76 0.84
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCT
Found at i:213071072 original size:80 final size:80
Alignment explanation
Indices: 213070988--213071136 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
213070978 TATGGTAACC
* * * *
213070988 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
213071052 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
213071068 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
213071133 CCGG
66 CCGG
213071137 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:213071078 original size:40 final size:38
Alignment explanation
Indices: 213071029--213071136 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
213071019 ATCACGATTT
*
213071029 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
213071069 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
213071109 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
213071137 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:213080910 original size:40 final size:39
Alignment explanation
Indices: 213080844--213080989 Score: 138
Period size: 40 Copynumber: 3.8 Consensus size: 39
213080834 AAATTGAATG
*
213080844 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * ****
213080883 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * *
213080923 ACATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAAATT
*
213080961 CTATCCGGGCTAAGACCCGAAGGC-ATTTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTTG
213080990 TGCACTGTTA
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
37 1 0.01
38 29 0.34
39 16 0.19
40 40 0.47
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAAATT
Found at i:213081004 original size:38 final size:39
Alignment explanation
Indices: 213080881--213081006 Score: 148
Period size: 38 Copynumber: 3.3 Consensus size: 39
213080871 ATGCTGGAAA
* * * *
213080881 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACT-G
* * * *
213080921 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAC-A
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACTG
*
213080959 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACTG
213080997 TTATATCCGG
1 TTATATCCGG
213081007 TTATATTCCG
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
37 2 0.03
38 39 0.55
40 30 0.42
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGACTG
Found at i:213088899 original size:40 final size:40
Alignment explanation
Indices: 213088833--213088983 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
213088823 AAATTGAATG
* * *
213088833 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
213088872 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
213088912 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
213088952 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
213088984 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:213088997 original size:40 final size:40
Alignment explanation
Indices: 213088870--213088999 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
213088860 ATGCTGGAAA
* * *
213088870 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
213088910 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
213088950 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
213088990 TTATATCCGG
1 TTATATCCGG
213089000 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:213090417 original size:33 final size:33
Alignment explanation
Indices: 213090355--213090419 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
213090345 GGGTGTTACA
*
213090355 AGTCTGGGCCAAAGCCCTATTCAGTATCAGTAC
1 AGTCTGGGCCAAAGCCCTATTCAGAATCAGTAC
*
213090388 AGTCTGGGCCTAAGCCCTATAT-AGAATCAGTA
1 AGTCTGGGCCAAAGCCCTAT-TCAGAATCAGTA
213090420 TTGTAACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
AGTCTGGGCCAAAGCCCTATTCAGAATCAGTAC
Found at i:213091915 original size:79 final size:79
Alignment explanation
Indices: 213091804--213092028 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 79
213091794 GCTACTCGTT
* * * *
213091804 CAAATGCCTTCGGGACATATCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
213091869 ATTTAGTAACTCGCA
65 ATTTAGTAACTCCCA
*
213091884 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
213091947 GATTTAGTAACTCCCA
64 GATTTAGTAACTCCCA
* * * * *
213091963 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
213092027 GA
64 GA
213092029 CATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 4 0.03
79 65 0.51
80 46 0.36
81 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCCCA
Found at i:213092028 original size:40 final size:40
Alignment explanation
Indices: 213091804--213092028 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
213091794 GCTACTCGTT
* * *
213091804 CAAATGCCTTCGGGACATATCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
213091844 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
213091884 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
213091923 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCCCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
213091963 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
213092004 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
213092029 CATCATTCGA
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.73
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:213093870 original size:39 final size:40
Alignment explanation
Indices: 213093816--213093921 Score: 196
Period size: 40 Copynumber: 2.7 Consensus size: 40
213093806 CTTGCACAAT
213093816 TGCCTTCGGGTCTTAGCCCGGATATAACAA-CCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACCCGCACGAA
*
213093855 TGCCTTCAGGTCTTAGCCCGGATATAACAACCCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACCCGCACGAA
213093895 TGCCTTCGGGTCTTAGCCCGGATATAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA
213093922 TCACTAGCAT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 29 0.45
40 35 0.55
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACCCGCACGAA
Found at i:213093937 original size:40 final size:39
Alignment explanation
Indices: 213093756--213093955 Score: 179
Period size: 40 Copynumber: 5.0 Consensus size: 39
213093746 GATTCAACCA
* * * *
213093756 GATATAACCACAAGCACAATTGCCTTTGGGTCTTAACCCG
1 GATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * * *
213093796 GATTTGGTA-ACTTGCACAATTGCCTTCGGGTCTTAGCCCG
1 GATAT--AACACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
213093836 GATATAACAAC-CGCACGAATGCCTTCAGGTCTTAGCCCG
1 GATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCG
** *
213093875 GATATAACAACCCGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
213093915 GATATAATCACTAGCATAAATGCCTTCGAGACTTAGCCCG
1 GATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCG
213093955 G
1 G
213093956 GTATCATTCA
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 35 0.26
40 97 0.72
41 1 0.01
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
GATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:213096891 original size:40 final size:40
Alignment explanation
Indices: 213096832--213097039 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
213096822 CAATTGAATG
* * * *
213096832 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
213096872 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * **
213096912 ACATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
213096952 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
213096992 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
213097032 ATATCCGG
1 ATATCCGG
213097040 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:213096970 original size:80 final size:80
Alignment explanation
Indices: 213096834--213097039 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
213096824 ATTGAATGAT
* ** * * *
213096834 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
213096898 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
213096914 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
213096979 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
213096994 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
213097040 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:213105193 original size:40 final size:40
Alignment explanation
Indices: 213105133--213105295 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
213105123 CGGGATTCAA
* ** *
213105133 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
213105173 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
213105213 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
213105253 CCGGATATAATC-ACTAGCATAAATGCCTTC-GGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
213105292 CCGG
1 CCGG
213105296 GTATCATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
39 14 0.13
40 87 0.84
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:213105280 original size:80 final size:79
Alignment explanation
Indices: 213105133--213105295 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 79
213105123 CGGGATTCAA
* * ** * *
213105133 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
213105198 CCTTCGGGTCTTAGC
66 CCTTC-GGACTTAGC
** * * *
213105213 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
213105277 GCCTTCGGACTTAGC
65 GCCTTCGGACTTAGC
213105292 CCGG
1 CCGG
213105296 GTATCATTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 12 0.17
80 56 0.80
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGGACTTAGC
Found at i:213112242 original size:19 final size:20
Alignment explanation
Indices: 213112218--213112255 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
213112208 GGTACCACCA
213112218 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
213112237 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
213112256 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:213112596 original size:47 final size:49
Alignment explanation
Indices: 213112479--213112653 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 49
213112469 AACCCGCCCC
* * *
213112479 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
*
213112525 TAA-TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
213112572 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
213112617 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
213112654 TCAACCATCC
Statistics
Matches: 110, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 30 0.27
46 32 0.29
47 32 0.29
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:213112653 original size:93 final size:92
Alignment explanation
Indices: 213112484--213112653 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
213112474 GCCCCTAAGT
* *
213112484 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
213112549 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
213112576 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
213112641 CGAGTTCGGATGC
65 CGAGTTCGGATGC
213112654 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:213119769 original size:19 final size:20
Alignment explanation
Indices: 213119745--213119782 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
213119735 TGGTACACCA
213119745 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
213119764 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
213119783 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:213120119 original size:92 final size:93
Alignment explanation
Indices: 213120008--213120177 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
213119998 CCCCCTAAGT
* *
213120008 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA-TGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
213120072 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
213120100 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
213120165 CGAGTTCGGATGC
66 CGAGTTCGGATGC
213120178 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:213120120 original size:47 final size:49
Alignment explanation
Indices: 213120003--213120177 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 49
213119993 GTAACCCCCC
* * *
213120003 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
*
213120049 TAA-TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
213120096 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
213120141 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
213120178 TCAACCATCC
Statistics
Matches: 110, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 30 0.27
46 32 0.29
47 32 0.29
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:213123132 original size:29 final size:29
Alignment explanation
Indices: 213123045--213123163 Score: 125
Period size: 29 Copynumber: 4.2 Consensus size: 29
213123035 GTGAGCATGA
**
213123045 ATAT-AATGTGATTTGGGCCTAATGGTTC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
213123073 ACATAAATGTGATTTAGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
213123102 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * * * *
213123131 ATGTGAATAT-AATTGGGTCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
213123159 ATATA
1 ATATA
213123164 TTTGTCTAGG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
28 21 0.28
29 53 0.72
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:213128023 original size:29 final size:29
Alignment explanation
Indices: 213127991--213128093 Score: 188
Period size: 29 Copynumber: 3.6 Consensus size: 29
213127981 CTCCGAGCTT
213127991 GCACACTTAGTGCCAAATATTTCCAGCAC
1 GCACACTTAGTGCCAAATATTTCCAGCAC
*
213128020 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCAAATATTTCCAGCAC
*
213128049 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCAAATATTTCCAGCAC
213128078 GCACACTTAGTGCCAA
1 GCACACTTAGTGCCAA
213128094 TCTCGTCACC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
GCACACTTAGTGCCAAATATTTCCAGCAC
Found at i:213128023 original size:58 final size:58
Alignment explanation
Indices: 213127932--213128092 Score: 182
Period size: 58 Copynumber: 2.8 Consensus size: 58
213127922 TACTCGATTT
** * * ** * *
213127932 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATACCTCC-AGCA
* **
213127990 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAGCA
*
213128048 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCA
213128093 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 4 0.05
58 81 0.92
59 3 0.03
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAGCA
Found at i:213136724 original size:27 final size:27
Alignment explanation
Indices: 213136686--213136801 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
213136676 CTAGGCAAAT
*
213136686 CAGTCATTTTACCTTACAGGGGTATTA
1 CAGTCATTTTACCCTACAGGGGTATTA
* * *
213136713 CAGTCATTTTACCCTATAGGGATATTT
1 CAGTCATTTTACCCTACAGGGGTATTA
** * *
213136740 TGGTCATTCTACCTTACAGGGGTATTTA
1 CAGTCATTTTACCCTACAGGGGTA-TTA
* * * * *
213136768 -GGTCATCTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTACAGGGGTATTA
213136794 CAGTCATT
1 CAGTCATT
213136802 CTATCACATA
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 2 0.03
27 64 0.94
28 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCCTACAGGGGTATTA
Found at i:213136773 original size:54 final size:54
Alignment explanation
Indices: 213136685--213136804 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
213136675 TCTAGGCAAA
* *
213136685 TCAGTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTAT-AGGGATATT
1 TCAGTCATTCTACCTTACAGGGGTATTACAGTCATCTTACCCTATAAGGG-TATT
** *
213136739 TTGGTCATTCTACCTTACAGGGGTATTTA-GGTCATCTTACCCTATAAGGGTATT
1 TCAGTCATTCTACCTTACAGGGGTA-TTACAGTCATCTTACCCTATAAGGGTATT
213136793 TCAGTCATTCTA
1 TCAGTCATTCTA
213136805 TCACATAAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 50 0.88
55 7 0.12
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (54 bp):
TCAGTCATTCTACCTTACAGGGGTATTACAGTCATCTTACCCTATAAGGGTATT
Found at i:213136826 original size:27 final size:27
Alignment explanation
Indices: 213136796--213137031 Score: 337
Period size: 27 Copynumber: 8.7 Consensus size: 27
213136786 GGGTATTTCA
*
213136796 GTCATTCTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
213136823 GTCATTTTATCATATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
213136850 GTCATCTTATTACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
**
213136877 GTCATTTTATCACATAAGGATAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
213136904 ATCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
213136931 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
213136958 GTCATTTTATCACATAAGGGCAATATT
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
213136985 GTCATTTTATCACATAAAGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
*
213137012 TTCATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
213137032 TTCAGGTATG
Statistics
Matches: 185, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 185 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:213136854 original size:81 final size:80
Alignment explanation
Indices: 213136769--213137032 Score: 314
Period size: 81 Copynumber: 3.3 Consensus size: 80
213136759 GGGTATTTAG
* ** *
213136769 GTCATCTTA-CCCTATAAGGGTATTTCAGTCATTCTATCACATAAGGGCAAAATCGTCATTTTAT
1 GTCATCTTATCAC-ATAAGGGTAAATC-GTCATTTTATCACATAAGGGCAAAATCGTCATTTTAT
*
213136833 CATATAAGGGAAAAATC
64 CACATAAGGGAAAAATC
* * ** *
213136850 GTCATCTTATTACATAAGGGCAAAATCGTCATTTTATCACATAAGGATAAAATCATCATTTTATC
1 GTCATCTTATCACATAAGGG-TAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
*
213136915 ACATAAGGGCAAAATC
65 ACATAAGGGAAAAATC
* * *
213136931 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGCAATATTGTCATTTTATC
1 GTCATCTTATCACATAAGGGT-AAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
* * *
213136996 ACATAAAGGTAAAATT
65 ACATAAGGGAAAAATC
* *
213137012 TTCATTTTATCACATAAGGGT
1 GTCATCTTATCACATAAGGGT
213137033 TCAGGTATGC
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
81 153 0.97
82 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (80 bp):
GTCATCTTATCACATAAGGGTAAATCGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCA
CATAAGGGAAAAATC
Found at i:213139113 original size:20 final size:18
Alignment explanation
Indices: 213139066--213139173 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 18
213139056 CAAGATAAAC
213139066 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
213139083 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
* *
213139103 ATTAAATTAATATAATACT
1 ATTAAATTAATAT-TTAAT
*
213139122 ATTAAGATAAATA-TTAA-
1 ATTAA-ATTAATATTTAAT
* *
213139139 ATTAAGTTTAATATTAAACT
1 ATTAA-ATTAATATTTAA-T
*
213139159 ATTAAAATAATATTT
1 ATTAAATTAATATTT
213139174 TTTTGGAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
17 19 0.27
18 7 0.10
19 18 0.26
20 26 0.37
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:213139117 original size:25 final size:26
Alignment explanation
Indices: 213139078--213139138 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
213139068 TAAATTAAAT
213139078 TTAATATTAAGATAATCACT-TTAATA
1 TTAATATTAAGATAAT-ACTATTAATA
* *
213139104 TTAA-ATTAATATAATACTATTAAGA
1 TTAATATTAAGATAATACTATTAATA
*
213139129 TAAATATTAA
1 TTAATATTAA
213139139 ATTAAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 18 0.60
26 9 0.30
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (26 bp):
TTAATATTAAGATAATACTATTAATA
Found at i:213139144 original size:17 final size:16
Alignment explanation
Indices: 213139099--213139156 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
213139089 ATAATCACTT
*
213139099 TAATATTAAATTAATA
1 TAATATTAAATTAAGA
*
213139115 TAATACT--ATTAAGA
1 TAATATTAAATTAAGA
*
213139129 TAAATATTAAATTAAGTT
1 T-AATATTAAATTAAG-A
213139147 TAATATTAAA
1 TAATATTAAA
213139157 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 6 0.18
17 15 0.44
18 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATATTAAATTAAGA
Found at i:213141303 original size:25 final size:25
Alignment explanation
Indices: 213141245--213141328 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 25
213141235 GCCATTAATT
* * **
213141245 GGGAAGCTCATGAGAGCCAAATATT
1 GGGACGCTCATAAGAGCCAAATAAC
* * * *
213141270 AGGAAGCTCGTAAGAGCCATATAAC
1 GGGACGCTCATAAGAGCCAAATAAC
* *
213141295 GGGATGCTCATAAGAGCTAAATAAC
1 GGGACGCTCATAAGAGCCAAATAAC
213141320 GGGACGCTC
1 GGGACGCTC
213141329 TTGCAAGCTG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (25 bp):
GGGACGCTCATAAGAGCCAAATAAC
Found at i:213148070 original size:47 final size:47
Alignment explanation
Indices: 213148009--213148129 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
213147999 ATAATATCTT
* *
213148009 ATTTGGCTATGGGCCATGGTATAGGTATTCA-GAGAGGAGTTA-CATTG
1 ATTTGGCTACGGGCCATGGTATAGGTATTCAGGA-AGAAGTTAGC-TTG
* * *
213148056 ATTTGGCTACGGGCCATGGTATAGGTATTCCGGAATAATTTAGCTTG
1 ATTTGGCTACGGGCCATGGTATAGGTATTCAGGAAGAAGTTAGCTTG
* *
213148103 ATTTGGTTACGAGCCATGGTATAGGTA
1 ATTTGGCTACGGGCCATGGTATAGGTA
213148130 CTTATCGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 62 0.95
48 3 0.05
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (47 bp):
ATTTGGCTACGGGCCATGGTATAGGTATTCAGGAAGAAGTTAGCTTG
Found at i:213153253 original size:15 final size:15
Alignment explanation
Indices: 213153229--213153260 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
213153219 TATGCAAGAA
*
213153229 AAATATAAAAGACAT
1 AAATACAAAAGACAT
213153244 AAATACAAAAGACAT
1 AAATACAAAAGACAT
213153259 AA
1 AA
213153261 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:213162633 original size:24 final size:25
Alignment explanation
Indices: 213162606--213162683 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 25
213162596 ATGCTCATAC
* *
213162606 GAGCT-AGAATCGGTATGCTCTCAT
1 GAGCTAAGAATTGGTAAGCTCTCAT
*
213162630 GAGCTAAAAATTGGTAAG--CTCAT
1 GAGCTAAGAATTGGTAAGCTCTCAT
*
213162653 AGAGCTAAGAATTGGGAAGCTCTCAT
1 -GAGCTAAGAATTGGTAAGCTCTCAT
213162679 GAGCT
1 GAGCT
213162684 GAAGCTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.11
24 21 0.47
25 14 0.31
26 5 0.11
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (25 bp):
GAGCTAAGAATTGGTAAGCTCTCAT
Found at i:213162675 original size:49 final size:49
Alignment explanation
Indices: 213162598--213162708 Score: 145
Period size: 49 Copynumber: 2.3 Consensus size: 49
213162588 GTACATGTAT
* * *
213162598 GCTCATACGAGCT-AGAATCGGTATGCTCTCATGAGCTAAAAATTGGTAA
1 GCTCATACGAGCTAAGAATCGGGAAGCTCTCATGAGCT-AAAACTGGTAA
* * *
213162647 GCTCATA-GAGCTAAGAATTGGGAAGCTCTCATGAGCTGAAGCTGGTAA
1 GCTCATACGAGCTAAGAATCGGGAAGCTCTCATGAGCTAAAACTGGTAA
213162695 GCTCATACGAGCTA
1 GCTCATACGAGCTA
213162709 TGGTGTGTCC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
48 20 0.37
49 34 0.63
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (49 bp):
GCTCATACGAGCTAAGAATCGGGAAGCTCTCATGAGCTAAAACTGGTAA
Found at i:213162706 original size:24 final size:23
Alignment explanation
Indices: 213162641--213162708 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 23
213162631 AGCTAAAAAT
*
213162641 TGGTAAGCTCATAGAGCTAAGAAT
1 TGGTAAGCTCATAGAGCTAAG-AC
*
213162665 TGGGAAGCTC-TCATGAGCTGAAG-C
1 TGGTAAGCTCAT-A-GAGCT-AAGAC
213162689 TGGTAAGCTCATACGAGCTA
1 TGGTAAGCTCATA-GAGCTA
213162709 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
23 2 0.06
24 25 0.69
25 6 0.17
26 3 0.08
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (23 bp):
TGGTAAGCTCATAGAGCTAAGAC
Found at i:213163607 original size:8 final size:8
Alignment explanation
Indices: 213163594--213163635 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
213163584 TATCATTTAT
213163594 TTACTTAA
1 TTACTTAA
213163602 TTACTTAA
1 TTACTTAA
*
213163610 TTAACCT--
1 TT-ACTTAA
213163617 TTACTTAA
1 TTACTTAA
213163625 TTACTTAA
1 TTACTTAA
213163633 TTA
1 TTA
213163636 ACCTTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 3 0.10
7 2 0.07
8 21 0.72
9 3 0.10
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (8 bp):
TTACTTAA
Found at i:213163619 original size:23 final size:23
Alignment explanation
Indices: 213163593--213163642 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
213163583 TTATCATTTA
213163593 TTTACTTAATTACTTAATTAACC
1 TTTACTTAATTACTTAATTAACC
213163616 TTTACTTAATTACTTAATTAACC
1 TTTACTTAATTACTTAATTAACC
213163639 TTTA
1 TTTA
213163643 TAAACTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTACTTAATTACTTAATTAACC
Found at i:213177979 original size:38 final size:39
Alignment explanation
Indices: 213177866--213178008 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
213177856 CCGCACAAAG
*
213177866 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
213177906 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
213177945 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
213177983 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
213178009 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:213177987 original size:77 final size:79
Alignment explanation
Indices: 213177826--213178007 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
213177816 TCGTTCAAAC
* * **
213177826 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
213177891 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
213177906 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
213177969 CAATTTGCACAATT
66 CAATTTGCACAATT
213177983 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
213178008 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:213185185 original size:38 final size:39
Alignment explanation
Indices: 213185072--213185214 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
213185062 CCGCACAAAG
*
213185072 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
213185112 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
213185151 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
213185189 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
213185215 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:213185193 original size:77 final size:79
Alignment explanation
Indices: 213185032--213185213 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
213185022 TCGTTCAAAC
* * **
213185032 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
213185097 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
213185112 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
213185175 CAATTTGCACAATT
66 CAATTTGCACAATT
213185189 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
213185214 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:213192377 original size:38 final size:39
Alignment explanation
Indices: 213192255--213192397 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
213192245 CCGCACAAAG
* *
213192255 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTTGCACAATT
* *
213192295 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATT
*
213192334 GCCTTCGGGCTTAGCCCGGGTATCACAA-TTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATT
213192372 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
213192398 TCGAACATTC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 34 0.36
39 52 0.55
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATT
Found at i:213192385 original size:77 final size:79
Alignment explanation
Indices: 213192215--213192396 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 79
213192205 TCGTTCAAAC
* * **
213192215 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
213192280 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
213192295 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
213192359 CAA-TTGCACAATT
66 CAATTTGCACAATT
213192372 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
213192397 CTCGAACATT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 35 0.38
78 17 0.18
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:213199943 original size:40 final size:40
Alignment explanation
Indices: 213199851--213200000 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
213199841 AATTGAATGA
* * * *
213199851 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAAT-T
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
213199890 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
213199931 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
213199970 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
213200001 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 54 0.59
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:213200014 original size:40 final size:40
Alignment explanation
Indices: 213199890--213200016 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
213199880 GCTGGAAATT
* * * * *
213199890 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
213199930 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
213199970 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
213200010 TATCCGG
1 TATCCGG
213200017 TTATATTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:213209811 original size:71 final size:71
Alignment explanation
Indices: 213209695--213209858 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
213209685 CGATTTGTCT
*
213209695 CGTAGCTCTCTTGTCTACGTGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
213209760 CTTTCA
66 CTTTCA
213209766 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
213209831 CTTTCA
66 CTTTCA
213209837 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
213209859 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:213209896 original size:71 final size:70
Alignment explanation
Indices: 213209695--213209892 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
213209685 CGATTTGTCT
* * * * *
213209695 CGTAGCTCTCTTGTCTACGTGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
213209760 CTTTCA
65 CTTTCA
* * * *
213209766 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
213209831 CTTTCA
65 CTTTCA
* *
213209837 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
213209893 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:213214284 original size:40 final size:40
Alignment explanation
Indices: 213214218--213214384 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
213214208 AAATTGAATG
* * *
213214218 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
213214257 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
213214297 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
213214337 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
213214377 ATATCCGG
1 ATATCCGG
213214385 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:213233834 original size:46 final size:46
Alignment explanation
Indices: 213233784--213233959 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
213233774 ATGGTTGGCA
213233784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
213233830 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
213233877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
213233923 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
213233960 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:213233939 original size:93 final size:93
Alignment explanation
Indices: 213233780--213233951 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
213233770 TAGGATGGTT
* *
213233780 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
213233845 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
213233873 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
213233938 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
213233952 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:213236934 original size:15 final size:15
Alignment explanation
Indices: 213236914--213236982 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
213236904 GTATCTTGGG
213236914 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
213236929 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
213236944 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
213236959 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
213236974 TTTCTTTAT
1 TTTCTTTAT
213236983 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:213236983 original size:30 final size:30
Alignment explanation
Indices: 213236905--213236992 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
213236895 CATAGTATCG
* * * *
213236905 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
213236935 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
213236965 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
213236993 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:213239324 original size:46 final size:46
Alignment explanation
Indices: 213239274--213239449 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
213239264 ATGGTTGGCA
213239274 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
213239320 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
213239367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
213239413 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
213239450 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:213239429 original size:93 final size:93
Alignment explanation
Indices: 213239270--213239441 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
213239260 TAGGATGGTT
* *
213239270 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
213239335 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
213239363 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
213239428 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
213239442 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:213242740 original size:2 final size:2
Alignment explanation
Indices: 213242733--213242771 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
213242723 TATGTGCAAA
* *
213242733 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
213242772 AAATATACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:213242936 original size:2 final size:2
Alignment explanation
Indices: 213242931--213242987 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
213242921 AACTAATGGC
* * *
213242931 AT AT AT AC AT A- AT AT AT AT AT AT A- AT AC AC AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
213242970 AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT
213242988 TAGAAATGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:213243520 original size:11 final size:12
Alignment explanation
Indices: 213243504--213243540 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
213243494 AAGAAAAAAA
213243504 GGAAGAGAG-AG
1 GGAAGAGAGAAG
213243515 GGAAGAGAGAAG
1 GGAAGAGAGAAG
213243527 GG-AGAGAGAAG
1 GGAAGAGAGAAG
213243538 GGA
1 GGA
213243541 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:213243541 original size:11 final size:11
Alignment explanation
Indices: 213243502--213243551 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
213243492 GAAAGAAAAA
*
213243502 AAGGAAGAGAG
1 AAGGGAGAGAG
213243513 -AGGGAAGAGAG
1 AAGGG-AGAGAG
213243524 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
213243535 AAGGGAGGGGG
1 AAGGGAGAGAG
213243546 AAGGGA
1 AAGGGA
213243552 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:213243848 original size:14 final size:15
Alignment explanation
Indices: 213243813--213243848 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
213243803 TTTTTGGTTT
213243813 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
213243828 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
213243842 TTTTTTT
1 TTTTTTT
213243849 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:213243849 original size:15 final size:16
Alignment explanation
Indices: 213243812--213243849 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
213243802 TTTTTTGGTT
213243812 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
213243828 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
213243842 TTTTTTTT
1 TTTTTTTT
213243850 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:213243865 original size:32 final size:33
Alignment explanation
Indices: 213243810--213243883 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
213243800 TTTTTTTTGG
*
213243810 TTTTTTTTT-TGCTGGAAATTTTTTTCTGGAAA
1 TTTTTTTTTGTGCTGGAAATTTTTTGCTGGAAA
**
213243842 TTTTTTTTTGGTGCTGG-AA-TTTTTGCTGGATT
1 TTTTTTTTT-GTGCTGGAAATTTTTTGCTGGAAA
213243874 TTTTTTTTTG
1 TTTTTTTTTG
213243884 CTTCCCCTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 1 0.03
32 28 0.76
33 2 0.05
34 6 0.16
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.64
Consensus pattern (33 bp):
TTTTTTTTTGTGCTGGAAATTTTTTGCTGGAAA
Found at i:213244328 original size:35 final size:34
Alignment explanation
Indices: 213244287--213244400 Score: 185
Period size: 35 Copynumber: 3.3 Consensus size: 34
213244277 TGGGGTGTGT
*
213244287 GATGGTGCTGGCGGCAGACAGCATGGGAGAGTGG
1 GATGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
213244321 GAGTGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
1 GA-TGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
213244356 GAATGGTGCTGGTGGCAGACAGCAT-GGAGAGTGG
1 G-ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
*
213244390 GAAGGTGCTGG
1 GATGGTGCTGG
213244401 GAGTCTAGGG
Statistics
Matches: 76, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
33 9 0.12
34 12 0.16
35 54 0.71
36 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.50, T:0.17
Consensus pattern (34 bp):
GATGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
Found at i:213245172 original size:48 final size:50
Alignment explanation
Indices: 213245096--213245242 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 50
213245086 ATATGACCTA
**
213245096 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
213245144 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
213245198 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
213245243 GGAATTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 37 0.44
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:213245478 original size:147 final size:140
Alignment explanation
Indices: 213245299--213245887 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
213245289 TCAACTCACC
213245299 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
213245364 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGC
213245429 TCAACTCACCTCTCGCAA
123 TCAACTCACCTCTCGCAA
*
213245447 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
213245512 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
*
213245577 CCTCTCGCCA
131 CCTCTCGCAA
*
213245587 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
213245652 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
59 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
*
213245717 TAACTCACCTCTCGCAA
124 CAACTCACCTCTCGCAA
213245734 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
213245799 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
213245864 CCTCTCGCAA
131 CCTCTCGCAA
*
213245874 TGTGAGTTGATTTT
1 TATGAGTTGATTTT
213245888 CTGTCACTTG
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 196 0.46
142 2 0.00
143 2 0.00
144 1 0.00
145 1 0.00
147 211 0.50
148 10 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (140 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
CCTCTCGCAA
Found at i:213245511 original size:70 final size:70
Alignment explanation
Indices: 213245398--213245887 Score: 863
Period size: 70 Copynumber: 6.9 Consensus size: 70
213245388 CATAAATTGA
*
213245398 AAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
213245463 AACAT
66 AACAT
*
213245468 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
213245533 AACAT
66 AACAT
*
213245538 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
213245603 AACATAAATT
66 AAC----A-T
*
213245613 GAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
213245678 GAAACAT
64 GAAACAT
*
213245685 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
213245750 AACAT
66 AACAT
213245755 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
213245820 AACAT
66 AACAT
*
213245825 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
213245888 CTGTCACTTG
Statistics
Matches: 403, Mismatches: 10, Indels: 14
0.94 0.02 0.03
Matches are distributed among these distances:
70 333 0.83
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
77 66 0.16
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (70 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AACAT
Found at i:213245583 original size:217 final size:217
Alignment explanation
Indices: 213245299--213245887 Score: 1093
Period size: 217 Copynumber: 2.7 Consensus size: 217
213245289 TCAACTCACC
213245299 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
213245364 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
213245429 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
213245494 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
213245517 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
213245582 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
213245647 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
213245712 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
213245734 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
213245799 CGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
*
213245857 CAACTCACCTCTCGCAATGTGAGTTGATTTT
131 CAACTCACCTCTCGCAATATGAGTTGATTTT
213245888 CTGTCACTTG
Statistics
Matches: 368, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 61 0.17
212 1 0.00
213 1 0.00
217 295 0.80
218 10 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:213251672 original size:2 final size:2
Alignment explanation
Indices: 213251660--213251702 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
213251650 TATTACTATT
* * *
213251660 TA TA TA CA TA TA TA TA TA TA TA TA TA TA T- TT TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
213251701 TA
1 TA
213251703 CTCTTAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:213253021 original size:24 final size:25
Alignment explanation
Indices: 213252972--213253027 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
213252962 TTTATTAACC
* *
213252972 TTATTTAAATGTTTCATTTATATG-
1 TTATTTAAATATTTCATATATATGT
*
213252996 TTATTTCAAATATTTTATATAT-TGT
1 TTATTT-AAATATTTCATATATATGT
213253021 TTATTTA
1 TTATTTA
213253028 CATCATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (25 bp):
TTATTTAAATATTTCATATATATGT
Found at i:213253111 original size:3 final size:3
Alignment explanation
Indices: 213253098--213253173 Score: 134
Period size: 3 Copynumber: 25.0 Consensus size: 3
213253088 TTATTGTAGA
*
213253098 TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
213253144 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
213253174 ATATGCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:213253403 original size:31 final size:31
Alignment explanation
Indices: 213253355--213253419 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
213253345 CCATCCTATG
* *
213253355 TATATATTTTTTAAATACTATATTGTGTATA
1 TATATATTTCTTAAATACCATATTGTGTATA
213253386 TATATATATTCTT-AATACCATATTGTGTATA
1 TATATAT-TTCTTAAATACCATATTGTGTATA
213253417 TAT
1 TAT
213253420 CATTATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATATATTTCTTAAATACCATATTGTGTATA
Found at i:213257616 original size:1 final size:1
Alignment explanation
Indices: 213257601--213257661 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
213257591 GACAGTCATG
* * * * * *
213257601 AAAAGAAAAAGAAAAAAAACAAAAAACAAAAAGAAAAAAAGAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
213257662 TCAAATGCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:213257626 original size:22 final size:21
Alignment explanation
Indices: 213257601--213257666 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
213257591 GACAGTCATG
*
213257601 AAAAGAAAAAGAAAAAAAACA
1 AAAAAAAAAAGAAAAAAAACA
213257622 AAAAACAAAAAGAAAAAAAGA-A
1 AAAAA-AAAAAGAAAAAAA-ACA
213257644 AAAAAAAAAA-AAAAAAAATCA
1 AAAAAAAAAAGAAAAAAAA-CA
213257665 AA
1 AA
213257667 TGCCAGAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 1 0.03
20 7 0.17
21 12 0.30
22 19 0.47
23 1 0.03
ACGTcount: A:0.88, C:0.05, G:0.06, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAAAACA
Found at i:213259931 original size:73 final size:73
Alignment explanation
Indices: 213259810--213260045 Score: 337
Period size: 73 Copynumber: 3.2 Consensus size: 73
213259800 TTGATGTTTT
*
213259810 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
*
213259875 TAATTTCA
66 TATTTTCA
* * ** * * * *
213259883 ATTTCTGTTTGTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
213259948 TATTTTCA
66 TATTTTCA
* *
213259956 ATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
213260021 GGTATTTTCA
64 GGTATTTTCA
*
213260031 ATTTCCGTTTTTCAA
1 ATTTCTGTTTTTCAA
213260046 TTTATGCTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
73 75 0.54
75 63 0.46
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (73 bp):
ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCA
Found at i:213260135 original size:16 final size:16
Alignment explanation
Indices: 213260114--213260144 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
213260104 CTGAGGTAAT
*
213260114 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
213260130 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
213260145 TCGAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:213260138 original size:89 final size:90
Alignment explanation
Indices: 213259952--213260297 Score: 477
Period size: 89 Copynumber: 4.0 Consensus size: 90
213259942 TTGAGGTATT
*
213259952 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
213260017 CTGAGGTATTTTCAATTTCCG-TTT-
65 CTGAGGTAATTTCAATTTCTGTTTTC
*
213260041 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
213260105 TGAGGTAATTTCAATTTCTGTTTTC
66 TGAGGTAATTTCAATTTCTGTTTTC
* * * *
213260130 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
213260194 TGAGGTATTTTCAA--T-T-TTTGC
66 TGAGGTAATTTCAATTTCTGTTTTC
213260215 TTC------TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
213260274 CTGAGGTAATTTCAATTTATGTTT
65 CTGAGGTAATTTCAATTTCTGTTT
213260298 GTCAAAAAAA
Statistics
Matches: 233, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
79 7 0.03
81 57 0.24
83 1 0.00
84 1 0.00
85 10 0.04
86 1 0.00
87 64 0.27
88 3 0.01
89 89 0.38
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (90 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTC
Found at i:213260287 original size:81 final size:83
Alignment explanation
Indices: 213259961--213260357 Score: 435
Period size: 89 Copynumber: 4.8 Consensus size: 83
213259951 TTTCAATTTA
*
213259961 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAT
1 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
* *
213260026 TTTCAATTTCCGTTTTTCAATTTA
66 TTTCAA-TT-C-TTTTGC---TTC
* *
213260050 TGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAA
1 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
*
213260113 TTTCAATTTCTGTTTTCTTC
66 TTTCAA-TTCT-TTTGCTTC
* * *
213260133 AATTTATGTTTTTC--GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
1 ------TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
*
213260196 AGGTATTTTCAA-T-TTTTGCTTC
60 AGGTAATTTCAATTCTTTTGCTTC
*
213260218 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
*
213260283 TTTCAA-T-TTATG-TT-
66 TTTCAATTCTTTTGCTTC
* *
213260297 TG----TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGCTGAGGTA
1 TGCTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA
213260358 TTTTTAGTTT
Statistics
Matches: 278, Mismatches: 20, Indels: 33
0.84 0.06 0.10
Matches are distributed among these distances:
75 2 0.01
76 53 0.19
79 9 0.03
80 2 0.01
81 62 0.22
83 2 0.01
85 8 0.03
86 7 0.03
87 62 0.22
89 71 0.26
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (83 bp):
TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAA
TTTCAATTCTTTTGCTTC
Found at i:213260290 original size:170 final size:172
Alignment explanation
Indices: 213259952--213260361 Score: 532
Period size: 170 Copynumber: 2.4 Consensus size: 172
213259942 TTGAGGTATT
213259952 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
213260017 CTGAGGTATTTTCAATTTCCGTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
65 CTGAGGTATTTTCAA-TT-C-TTTTGC-A-TTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
* *
213260082 GTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGTTTTC
125 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
* * *
213260130 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
213260194 TGAGGTATTTTCAA-T-TTTTGC-TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
66 TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
213260256 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG-TTT-
129 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
* * *
213260298 GTC-A---A--------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
213260351 TGAGGTATTTT
66 TGAGGTATTTT
213260362 TAGTTTATGT
Statistics
Matches: 217, Mismatches: 12, Indels: 27
0.85 0.05 0.11
Matches are distributed among these distances:
157 54 0.25
164 1 0.00
167 1 0.00
168 12 0.06
169 3 0.01
170 65 0.30
171 5 0.02
174 1 0.00
176 59 0.27
178 16 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (172 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTC
Done.