Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 66 of 259
Found at i:21229491 original size:44 final size:44
Alignment explanation
Indices: 21229428--21229514 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
21229418 ACTTAATGCC
21229428 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
1 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
21229472 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTA
1 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTA
21229515 AGTCGGTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (44 bp):
AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
Found at i:21229527 original size:44 final size:44
Alignment explanation
Indices: 21229428--21229538 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
21229418 ACTTAATGCC
*
21229428 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
1 AATGATATCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
*
21229472 AATGATTTCGCACACTTACTGCCATCTCAATTAGCCGAAGCTA-
1 AATGATATCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
* * *
21229515 AGTCGGTATCGCACACTTAATGCC
1 AAT-GATATCGCACACTTACTGCC
21229539 TCATATAGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 2 0.03
44 60 0.97
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (44 bp):
AATGATATCGCACACTTACTGCCATCTCAATTAGCCGAAGCTAG
Found at i:21231443 original size:40 final size:40
Alignment explanation
Indices: 21231363--21231482 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
21231353 TGTTTGACAA
*
21231363 CGATTCGAGATAGCTTTGGCTATAT-TGGCACTTAGTGTG
1 CGATTCGAGATAGCTTCGGCTATATATGGCACTTAGTGTG
*
21231402 CGATTCGAGATAGCTTCAGCTATATATGGCACTTAGTGTG
1 CGATTCGAGATAGCTTCGGCTATATATGGCACTTAGTGTG
* * * *
21231442 CGACTCGAAATATCTTCGGCTATATATGGCACTTTGTGTG
1 CGATTCGAGATAGCTTCGGCTATATATGGCACTTAGTGTG
21231482 C
1 C
21231483 AAGACTGAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 23 0.32
40 50 0.68
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
CGATTCGAGATAGCTTCGGCTATATATGGCACTTAGTGTG
Found at i:21236264 original size:49 final size:49
Alignment explanation
Indices: 21236194--21236429 Score: 244
Period size: 49 Copynumber: 4.8 Consensus size: 49
21236184 TAGCCAAAGC
* * *
21236194 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
21236243 TATCCGGTAAACGTAGTAGCCTGCACTTAGTACTA-ATACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * * *
21236292 CATCCGATACACATAGTAGCCTACACTTAGTACTAACACATGATTGA--AGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACT-ACACATG--CGACCAAT
* *
21236342 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** *
21236391 TATCCGGTACATGTACTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
21236430 CGTGACCTCA
Statistics
Matches: 150, Mismatches: 30, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
47 2 0.01
48 6 0.04
49 105 0.70
50 31 0.21
51 3 0.02
53 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:21236396 original size:99 final size:98
Alignment explanation
Indices: 21236205--21236430 Score: 251
Period size: 99 Copynumber: 2.3 Consensus size: 98
21236195 ATCTGGTACG
*
21236205 CATAGTAGCCTGCACTTAGTACT-ACACATGCGATCAATTATCCGGTAAACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTAACACAT-CGATCAATTATCCGGTAAACATAGTAGCCTGCAC
* *
21236269 TTAGTACTAATACGTGACCTAACCATCCGATACA
65 TTAGTACTAACACGCGACCTAACCATCCGATACA
* * * **
21236303 CATAGTAGCCTACACTTAGTACTAACACAT-GATTGAAGTTATCGGGTACGCATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTAACACATCGA-TCAA-TTATCCGGTAAACATAGTAGCCTGCA
* ** *
21236367 CTTAGTACTACACATGCGACC-AATTATCCGGTACA
64 CTTAGTACTA-ACACGCGACCTAACCATCCGATACA
** *
21236402 TGTACTAGCCTGCACTTAGTACTACACAC
1 CATAGTAGCCTGCACTTAGTACTA-ACAC
21236431 GTGACCTCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
97 2 0.02
98 25 0.23
99 69 0.64
100 11 0.10
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTAACACATCGATCAATTATCCGGTAAACATAGTAGCCTGCACT
TAGTACTAACACGCGACCTAACCATCCGATACA
Found at i:21247116 original size:163 final size:163
Alignment explanation
Indices: 21246838--21247161 Score: 506
Period size: 163 Copynumber: 2.0 Consensus size: 163
21246828 AAGCCTAAAG
* *
21246838 TATTTGATGCCACAGAAAGAACTGAATTTGAGACAATGTAGATGGTTCGAGCTATTAAAAGATTA
1 TATTTGATGCCACAAAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAAAAGATTA
*
21246903 CAATTTGATCATCAATTATCATCTAAGAAAAGCTAATGTTACTACTGATGCTTTAAGTAGAAAAT
66 CAATTTGATCATCAATTATCAACTAAGAAAAGCTAATGTTACTACTGATGCTTTAAGTAGAAAAT
*
21246968 CTTTGTTTACCTTGAGAGCTTTGTATACTCGAT
131 ATTTGTTTACCTTGAGAGCTTTGTATACTCGAT
*
21247001 TATTTGATGTCC-CAAAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTGTTAAAAGATT
1 TATTTGATG-CCACAAAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAAAAGATT
** * * * ** *
21247065 ATGATTTGATTATCGATTATCAACTAGGAAAAGCTAATGTTGTTGCTGATGCTTTAAGTAGAAAA
65 ACAATTTGATCATCAATTATCAACTAAGAAAAGCTAATGTTACTACTGATGCTTTAAGTAGAAAA
*
21247130 TATTTGTTTCCCTTGAGAGCTTTGTATACTCG
130 TATTTGTTTACCTTGAGAGCTTTGTATACTCG
21247162 GTTGACATTG
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
163 144 0.99
164 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (163 bp):
TATTTGATGCCACAAAAAGAACTGAATTTGAGACAACGTAGATGGTTCGAGCTATTAAAAGATTA
CAATTTGATCATCAATTATCAACTAAGAAAAGCTAATGTTACTACTGATGCTTTAAGTAGAAAAT
ATTTGTTTACCTTGAGAGCTTTGTATACTCGAT
Found at i:21247459 original size:21 final size:21
Alignment explanation
Indices: 21247434--21247489 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
21247424 GTGGTCCAAG
21247434 GGACACGCCCGTGTGACCCTT
1 GGACACGCCCGTGTGACCCTT
*
21247455 GGACACGCCCGTGTGCCCCTT
1 GGACACGCCCGTGTGACCCTT
* *
21247476 AGACACGCCTGTGT
1 GGACACGCCCGTGT
21247490 TGGAGGTCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.14, C:0.38, G:0.29, T:0.20
Consensus pattern (21 bp):
GGACACGCCCGTGTGACCCTT
Found at i:21253931 original size:27 final size:27
Alignment explanation
Indices: 21253911--21254013 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
21253901 ATTACCAAAG
* * *
21253911 TACCCCCGATTTACAGAATTATCATTC
1 TACCCTCGATTTACAGAATTACCATTT
*
21253938 TACCCTCGATTTAAAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
21253965 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
21253992 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
21254014 TAAAATACCC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:21254022 original size:27 final size:27
Alignment explanation
Indices: 21253893--21254150 Score: 128
Period size: 27 Copynumber: 9.5 Consensus size: 27
21253883 AATACTTTAG
* * * *
21253893 TTTACCAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* ***
21253920 TTTACAGAATTA-TCATTCTACCCTCGA
1 TTTACAAAATTACT-AAAATACCCTCGA
* ***
21253947 TTTA-AAGAATTACCATTTTACCCTCGA
1 TTTACAA-AATTACTAAAATACCCTCGA
* * * ***
21253974 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
*
21254001 TTTACAAAATTACTAAAATACCC-CTA
1 TTTACAAAATTACTAAAATACCCTCGA
** *
21254027 GTTTGTAAAATTACTAAAATACCCCCTGA
1 -TTTACAAAATTACTAAAATACCCTC-GA
** *
21254056 TTTGTAAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * *
21254083 CTTGTA-AAAATTACCAAAGTACCCACGA
1 -TT-TACAAAATTACTAAAATACCCTCGA
* **** *
21254111 TTTATAAAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCGA
21254138 TTTACAAAATTAC
1 TTTACAAAATTAC
21254151 CGTTTTACCC
Statistics
Matches: 185, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.03
27 133 0.72
28 45 0.24
29 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:21254023 original size:54 final size:54
Alignment explanation
Indices: 21253899--21254186 Score: 179
Period size: 54 Copynumber: 5.3 Consensus size: 54
21253889 TTAGTTTACC
* * * * * *
21253899 AAATTACCAAAGTACCCCCGATTTACAGAATTATCATTCTACCCTCGATTTA-A
1 AAATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATA
* *** * * *
21253952 AGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACA
1 A-AATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATA
* ** * *** * *
21254007 AAATTACTAAAATACCC-CTAGTTTGTAAAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACTAAAATACCCTCGA-TTTACAAAATTACCATTTTACCCTC-GATTTATA
* *** *
21254062 AAATTACTGAAATACCCTCGACTTGTA-AAAATTACCAAAGTACCCACGATTTATA
1 AAATTACTAAAATACCCTCGA-TT-TACAAAATTACCATTTTACCCTCGATTTATA
**** * * * *
21254117 AAATTACTGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTC-AATTATG
1 AAATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATA
*
21254170 AAATTACTGAAATACCC
1 AAATTACTAAAATACCC
21254187 CTATAAGGTG
Statistics
Matches: 185, Mismatches: 43, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
53 24 0.13
54 91 0.49
55 48 0.26
56 21 0.11
57 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATA
Found at i:21254061 original size:28 final size:27
Alignment explanation
Indices: 21253992--21254124 Score: 133
Period size: 28 Copynumber: 4.9 Consensus size: 27
21253982 ATTACCATTT
* **
21253992 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCCCGATTTGTAAAATTACTAAAA
*
21254019 TA-CCCCTAGTTTGTAAAATTACTAAAA
1 TACCCCCGA-TTTGTAAAATTACTAAAA
*
21254046 TACCCCCTGATTTGTAAAATTACTGAAA
1 TACCCCC-GATTTGTAAAATTACTAAAA
* * * *
21254074 TACCCTCGACTTGTAAAAATTACCAAAG
1 TACCCCCGATTTGT-AAAATTACTAAAA
* *
21254102 TACCCACGATTTATAAAATTACT
1 TACCCCCGATTTGTAAAATTACT
21254125 GTTTTACCCT
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.05
27 34 0.39
28 48 0.55
29 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCCCGATTTGTAAAATTACTAAAA
Found at i:21254075 original size:55 final size:55
Alignment explanation
Indices: 21253992--21254125 Score: 155
Period size: 55 Copynumber: 2.4 Consensus size: 55
21253982 ATTACCATTT
* * * * *
21253992 TACCCTCGATTTACAAAATTACTAAAATACCCCTAG-TTTGT-AAAATTACTAAAA
1 TACCCACGATTTATAAAATTACTGAAATA-CCCTAGACTTGTAAAAATTACCAAAA
* * * *
21254046 TACCCCCTGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAG
1 TACCCAC-GATTTATAAAATTACTGAAATACCCTAGACTTGTAAAAATTACCAAAA
21254102 TACCCACGATTTATAAAATTACTG
1 TACCCACGATTTATAAAATTACTG
21254126 TTTTACCCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
54 11 0.16
55 39 0.58
56 17 0.25
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.31
Consensus pattern (55 bp):
TACCCACGATTTATAAAATTACTGAAATACCCTAGACTTGTAAAAATTACCAAAA
Found at i:21254133 original size:55 final size:55
Alignment explanation
Indices: 21253965--21254151 Score: 150
Period size: 55 Copynumber: 3.4 Consensus size: 55
21253955 ATTACCATTT
* *** * * *
21253965 TACCCTCGATT-TATAGAATTACCATTTTACCCTC-GATTTACAAAATTACTAAAA
1 TACCCTCGATTGTA-AAAATTACCAAAATACCCACTGATTTATAAAATTACTGAAA
* * * * *
21254019 TACCCCTAGTTTGT-AAAATTACTAAAATACCCCCTGATTTGTAAAATTACTGAAA
1 TA-CCCTCGATTGTAAAAATTACCAAAATACCCACTGATTTATAAAATTACTGAAA
* ***
21254074 TACCCTCGACTTGTAAAAATTACCAAAGTACCCAC-GATTTATAAAATTACTGTTT
1 TACCCTCGA-TTGTAAAAATTACCAAAATACCCACTGATTTATAAAATTACTGAAA
*
21254129 TACCCTTGATT-TACAAAATTACC
1 TACCCTCGATTGTA-AAAATTACC
21254152 GTTTTACCCT
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
53 2 0.02
54 32 0.30
55 54 0.51
56 18 0.17
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (55 bp):
TACCCTCGATTGTAAAAATTACCAAAATACCCACTGATTTATAAAATTACTGAAA
Found at i:21254301 original size:27 final size:27
Alignment explanation
Indices: 21254006--21254301 Score: 147
Period size: 27 Copynumber: 10.9 Consensus size: 27
21253996 CTCGATTTAC
*
21254006 AAAATTACTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
*
21254033 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACCAAAATA-CCCCTGATTTGT
** *
21254061 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
21254088 AAAAATTACCAAAGTACCCAC-GATTTAT
1 -AAAATTACCAAAATACCC-CTGATTTGT
***** * **
21254116 AAAATTACTGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**** * * *
21254143 AAAATTACCGTTTTA-CCCTCAATTAT
1 AAAATTACCAAAATACCCCTGATTTGT
* ** **
21254169 GAAATTACTGAAATACCCCT-ATAAGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
** *
21254196 GGAATTACCAAAATACCCCT-AGTTTTT
1 AAAATTACCAAAATACCCCTGA-TTTGT
** *
21254223 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
21254250 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
21254277 AAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCCTGATTT
21254302 ACAAAGTTAC
Statistics
Matches: 207, Mismatches: 49, Indels: 26
0.73 0.17 0.09
Matches are distributed among these distances:
26 24 0.12
27 133 0.64
28 46 0.22
29 3 0.01
30 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:21254372 original size:27 final size:27
Alignment explanation
Indices: 21254223--21254385 Score: 96
Period size: 27 Copynumber: 6.0 Consensus size: 27
21254213 CCTAGTTTTT
** * **
21254223 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACTGAAATACCATTGATTTAC
* * * ** **
21254250 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCATTGATTTAC
** **
21254277 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCATTGATTTAC
* *
21254304 AAAGTTACAGAAATACCATTGACTTT-C
1 AAAATTACTGAAATACCATTGA-TTTAC
*
21254331 TAAAAATTA-TGGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCATTGATTTAC
*
21254360 AAAATTACTGAAATACCTTTGATTTA
1 AAAATTACTGAAATACCATTGATTTA
21254386 TAGATTTACC
Statistics
Matches: 107, Mismatches: 23, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
27 81 0.76
28 7 0.07
29 19 0.18
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGATTTAC
Found at i:21254468 original size:27 final size:27
Alignment explanation
Indices: 21254425--21254498 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
21254415 AAATGACTAA
*
21254425 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
21254452 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
21254479 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
21254499 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:21255331 original size:26 final size:26
Alignment explanation
Indices: 21255302--21255476 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
21255292 GAGGAAGTGC
* *
21255302 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
21255328 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
21255354 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
21255380 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
21255406 AAAAGGGCTTATGCCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
21255432 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
21255457 AAAAGGGCTT-TGGCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21255477 ATTAAAGAGG
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
25 30 0.22
26 106 0.78
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:21255380 original size:52 final size:52
Alignment explanation
Indices: 21255302--21255476 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
21255292 GAGGAAGTGC
*
21255302 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
21255354 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
21255406 AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
21255457 AAAAGGGCTT-TGGCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21255477 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 8 0.07
51 23 0.20
52 85 0.73
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21257445 original size:40 final size:40
Alignment explanation
Indices: 21257346--21257536 Score: 251
Period size: 40 Copynumber: 4.8 Consensus size: 40
21257336 TGGATGATAA
* * * * **
21257346 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
21257386 CCGGGC-AAGTCCCGAAGGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
21257425 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
21257465 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
21257505 CCGGGCTATGTCCTGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
21257537 AGCTATATCC
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 32 0.24
40 101 0.75
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:21258985 original size:42 final size:42
Alignment explanation
Indices: 21258920--21259011 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
21258910 TACACTCCCC
* * ** *
21258920 AAATGGGCTTGCATTCATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21258962 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
21259004 AAATGGGC
1 AAATGGGC
21259012 CTAAGGTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21259070 original size:30 final size:30
Alignment explanation
Indices: 21259034--21259101 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
21259024 CGTTTACAGT
21259034 AAAGGCTTCGGCCCAACGATATGATTTATG
1 AAAGGCTTCGGCCCAACGATATGATTTATG
**
21259064 AAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAGGCTTCGGCCCAACGATATGATTTATG
21259094 AAAGGCTT
1 AAAGGCTT
21259102 TAGCCCAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAACGATATGATTTATG
Found at i:21259108 original size:30 final size:30
Alignment explanation
Indices: 21259034--21259110 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
21259024 CGTTTACAGT
* **
21259034 AAAGGCTTCGGCCCAACGATATGATTTATG
1 AAAGGCTTCAGCCCAGTGATATGATTTATG
*
21259064 AAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAGGCTTCAGCCCAGTGATATGATTTATG
*
21259094 AAAGGCTTTAGCCCAGT
1 AAAGGCTTCAGCCCAGT
21259111 AACCATTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATG
Found at i:21273979 original size:46 final size:45
Alignment explanation
Indices: 21273929--21274104 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
21273919 TGTTTGGGCA
*
21273929 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAG-G
* *** * *
21273975 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGAGG
* **
21274020 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACG-AGG
* *
21274068 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21274105 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 72 0.67
47 34 0.31
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGG
Found at i:21274084 original size:93 final size:93
Alignment explanation
Indices: 21273925--21274096 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
21273915 AGGATGTTTG
* ****
21273925 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCGTTGAG
*
21273990 TTGAGTTCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
21274018 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCGTTGAG
21274083 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
21274097 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:21277614 original size:48 final size:48
Alignment explanation
Indices: 21277543--21277724 Score: 265
Period size: 48 Copynumber: 3.8 Consensus size: 48
21277533 TCATATCGAA
* * * ** *
21277543 GCCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGATCTCATATCGATGCCAAT
* * *
21277591 GCCATATCCCAGACATGGCCTTACATGGGATCTCATATCGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGATCTCATATCGATGCCAAT
*
21277639 GCCATGTCCTAAACATGGTCTTACATGGGATCTCATATCGATGCCAAT
1 GCCATGTCCCAAACATGGTCTTACATGGGATCTCATATCGATGCCAAT
*
21277687 GTCATGTCCCAAACATGGTCTTACATGGGATCTCATAT
1 GCCATGTCCCAAACATGGTCTTACATGGGATCTCATAT
21277725 AACCCTAATG
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTCTTACATGGGATCTCATATCGATGCCAAT
Found at i:21278321 original size:21 final size:22
Alignment explanation
Indices: 21278291--21278331 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
21278281 TAGTAAAAGT
21278291 CATTTCTCTAACCA-TAAACATG
1 CATTTCTCT-ACCATTAAACATG
21278313 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
21278332 CAAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACATG
Found at i:21288230 original size:29 final size:29
Alignment explanation
Indices: 21288167--21288281 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
21288157 TTCACATACT
* * *
21288167 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
21288195 T-TAATATGGCCCATTAGACCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
21288224 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
21288253 TTTATATGGCCCGTTAGGCCC-AATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
21288281 T
1 T
21288282 TCATAATCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.01
28 24 0.32
29 49 0.65
30 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:21288234 original size:57 final size:57
Alignment explanation
Indices: 21288167--21288279 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
21288157 TTCACATACT
* *
21288167 TGTATCTGGCCCATTAAGCCC-AATCATATTAATATGGCCCATTAGACCCAAATCACC
1 TGTATATGGCCCATTAAGCCCAAATCACATTAATATGGCCCATTAGACCC-AATCACC
* * * *
21288224 TGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCAATCAC
1 TGTATATGGCCCATTAAGCCCAAATCACATTAATATGGCCCATTAGACCCAATCAC
21288280 ATTCATAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 25 0.51
58 24 0.49
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (57 bp):
TGTATATGGCCCATTAAGCCCAAATCACATTAATATGGCCCATTAGACCCAATCACC
Found at i:21288631 original size:34 final size:34
Alignment explanation
Indices: 21288588--21288658 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
21288578 TGCGATCTCC
21288588 TTAGCCCAAACCTACAATCGATATCACTCAAAGA
1 TTAGCCCAAACCTACAATCGATATCACTCAAAGA
21288622 TTAGCCCAAACCTACAATCGATATCACTCAAAGA
1 TTAGCCCAAACCTACAATCGATATCACTCAAAGA
21288656 TTA
1 TTA
21288659 ATCTTACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.23
Consensus pattern (34 bp):
TTAGCCCAAACCTACAATCGATATCACTCAAAGA
Found at i:21291487 original size:34 final size:31
Alignment explanation
Indices: 21291449--21291530 Score: 83
Period size: 34 Copynumber: 2.5 Consensus size: 31
21291439 ATATCTGTAT
*
21291449 TGATACTGTCACTGAATTGGGCTAAGGCCTACAC
1 TGATACTGT-ACTGAA-AGGGCTAAGGCCTA-AC
*
21291483 TGATACTGATACTGTAAAGGGCTAAGGCCTAGC
1 TGATACTG-TACTG-AAAGGGCTAAGGCCTAAC
*
21291516 TGAAACTGTTACTGA
1 TGATACTG-TACTGA
21291531 TACAGGCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
32 1 0.02
33 13 0.31
34 25 0.60
35 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (31 bp):
TGATACTGTACTGAAAGGGCTAAGGCCTAAC
Found at i:21302415 original size:39 final size:40
Alignment explanation
Indices: 21302370--21302578 Score: 116
Period size: 41 Copynumber: 5.2 Consensus size: 40
21302360 CGGGGTTTAG
* * *
21302370 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
21302409 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
21302449 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
21302489 CCGGATGTAGTCGCTTAGCAAAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * * *
21302530 CCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
21302571 CCGGATAT
1 CCGGATAT
21302579 CATTCGAGTA
Statistics
Matches: 147, Mismatches: 19, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 65 0.44
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:21302520 original size:41 final size:41
Alignment explanation
Indices: 21302393--21302578 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
21302383 CTCGCACAAG
* * * * * *
21302393 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
21302433 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
21302473 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCAAAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
21302514 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
21302555 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
21302579 CATTCGAGTA
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 65 0.50
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:21302527 original size:81 final size:82
Alignment explanation
Indices: 21302423--21302576 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
21302413 ATATGGTCAC
* * *
21302423 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTC-GGATCTT
1 TAGCAAAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGA-CTT
*
21302486 AGTCCGGATGTAGTCGCT
65 AGCCCGGATGTAGTCGCT
21302504 TAGCAAAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTA
1 TAGCAAAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTA
21302569 GCCCGGAT
66 GCCCGGAT
21302577 ATCATTCGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 38 0.57
82 26 0.39
83 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (82 bp):
TAGCAAAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTA
GCCCGGATGTAGTCGCT
Found at i:21304983 original size:39 final size:40
Alignment explanation
Indices: 21304938--21305146 Score: 116
Period size: 41 Copynumber: 5.2 Consensus size: 40
21304928 CGGGGTTTAG
* * *
21304938 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
21304977 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
21305017 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
21305057 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * * *
21305098 CCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
21305139 CCGGATAT
1 CCGGATAT
21305147 CATTCGAGTA
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 67 0.45
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:21305088 original size:41 final size:41
Alignment explanation
Indices: 21304961--21305146 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
21304951 CTCGCACAAG
* * * * * *
21304961 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
21305001 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
21305041 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
21305082 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
21305123 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
21305147 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 67 0.51
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:21305095 original size:81 final size:82
Alignment explanation
Indices: 21304991--21305144 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
21304981 ATATGGTCAC
* * *
21304991 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTC-GGATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGA-CTT
*
21305054 AGTCCGGATGTAGTCGCT
65 AGCCCGGATGTAGTCGCT
21305072 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTA
21305137 GCCCGGAT
66 GCCCGGAT
21305145 ATCATTCGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 38 0.57
82 26 0.39
83 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCAGGACTTA
GCCCGGATGTAGTCGCT
Found at i:21317021 original size:39 final size:40
Alignment explanation
Indices: 21316976--21317184 Score: 125
Period size: 41 Copynumber: 5.2 Consensus size: 40
21316966 CGGGGTTTAG
* * *
21316976 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
21317015 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
21317055 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
21317095 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
21317136 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
21317177 CCGGATAT
1 CCGGATAT
21317185 CATTCGAGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 68 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:21317126 original size:41 final size:41
Alignment explanation
Indices: 21316999--21317184 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
21316989 CTCGCACAAG
* * * * * *
21316999 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
21317039 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
21317079 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
21317120 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
21317161 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
21317185 CATTCGAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.44
41 68 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:21317133 original size:81 final size:82
Alignment explanation
Indices: 21316999--21317182 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
21316989 CTCGCACAAG
* * * * * * *
21316999 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
21317063 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
21317079 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
21317143 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
21317161 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
21317183 ATCATTCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.23
81 38 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:21320680 original size:46 final size:48
Alignment explanation
Indices: 21320608--21320710 Score: 156
Period size: 46 Copynumber: 2.2 Consensus size: 48
21320598 GACAGGACAG
* * *
21320608 GACAGAAATGAGCCATGTAAGTCCATATCA-AT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
21320654 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
21320702 GACAGGAAT
1 GACAGGAAT
21320711 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 27 0.53
47 2 0.04
48 22 0.43
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:21320719 original size:48 final size:46
Alignment explanation
Indices: 21320608--21320727 Score: 150
Period size: 48 Copynumber: 2.6 Consensus size: 46
21320598 GACAGGACAG
* * *
21320608 GACAGAAATGAGCCATGTAAGTCCATATCAATTATATGGCTTTGGA
1 GACAGGAATAAGCCATGTAAGTCCATATCAATTATATGGCATTGGA
* * *
21320654 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATAAGCCATGTAAGTCCATATCA-AT-TATATGGCATTGGA
**
21320702 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATAAGCCATGTAAGTCCAT
21320728 GTCGAAGACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.42
47 2 0.03
48 35 0.55
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
GACAGGAATAAGCCATGTAAGTCCATATCAATTATATGGCATTGGA
Found at i:21325535 original size:27 final size:26
Alignment explanation
Indices: 21325504--21325681 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
21325494 TAAATTGTAC
21325504 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
21325531 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
21325557 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
21325585 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
21325613 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
21325640 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
21325667 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21325682 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:21325620 original size:82 final size:81
Alignment explanation
Indices: 21325505--21325660 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
21325495 AAATTGTACA
* * *
21325505 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21325569 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21325586 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21325651 TGCGAGTTGA
65 TGCGAATTGA
21325661 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21325672 original size:82 final size:81
Alignment explanation
Indices: 21325501--21325681 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
21325491 GATTAAATTG
* * *
21325501 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21325566 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21325582 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21325646 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21325664 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21325682 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21325692 original size:27 final size:27
Alignment explanation
Indices: 21325586--21325692 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
21325576 TGACCATGCG
* * *
21325586 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
21325614 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
21325641 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
21325668 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
21325693 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:21333568 original size:27 final size:26
Alignment explanation
Indices: 21333537--21333714 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
21333527 TAAATTGTAC
21333537 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
21333564 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
21333590 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
21333618 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
21333646 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
21333673 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
21333700 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21333715 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:21333653 original size:82 final size:81
Alignment explanation
Indices: 21333538--21333693 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
21333528 AAATTGTACA
* * *
21333538 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21333602 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21333619 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21333684 TGCGAGTTGA
65 TGCGAATTGA
21333694 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21333705 original size:82 final size:81
Alignment explanation
Indices: 21333534--21333714 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
21333524 GATTAAATTG
* * *
21333534 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21333599 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21333615 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21333679 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21333697 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21333715 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21333725 original size:27 final size:27
Alignment explanation
Indices: 21333619--21333725 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
21333609 TGACCATGCG
* * *
21333619 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
21333647 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
21333674 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
21333701 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
21333726 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:21346659 original size:40 final size:40
Alignment explanation
Indices: 21346589--21346806 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
21346579 AAGCCAAGTA
* * * * *
21346589 CCTTCGGGATTTA-ACCGGGTATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
21346628 CCTTCGAGACATAGCCCAGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21346668 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21346708 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
21346748 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21346788 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21346807 TTATCATCCA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.08
40 147 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21361712 original size:42 final size:42
Alignment explanation
Indices: 21361635--21361714 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
21361625 TTACATTGAT
* *
21361635 GCCATATCCCAGATATGGTCTTATACGAAATCTCATATCAAC
1 GCCATATCCCAGATATAGTCTTACACGAAATCTCATATCAAC
* *
21361677 GCCATATCCTAGATATAGTCTTACATGATAA-CTCATAT
1 GCCATATCCCAGATATAGTCTTACACGA-AATCTCATAT
21361715 TGATACCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (42 bp):
GCCATATCCCAGATATAGTCTTACACGAAATCTCATATCAAC
Found at i:21382961 original size:6 final size:7
Alignment explanation
Indices: 21382944--21382970 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21382934 CAATGTTGTT
21382944 TTTTTTA
1 TTTTTTA
21382951 TTTTTTA
1 TTTTTTA
21382958 TTTTTTA
1 TTTTTTA
21382965 TTTTTT
1 TTTTTT
21382971 TTGCAGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:21385496 original size:12 final size:12
Alignment explanation
Indices: 21385479--21385506 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21385469 ATTATTCTTT
21385479 AGAGTAAAAGGG
1 AGAGTAAAAGGG
21385491 AGAGTAAAAGGG
1 AGAGTAAAAGGG
21385503 AGAG
1 AGAG
21385507 ATGTATATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (12 bp):
AGAGTAAAAGGG
Found at i:21388825 original size:27 final size:29
Alignment explanation
Indices: 21388785--21388838 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 29
21388775 AAAATTTTAA
21388785 AAAAAAGTATTTAAAAA-T-AAAAAAATC
1 AAAAAAGTATTTAAAAATTCAAAAAAATC
21388812 AAAAAAGT-TCTTAAAAATTCAAAAAAA
1 AAAAAAGTAT-TTAAAAATTCAAAAAAA
21388839 ATAACATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.04
27 15 0.62
28 1 0.04
29 7 0.29
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.22
Consensus pattern (29 bp):
AAAAAAGTATTTAAAAATTCAAAAAAATC
Found at i:21391123 original size:31 final size:31
Alignment explanation
Indices: 21391079--21391147 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
21391069 TATAAAATGG
* *
21391079 TCACTAAATTATTC-AAAAGTTTTCATTTAAA
1 TCACTAAACTATTCAAAAAATTTT-ATTTAAA
*
21391110 TCGCTAAACTATTCAAAAAATTTTATTTAAA
1 TCACTAAACTATTCAAAAAATTTTATTTAAA
21391141 TCACTAA
1 TCACTAA
21391148 GTTGTTAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 25 0.76
32 8 0.24
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.39
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAAATTTTATTTAAA
Found at i:21405477 original size:16 final size:17
Alignment explanation
Indices: 21405450--21405482 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
21405440 GAATGTGAGC
21405450 AAAGTAAAATTTTTTTA
1 AAAGTAAAATTTTTTTA
21405467 AAAGT-AAATTTTTTTA
1 AAAGTAAAATTTTTTTA
21405483 TGCCCTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AAAGTAAAATTTTTTTA
Found at i:21408852 original size:13 final size:13
Alignment explanation
Indices: 21408834--21408859 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21408824 GGGCGTATGC
21408834 TCTGGACACACGG
1 TCTGGACACACGG
21408847 TCTGGACACACGG
1 TCTGGACACACGG
21408860 ACGTGTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
TCTGGACACACGG
Found at i:21410451 original size:13 final size:13
Alignment explanation
Indices: 21410433--21410459 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21410423 TTGTTTAATC
21410433 AGTTAATTAGTTT
1 AGTTAATTAGTTT
21410446 AGTTAATTAGTTT
1 AGTTAATTAGTTT
21410459 A
1 A
21410460 ATAAACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:21418680 original size:13 final size:13
Alignment explanation
Indices: 21418662--21418688 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21418652 TAGTTTAATC
21418662 AGTTAATTAGTTT
1 AGTTAATTAGTTT
21418675 AGTTAATTAGTTT
1 AGTTAATTAGTTT
21418688 A
1 A
21418689 ATAAACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:21419814 original size:42 final size:43
Alignment explanation
Indices: 21419704--21419868 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 43
21419694 AGCTCATACA
* * * * * * *
21419704 ATGCCAACGTCCCAGATGTGTTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACACGAAATCATATACCG
*
21419747 ATGCCATTGTCCCAGATA-GGTTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGATATGG-TCTTACACGAAATCATATACCG
* * * *
21419789 ATGCCAATGTCCTAGACATGGTCTTAGACGAAAATC-TCAAACCG
1 ATGCCAATGTCCCAGATATGGTCTTACACG-AAATCAT-ATACCG
* * *
21419833 ATGCCTACGTCCCAGATGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGATATGGTCTTACACGAAATCA
21419869 CATATCGGAA
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 27 0.28
43 45 0.46
44 26 0.27
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATATGGTCTTACACGAAATCATATACCG
Found at i:21424256 original size:16 final size:17
Alignment explanation
Indices: 21424231--21424263 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21424221 AGTAAGTCAT
21424231 AATAAAATA-TCAACTC
1 AATAAAATATTCAACTC
*
21424247 AATAATATATTCAACTC
1 AATAAAATATTCAACTC
21424264 CTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAAATATTCAACTC
Found at i:21424564 original size:50 final size:50
Alignment explanation
Indices: 21424505--21424624 Score: 213
Period size: 50 Copynumber: 2.4 Consensus size: 50
21424495 ATCACTCATC
*
21424505 TGGCCGAATATACAAGATCCAATATAACATCACATATGTACATACCTATA
1 TGGCCGAATATACAAGATCAAATATAACATCACATATGTACATACCTATA
*
21424555 TGGCCGAATATACAATATCAAATATAACATCACATATGTACATACCTATA
1 TGGCCGAATATACAAGATCAAATATAACATCACATATGTACATACCTATA
*
21424605 TGGCCGAATATACAAAATCA
1 TGGCCGAATATACAAGATCA
21424625 TTTAGCTCAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAACATCACATATGTACATACCTATA
Found at i:21425399 original size:30 final size:30
Alignment explanation
Indices: 21425357--21425421 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
21425347 TACCCAAACA
*
21425357 AGTCC-TCAAATTTCATT-TATTTTGCATTTT
1 AGTCCTTCAAATTT-ATTAT-TTTTGCAATTT
*
21425387 AGTCCTTC-AATTTATTATTTTTTCAATTT
1 AGTCCTTCAAATTTATTATTTTTGCAATTT
21425416 AGTCCT
1 AGTCCT
21425422 AATTACTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 18 0.58
30 11 0.35
31 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (30 bp):
AGTCCTTCAAATTTATTATTTTTGCAATTT
Found at i:21432354 original size:38 final size:38
Alignment explanation
Indices: 21432312--21432386 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
21432302 ACAAGATCCA
*
21432312 ATATAACATCACATATGTACATACCTATATGGCCGAAC
1 ATATAACATCACATATGTACATACCTATATGCCCGAAC
21432350 ATATAACATCACATATGTACATACCTATATGCCCGAA
1 ATATAACATCACATATGTACATACCTATATGCCCGAA
21432387 TATACAAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (38 bp):
ATATAACATCACATATGTACATACCTATATGCCCGAAC
Found at i:21440093 original size:50 final size:50
Alignment explanation
Indices: 21440034--21440143 Score: 202
Period size: 50 Copynumber: 2.2 Consensus size: 50
21440024 ATCACTCATC
*
21440034 TGGCCGAATATACAAGATCCAATATAACATCACATATGTACATACCTATA
1 TGGCCGAATATACAAGATCAAATATAACATCACATATGTACATACCTATA
*
21440084 TGGCCGAATATCCAAGATCAAATATAACATCACATATGTACATACCTATA
1 TGGCCGAATATACAAGATCAAATATAACATCACATATGTACATACCTATA
21440134 TGGCCGAATA
1 TGGCCGAATA
21440144 GATAACATCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAACATCACATATGTACATACCTATA
Found at i:21440149 original size:38 final size:38
Alignment explanation
Indices: 21440107--21440181 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
21440097 AAGATCAAAT
21440107 ATAACATCACATATGTACATACCTATATGGCCGAATAG
1 ATAACATCACATATGTACATACCTATATGGCCGAATAG
*
21440145 ATAACATCACGTATGTACATACCTATATGGCCGAATA
1 ATAACATCACATATGTACATACCTATATGGCCGAATA
21440182 TACATGATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (38 bp):
ATAACATCACATATGTACATACCTATATGGCCGAATAG
Found at i:21442861 original size:43 final size:43
Alignment explanation
Indices: 21442813--21442951 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 43
21442803 TCTCGGATGT
* * * *
21442813 GGTCTTACATGTAATTCAATATTGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * *
21442856 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * * * *
21442898 GGTCTTATACGTAAATCCCA-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AATTCAATATCGATGCCTATGTCCCAGACAC
21442941 GGTCTTACACG
1 GGTCTTACACG
21442952 ATGTCTCAGA
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
42 33 0.43
43 41 0.53
44 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:21453629 original size:20 final size:20
Alignment explanation
Indices: 21453604--21453645 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
21453594 GTTCTTAATC
21453604 GTTACCTTATTAAGTTACCG
1 GTTACCTTATTAAGTTACCG
*
21453624 GTTACCTTATTAAGTTGCCG
1 GTTACCTTATTAAGTTACCG
21453644 GT
1 GT
21453646 AATCAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
GTTACCTTATTAAGTTACCG
Found at i:21458974 original size:41 final size:41
Alignment explanation
Indices: 21458900--21459054 Score: 222
Period size: 41 Copynumber: 3.8 Consensus size: 41
21458890 CTTAAAAGCC
* * **
21458900 ATCGGTGGATCCATGATCGGCAAGCAATAATGCGATCCTTA
1 ATCGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTA
* * *
21458941 ATCGGTGGATCCACGGTTGTCAAACAACCATGCGATCCTTA
1 ATCGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTA
*
21458982 ATCGGTGGATCCATGATCGTCAAGCAACCATGCGAT-CTTCA
1 ATCGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTT-A
21459023 ATCGGTGGATCCACGATCGTCAAGCAACCATG
1 ATCGGTGGATCCACGATCGTCAAGCAACCATG
21459055 TAATCCTCAA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 3 0.03
41 98 0.97
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (41 bp):
ATCGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTA
Found at i:21459417 original size:27 final size:28
Alignment explanation
Indices: 21459370--21459431 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 28
21459360 GATATTTTTG
21459370 TAATTTTTGAAAGTCAAGGGTATTTCTA
1 TAATTTTTGAAAGTCAAGGGTATTTCTA
*
21459398 TAATTTTAT-AAA-TCAGGGGTATTTCTA
1 TAATTTT-TGAAAGTCAAGGGTATTTCTA
21459425 TAATTTT
1 TAATTTT
21459432 CCAAATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 21 0.66
28 10 0.31
29 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (28 bp):
TAATTTTTGAAAGTCAAGGGTATTTCTA
Found at i:21459437 original size:27 final size:27
Alignment explanation
Indices: 21459387--21459475 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
21459377 TGAAAGTCAA
** *
21459387 GGGTATTTCTATAATTTTATAAATCAG
1 GGGTATTTCTATAATTTTCCAAATTAG
*
21459414 GGGTATTTCTATAATTTTCCAAATTAA
1 GGGTATTTCTATAATTTTCCAAATTAG
* *
21459441 TGGTATTT-TGGTAATTTTCCAAATTAG
1 GGGTATTTCT-ATAATTTTCCAAATTAG
21459468 GGGTATTT
1 GGGTATTT
21459476 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.02
27 52 0.98
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (27 bp):
GGGTATTTCTATAATTTTCCAAATTAG
Found at i:21459476 original size:27 final size:27
Alignment explanation
Indices: 21459398--21459647 Score: 175
Period size: 27 Copynumber: 9.3 Consensus size: 27
21459388 GGTATTTCTA
* * *
21459398 TAATTTTATAAATCAGGGGTATTTCT-A
1 TAATTTTACAAATTAGGGGTATTT-TGG
* **
21459425 TAATTTTCCAAATTAATGGTATTTTGG
1 TAATTTTACAAATTAGGGGTATTTTGG
*
21459452 TAATTTTCCAAATTAGGGGTATTTTGG
1 TAATTTTACAAATTAGGGGTATTTTGG
* * *
21459479 TAATTTTAAAAATT-GAGGGTATTTCGA
1 TAATTTTACAAATTAG-GGGTATTTTGG
* * * *
21459506 TACTTTTAC-AAGTCGATGGTATTTTGG
1 TAATTTTACAAATTAG-GGGTATTTTGG
** * *
21459533 TAATTTTAC-AGGTCGAAGGTATTTTGG
1 TAATTTTACAAATTAG-GGGTATTTTGG
* * * **
21459560 TAATTTCACAAATCAAGGGTATTTTAA
1 TAATTTTACAAATTAGGGGTATTTTGG
* ** *
21459587 TAATTTCACAAACCAAGGGTATTTTGG
1 TAATTTTACAAATTAGGGGTATTTTGG
**
21459614 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATTAGGGGTATTTTGG
21459641 TAATTTT
1 TAATTTT
21459648 GTAAACCAAG
Statistics
Matches: 184, Mismatches: 35, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.03
27 178 0.97
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATTAGGGGTATTTTGG
Found at i:21459499 original size:81 final size:81
Alignment explanation
Indices: 21459311--21459663 Score: 273
Period size: 81 Copynumber: 4.3 Consensus size: 81
21459301 TACAAGGGTG
* * * * * * * * * * *
21459311 TTTGGTAAATCTACAAACCAAGGGCATTTCGATAATTATGCAAACCAATGATATTTTTGTAATTT
1 TTTGGTAATTTTAAAAATCAAGGGTATTTCTATAATTTTCCAAATCAATGGTATTTTGGTAATTT
** * *
21459376 TTGAAAGTCAAGGGTAT
66 TACAAACT-AGGGGTAT
* * * *
21459393 TTCT-ATAATTTTATAAATCAGGGGTATTTCTATAATTTTCCAAATTAATGGTATTTTGGTAATT
1 TT-TGGTAATTTTAAAAATCAAGGGTATTTCTATAATTTTCCAAATCAATGGTATTTTGGTAATT
* *
21459457 TTCCAAATTAGGGGTAT
65 TTACAAACTAGGGGTAT
** * * * * *
21459474 TTTGGTAATTTTAAAAATTGAGGGTATTTCGATACTTTTACAAGTCGATGGTATTTTGGTAATTT
1 TTTGGTAATTTTAAAAATCAAGGGTATTTCTATAATTTTCCAAATCAATGGTATTTTGGTAATTT
** * *
21459539 TAC-AGGTCGAAGGTAT
66 TACAAACTAG-GGGTAT
* * * *
21459555 TTTGGTAATTTCACAAATCAAGGGTATTT-TAATAA-TTTCACAAACCAAGGGTATTTTGGTAAT
1 TTTGGTAATTTTAAAAATCAAGGGTATTTCT-ATAATTTTC-CAAATCAATGGTATTTTGGTAAT
*
21459618 TTTACAAACCAGGGGTAT
64 TTTACAAACTAGGGGTAT
** *
21459636 TTTGGTAATTTTGTAAACCAAGGGTATT
1 TTTGGTAATTTTAAAAATCAAGGGTATT
21459664 CAGTAATTCT
Statistics
Matches: 211, Mismatches: 54, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
80 7 0.03
81 147 0.70
82 56 0.27
83 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (81 bp):
TTTGGTAATTTTAAAAATCAAGGGTATTTCTATAATTTTCCAAATCAATGGTATTTTGGTAATTT
TACAAACTAGGGGTAT
Found at i:21459654 original size:54 final size:54
Alignment explanation
Indices: 21459311--21459663 Score: 237
Period size: 54 Copynumber: 6.5 Consensus size: 54
21459301 TACAAGGGTG
* * * * * * * ** *
21459311 TTTGGTAAATCTACAAACCAAGGGCATTTCGATAATTATGCAAACCAATGATAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCAGGGGTAT
* ** * *
21459365 TTTTGTAATTTTTGAAAGTCAAGGGTATTTCT-ATAATTTTATAAATCAGGGGTAT
1 TTTGGTAATTTTACAAA-CCAAGGGTATTT-TGATAATTTTACAAATCAGGGGTAT
* * ** * * * *
21459420 TTCT-ATAATTTTCCAAATTAATGGTATTTTGGTAATTTTCCAAATTAGGGGTAT
1 TT-TGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCAGGGGTAT
* *** * * * *
21459474 TTTGGTAATTTTAAAAATTGAGGGTATTTCGATACTTTTACAAGTC-GATGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCAG-GGGTAT
** * * * *
21459528 TTTGGTAATTTTACAGGTCGAA-GGTATTTTGGTAATTTCACAAATCAAGGGTAT
1 TTTGGTAATTTTACA-AACCAAGGGTATTTTGATAATTTTACAAATCAGGGGTAT
** * * *
21459582 TTTAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCAGGGGTAT
**
21459636 TTTGGTAATTTTGTAAACCAAGGGTATT
1 TTTGGTAATTTTACAAACCAAGGGTATT
21459664 CAGTAATTCT
Statistics
Matches: 227, Mismatches: 63, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
53 6 0.03
54 181 0.80
55 39 0.17
56 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTGGTAATTTTACAAACCAAGGGTATTTTGATAATTTTACAAATCAGGGGTAT
Found at i:21459697 original size:27 final size:27
Alignment explanation
Indices: 21459665--21459724 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
21459655 AAGGGTATTC
*
21459665 AGTAATTCTGCCCTACAGGGGCATTTT
1 AGTAATTCTACCCTACAGGGGCATTTT
*
21459692 AGTAATTCTACCCTACAGGGGTATTTT
1 AGTAATTCTACCCTACAGGGGCATTTT
21459719 AGTAAT
1 AGTAAT
21459725 ACTAGCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
AGTAATTCTACCCTACAGGGGCATTTT
Found at i:21467802 original size:53 final size:53
Alignment explanation
Indices: 21467722--21467828 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
21467712 AAGTTCTAAG
*
21467722 TCATGCGTCGGATAATTCTTTTCGTGTGGCTTCAACTGCTGCGAACCATAGGC
1 TCATGCGTCGGATAATTCTTCTCGTGTGGCTTCAACTGCTGCGAACCATAGGC
21467775 TCATGCGTCGGATAATTCTTCTCGTGTGGCTTCAACTGCTGCGAACCATAGGC
1 TCATGCGTCGGATAATTCTTCTCGTGTGGCTTCAACTGCTGCGAACCATAGGC
21467828 T
1 T
21467829 ATCACCTTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (53 bp):
TCATGCGTCGGATAATTCTTCTCGTGTGGCTTCAACTGCTGCGAACCATAGGC
Found at i:21484040 original size:39 final size:39
Alignment explanation
Indices: 21483999--21484267 Score: 421
Period size: 39 Copynumber: 6.9 Consensus size: 39
21483989 TACCAGTACA
** * *
21483999 AAGCCTGCGGGACTTTAACCCGGATACATTTCCCGCACA
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
*
21484038 AAGCCTGCGGGACTTTGGCCCAGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
*
21484077 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
* *
21484116 AAGACTGCGGGACTTTGGCCCGGATACATTTCCAGAACG
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
21484155 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
* *
21484194 AAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACA
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
* **
21484233 AAGCCTGCGAGACTTTACCCCGGATACATTTCCAG
1 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAG
21484268 TGTCTTGCAT
Statistics
Matches: 212, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 212 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
Found at i:21487177 original size:1 final size:1
Alignment explanation
Indices: 21487171--21487209 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
21487161 ACTGAAGTCC
21487171 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21487210 CCGAACCCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21488569 original size:27 final size:27
Alignment explanation
Indices: 21488539--21488716 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
21488529 ATATTGAGCC
* *
21488539 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
21488566 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21488593 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21488621 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21488648 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
21488675 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
21488702 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21488717 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21488651 original size:55 final size:54
Alignment explanation
Indices: 21488539--21488716 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
21488529 ATATTGAGCC
* * * * *
21488539 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
21488593 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
21488648 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
21488702 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21488717 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:21496451 original size:27 final size:27
Alignment explanation
Indices: 21496421--21496598 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
21496411 ATATTGAGCC
* *
21496421 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
21496448 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21496475 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21496503 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21496530 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
21496557 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
21496584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21496599 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21496533 original size:55 final size:54
Alignment explanation
Indices: 21496421--21496598 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
21496411 ATATTGAGCC
* * * * *
21496421 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
21496475 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
21496530 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
21496584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21496599 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:21499269 original size:40 final size:40
Alignment explanation
Indices: 21499213--21499430 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
21499203 CGGATGATAA
* *
21499213 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
21499253 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21499293 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21499333 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21499373 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
21499413 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21499431 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21504018 original size:40 final size:40
Alignment explanation
Indices: 21503949--21504083 Score: 236
Period size: 40 Copynumber: 3.4 Consensus size: 40
21503939 AACCCAAGTA
* *
21503949 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
21503988 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
21504028 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
21504068 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
21504084 TGGTTATCAT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 12 0.13
40 79 0.87
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:21505618 original size:13 final size:13
Alignment explanation
Indices: 21505600--21505625 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21505590 ATTTTTATTT
21505600 TTAACATAAAATA
1 TTAACATAAAATA
21505613 TTAACATAAAATA
1 TTAACATAAAATA
21505626 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:21512122 original size:40 final size:40
Alignment explanation
Indices: 21512053--21512190 Score: 251
Period size: 40 Copynumber: 3.5 Consensus size: 40
21512043 AACCCAAGTA
* *
21512053 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
21512092 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
21512132 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
21512172 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21512191 TTATCATCCG
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
39 13 0.14
40 83 0.86
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:21513725 original size:13 final size:13
Alignment explanation
Indices: 21513707--21513732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21513697 ATTTTTATTT
21513707 TTAACATAAAATA
1 TTAACATAAAATA
21513720 TTAACATAAAATA
1 TTAACATAAAATA
21513733 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:21515889 original size:46 final size:47
Alignment explanation
Indices: 21515803--21515977 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 47
21515793 GTATATCTGT
* *
21515803 GCTGATGCTATGTCCTAGATATGGTCTTACACT-GAC--ACATCTCGTA
1 GCTGATGC-ATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCGTA
*
21515849 GTTGATGCATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCG-A
1 GCTGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
* * * * *
21515894 GGCAGATTCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 -GCTGA-TGCATGTCCCAGACATGGTCTTACACTAGCT-TACAT-CTCGTA
*
21515943 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCT
1 GCTGATGCATGTCCCAGACATGGTCTTACACTAGCT
21515978 CACACAAGTG
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.10
45 13 0.12
46 31 0.29
47 30 0.28
48 21 0.19
49 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (47 bp):
GCTGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
Found at i:21515912 original size:47 final size:46
Alignment explanation
Indices: 21515856--21515978 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 46
21515846 GTAGTTGATG
*
21515856 CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGGCAGATTC
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-GAGGCAGA-TC
* * * *
21515903 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGAGGCAGATC
21515950 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
21515979 ACACAAGTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
46 14 0.21
47 29 0.43
48 22 0.33
49 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCAGATC
Found at i:21520185 original size:20 final size:19
Alignment explanation
Indices: 21520144--21520189 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
21520134 ATTAGAATGT
21520144 AAAAATTAAACTAAAAACA
1 AAAAATTAAACTAAAAACA
* *
21520163 AAAATATTAAATTAAAATAAA
1 AAAA-ATTAAACTAAAA-ACA
21520184 AAAAAT
1 AAAAAT
21520190 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 13 0.57
21 6 0.26
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAACTAAAAACA
Found at i:21525958 original size:25 final size:25
Alignment explanation
Indices: 21525930--21525999 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
21525920 ATCTTTTAAT
21525930 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
21525955 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
21525980 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21526000 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:21526058 original size:10 final size:10
Alignment explanation
Indices: 21526045--21526079 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
21526035 ATATATGTAT
21526045 ATATCATGGC
1 ATATCATGGC
21526055 ATATCATGTGC
1 ATATCATG-GC
21526066 ATATCATGGC
1 ATATCATGGC
21526076 ATAT
1 ATAT
21526080 TATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:21526092 original size:21 final size:21
Alignment explanation
Indices: 21526033--21526092 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
21526023 CCCAACCCAT
*
21526033 GCATA-TATGTATATATCATG
1 GCATATTATGTACATATCATG
* *
21526053 GCATATCATGTGCATATCATG
1 GCATATTATGTACATATCATG
*
21526074 GCATATTATGTACAAATCA
1 GCATATTATGTACATATCA
21526093 GTATCACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
GCATATTATGTACATATCATG
Found at i:21531008 original size:104 final size:104
Alignment explanation
Indices: 21530892--21531081 Score: 362
Period size: 104 Copynumber: 1.8 Consensus size: 104
21530882 ACCTTGAGCC
*
21530892 TACTACCAACATCAAGCCCTTTCCCTTTTCCTTTACCTTTTCCCTTCACAATCGATGCCCTAGCC
1 TACTACCAACATCAAGCCCTTTCCCTTTTCCTTTACCTTTGCCCTTCACAATCGATGCCCTAGCC
*
21530957 ATAGATTCCTTATTTTCCCCTCCTGATTGTGGCTACCTT
66 ATAGATTCCTCATTTTCCCCTCCTGATTGTGGCTACCTT
21530996 TACTACCAACATCAAGCCCTTTCCCTTTTCCTTTACCTTTGCCCTTCACAATCGATGCCCTAGCC
1 TACTACCAACATCAAGCCCTTTCCCTTTTCCTTTACCTTTGCCCTTCACAATCGATGCCCTAGCC
21531061 ATAGATTCCTCATTTTCCCCT
66 ATAGATTCCTCATTTTCCCCT
21531082 TCTAATTGAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 84 1.00
ACGTcount: A:0.19, C:0.37, G:0.08, T:0.36
Consensus pattern (104 bp):
TACTACCAACATCAAGCCCTTTCCCTTTTCCTTTACCTTTGCCCTTCACAATCGATGCCCTAGCC
ATAGATTCCTCATTTTCCCCTCCTGATTGTGGCTACCTT
Found at i:21534495 original size:12 final size:12
Alignment explanation
Indices: 21534478--21534502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21534468 GTCGTAAACA
21534478 GCCTACCACACG
1 GCCTACCACACG
21534490 GCCTACCACACG
1 GCCTACCACACG
21534502 G
1 G
21534503 TCTATGTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.48, G:0.20, T:0.08
Consensus pattern (12 bp):
GCCTACCACACG
Found at i:21548603 original size:25 final size:25
Alignment explanation
Indices: 21548571--21548628 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
21548561 TACTTTTATC
21548571 TTTA-TTTATCTT-CTTTAAGTACTT
1 TTTATTTTATCTTCCTTTAA-TACTT
* *
21548595 TTTATTTTATTTTCCTTTAATATTT
1 TTTATTTTATCTTCCTTTAATACTT
21548620 TTTCATTTT
1 TTT-ATTTT
21548629 TAGGTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.14
25 14 0.48
26 11 0.38
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTATTTTATCTTCCTTTAATACTT
Found at i:21550934 original size:16 final size:17
Alignment explanation
Indices: 21550903--21550935 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21550893 TCCCTTAGAA
*
21550903 GTTTTGGTTTTCTTTAT
1 GTTTTGGTTATCTTTAT
21550920 GTTTT-GTTATCTTTAT
1 GTTTTGGTTATCTTTAT
21550936 TCTTTTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (17 bp):
GTTTTGGTTATCTTTAT
Found at i:21551769 original size:75 final size:76
Alignment explanation
Indices: 21551646--21551799 Score: 292
Period size: 75 Copynumber: 2.0 Consensus size: 76
21551636 CATGCCTTCA
21551646 TCGTGATAATATTTAGTTTCAAGAATGATTAATTATAAATTTTAAAAA-CTGTCGCGAATATCAC
1 TCGTGATAATATTTAGTTTCAAGAATGATTAATTATAAATTTTAAAAACCTGTCGCGAATATCAC
21551710 GTATCACGCAC
66 GTATCACGCAC
*
21551721 TCGTGATAATATTTAGTTTCAAGAATGATTAATTATAAATTTTTAAAACCTGTCGCGAATATCAC
1 TCGTGATAATATTTAGTTTCAAGAATGATTAATTATAAATTTTAAAAACCTGTCGCGAATATCAC
21551786 GTATCACGCAC
66 GTATCACGCAC
21551797 TCG
1 TCG
21551800 AAAGACTATT
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 47 0.61
76 30 0.39
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (76 bp):
TCGTGATAATATTTAGTTTCAAGAATGATTAATTATAAATTTTAAAAACCTGTCGCGAATATCAC
GTATCACGCAC
Found at i:21558104 original size:17 final size:18
Alignment explanation
Indices: 21558082--21558115 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21558072 CACATTAAAG
21558082 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
21558099 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
21558116 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:21559420 original size:28 final size:28
Alignment explanation
Indices: 21559361--21559508 Score: 197
Period size: 28 Copynumber: 5.2 Consensus size: 28
21559351 ATCCATACTT
* * *
21559361 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
*
21559390 ATTCATATGGCCCATTGGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* *
21559418 ATTCATATGGCCCACTAAGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
*
21559446 ATTCATATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* * *
21559474 TTTCATATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
21559502 ATTCATA
1 ATTCATA
21559509 ATCATGCAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 97 0.92
29 9 0.08
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:21559747 original size:16 final size:16
Alignment explanation
Indices: 21559726--21559756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21559716 CAAAAGTTCT
*
21559726 AGCTTTTTGGCATTTA
1 AGCTTTTCGGCATTTA
21559742 AGCTTTTCGGCATTT
1 AGCTTTTCGGCATTT
21559757 CGAGATTTGC
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:0.16, G:0.19, T:0.48
Consensus pattern (16 bp):
AGCTTTTCGGCATTTA
Found at i:21566638 original size:20 final size:20
Alignment explanation
Indices: 21566613--21566651 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21566603 AGCTGCTATG
21566613 GTATTCATGCTTAAGATTTA
1 GTATTCATGCTTAAGATTTA
21566633 GTATTCATGCTTAAGATTT
1 GTATTCATGCTTAAGATTT
21566652 GGTGCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
GTATTCATGCTTAAGATTTA
Found at i:21566906 original size:13 final size:13
Alignment explanation
Indices: 21566888--21566912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21566878 AATTGATATC
21566888 TGTGAAAATTTTG
1 TGTGAAAATTTTG
21566901 TGTGAAAATTTT
1 TGTGAAAATTTT
21566913 ATCGTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:21568133 original size:43 final size:42
Alignment explanation
Indices: 21568028--21568145 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
21568018 GATTTAAGAT
* * *
21568028 TTACATGTAAGACCATGTCTGGGACATTGACATCATATATGT
1 TTACATGTAAGACCACGTCTGGGACATTGGCATCATATATGA
* * * *
21568070 TTTCGTGTAAGA-CACTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACATTGGCATC-ATATATGA
21568113 TTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TTACATGTAAGACCACGTCTGGGACATTGGCAT
21568146 TGTACGAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.03
42 26 0.41
43 32 0.51
44 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACATTGGCATCATATATGA
Found at i:21568140 original size:85 final size:86
Alignment explanation
Indices: 21567976--21568141 Score: 225
Period size: 86 Copynumber: 1.9 Consensus size: 86
21567966 TAGGATTCTG
* *
21567976 ATATGTGTTTTCGTGTAAGAACACATTTGGGACGTTGGTATCGATTTAAGATTTACATGTAAGAC
1 ATATATGTTTTCGTGTAAGAACACATTTGGGACGTTGGCATCGATTTAAGATTTACATGTAAGAC
*
21568041 CATGTCTGGGACATTGACATC
66 CACGTCTGGGACATTGACATC
*
21568062 ATATATGTTTTCGTGTAAG-ACAC-TGTCTGGGACAG-TGGCATCGATATT-TGA-TTACATGTA
1 ATATATGTTTTCGTGTAAGAACACAT-T-TGGGAC-GTTGGCATCGAT-TTAAGATTTACATGTA
21568122 AGACCACGTCTGGGACATTG
62 AGACCACGTCTGGGACATTG
21568142 GCATTGTACG
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
84 1 0.01
85 33 0.46
86 35 0.49
87 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (86 bp):
ATATATGTTTTCGTGTAAGAACACATTTGGGACGTTGGCATCGATTTAAGATTTACATGTAAGAC
CACGTCTGGGACATTGACATC
Found at i:21568158 original size:85 final size:86
Alignment explanation
Indices: 21567981--21568141 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 86
21567971 TTCTGATATG
* *
21567981 TGTTTTCGTGTAAGAACACATTTGGGACGTTGGTATCGATTTAAGATTTACATGTAAGACCATGT
1 TGTTTTCGTGTAAGAACACATTTGGGACGTTGGCATCGATTTAAGATTTACATGTAAGACCACGT
*
21568046 CTGGGACATTGACATCATATA
66 CTGGGACATTGACATCATAGA
*
21568067 TGTTTTCGTGTAAG-ACAC-TGTCTGGGACAG-TGGCATCGATATT-TGA-TTACATGTAAGACC
1 TGTTTTCGTGTAAGAACACAT-T-TGGGAC-GTTGGCATCGAT-TTAAGATTTACATGTAAGACC
21568127 ACGTCTGGGACATTG
62 ACGTCTGGGACATTG
21568142 GCATTGTACG
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
84 1 0.01
85 33 0.49
86 31 0.46
87 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (86 bp):
TGTTTTCGTGTAAGAACACATTTGGGACGTTGGCATCGATTTAAGATTTACATGTAAGACCACGT
CTGGGACATTGACATCATAGA
Found at i:21573380 original size:46 final size:46
Alignment explanation
Indices: 21573324--21573496 Score: 258
Period size: 46 Copynumber: 3.8 Consensus size: 46
21573314 TATTTGGGCA
* *
21573324 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
21573370 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
21573416 TCCGAACTCGTTGAGTT-ATGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGA-GTCCGAGTTCACTTATGGATGCGAACG
* * * * *
21573462 CCCGAGCTTGTTGAGTTTAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
21573497 AGGCGGTTAC
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
45 1 0.01
46 116 0.98
47 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:21583003 original size:32 final size:33
Alignment explanation
Indices: 21582957--21583020 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
21582947 AACGGTGGGT
21582957 ACTAGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTAGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
21582989 ACTAGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTAGGCCGAAGCCCCTTTTCAGATAACAGTA
21583021 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (33 bp):
ACTAGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:21583393 original size:27 final size:26
Alignment explanation
Indices: 21583337--21583393 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
21583327 CAACCTTAAC
* * *
21583337 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
21583363 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
21583390 CCTA
1 CCTA
21583394 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:21585515 original size:19 final size:18
Alignment explanation
Indices: 21585484--21585527 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
21585474 ATACATACAG
21585484 TAAT-ATTTTTCTCATAA
1 TAATAATTTTTCTCATAA
21585501 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTCATAA
*
21585520 TACTAATT
1 TAATAATT
21585528 AAAATTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 15 0.62
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTCATAA
Found at i:21595966 original size:39 final size:40
Alignment explanation
Indices: 21595863--21596086 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
21595853 TTGAATGATG
*
21595863 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
21595902 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21595943 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21595982 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21596021 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21596060 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21596087 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 74 0.45
40 77 0.47
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21596050 original size:79 final size:81
Alignment explanation
Indices: 21595863--21596086 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
21595853 TTGAATGATG
* * * *
21595863 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCTGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
21595925 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
21595943 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
21596005 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
21596021 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
21596085 TG
66 TG
21596087 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 54 0.42
80 37 0.29
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:21596108 original size:79 final size:79
Alignment explanation
Indices: 21595863--21596119 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
21595853 TTGAATGATG
* * * * *
21595863 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCTGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
21595925 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
21595943 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
21596007 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
21596021 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
21596085 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
21596101 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21596120 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 35 0.23
79 68 0.44
80 48 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:21603538 original size:40 final size:39
Alignment explanation
Indices: 21603454--21603638 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 39
21603444 TTGAATGATG
* *
21603454 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
21603494 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
21603534 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
21603573 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
21603614 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
21603639 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21603590 original size:79 final size:81
Alignment explanation
Indices: 21603454--21603638 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
21603444 TTGAATGATG
21603454 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
21603518 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
21603533 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
21603594 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* * *
21603613 ACCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21603639 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 56 0.61
80 35 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:21603661 original size:79 final size:79
Alignment explanation
Indices: 21603507--21603671 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
21603497 GGACTAAGAT
* * ** *
21603507 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
21603572 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* *
21603586 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGAGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
21603649 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
21603665 CCGAAGG
1 CCGAAGG
21603672 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGAGTTAAATC
Found at i:21611062 original size:40 final size:39
Alignment explanation
Indices: 21610978--21611162 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 39
21610968 TTGAATGATG
* *
21610978 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
21611018 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
21611058 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
21611097 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
21611138 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
21611163 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21611114 original size:79 final size:81
Alignment explanation
Indices: 21610978--21611162 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
21610968 TTGAATGATG
21610978 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
21611042 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
21611057 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
21611118 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGATACTATA
* * *
21611137 ACCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21611163 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 56 0.61
80 35 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:21611185 original size:79 final size:79
Alignment explanation
Indices: 21611031--21611195 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
21611021 GGACTAAGAT
* * ** *
21611031 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
21611096 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* *
21611110 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGAGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
21611173 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
21611189 CCGAAGG
1 CCGAAGG
21611196 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGAGTTAAATC
Found at i:21618653 original size:39 final size:39
Alignment explanation
Indices: 21618553--21618776 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 39
21618543 TTGAATGATG
*
21618553 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
21618592 ATCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21618633 TCCAGGCTAAGCCTGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21618672 TACGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21618711 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
21618750 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
21618777 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
39 66 0.43
40 76 0.49
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Done.