Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 77 of 185
Found at i:24183655 original size:129 final size:129
Alignment explanation
Indices: 24182724--24183661 Score: 770
Period size: 129 Copynumber: 7.3 Consensus size: 129
24182714 AATTCCTCGG
* * * *
24182724 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
* *
24182789 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCGA
66 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
*
24182853 TCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
* *
24182918 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCGA
66 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
*
24182982 TCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
*
24183047 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
66 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
* * * * * * ** *
24183111 TTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGAAATTTTTCGATCTGTTCCACTGTAA-TCT
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTG--A---TACAATCTACTCTACTGTAACT-T
* * ** *** * * * *
24183175 CAGGGAAATAAGA-CC--TGGTGCGATCTGCTCTACTTTAA-CTTCAGAGAGATAAGA-T-C---
60 CAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATC-TCAGGGAGATAGGATTACTAG
**
24183231 CTTTAA
124 CTTCGA
* * * * * * * ** *
24183237 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTATAA-TCTCA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATACAATCTACTCTACTGTAACT-TCA
* ** ** * * * *
24183301 GGGAGATAAGAT-CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCT-G
62 GAGAGATAAGATCCT-TTATT-TT-AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAG
* *
24183362 GTGCGA
124 CTTCGA
* * * * ** *
24183368 TCTGCTCTACTTTAA-CTTCAGAGAGATAAGATCCT--T-TAATCCGCTCCACTGTAA-TCTCAG
1 TCTGCTCCACTGTAATC-TCAGGGAGATAAGA-CCTGATACAATCTACTCTACTGTAACT-TCAG
* * * * * * * * * *
24183428 GGAGATAGGAT--TACTAGCTTCAATTTGCTCCGCTATAATCTCAGGGAGATAAGATCTGA-AAT
63 AGAGATAAGATCCT-TTA-TTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTA-
**
24183490 TTTTCGA
123 GCTTCGA
* * * * *
24183497 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
* * *
24183562 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATATTAGGGAGATAGGATTACTAGCTTCAA
66 GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
* *
24183626 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA
24183662 AATTCTTCGG
Statistics
Matches: 656, Mismatches: 117, Indels: 72
0.78 0.14 0.09
Matches are distributed among these distances:
124 57 0.09
125 3 0.00
126 61 0.09
127 2 0.00
128 5 0.01
129 372 0.57
130 11 0.02
131 111 0.17
132 3 0.00
133 4 0.01
134 27 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACAATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
Found at i:24192452 original size:21 final size:21
Alignment explanation
Indices: 24192426--24192479 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
24192416 CGGGCTAGGC
*
24192426 CAAGCTCGAACCTTAAATGTT
1 CAAGCTCGAACCTTAAACGTT
24192447 CAAGCTCGAACCTTAAACGTT
1 CAAGCTCGAACCTTAAACGTT
* *
24192468 TAAGCTTGAACC
1 CAAGCTCGAACC
24192480 CGGCCCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (21 bp):
CAAGCTCGAACCTTAAACGTT
Found at i:24193029 original size:33 final size:33
Alignment explanation
Indices: 24192992--24193056 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
24192982 CTAGGATTAG
24192992 TCGAATTAAATTGAACTTTAAACTTCAAAATGT
1 TCGAATTAAATTGAACTTTAAACTTCAAAATGT
*
24193025 TCGAATTAAATTGATCTTTAAACTTCAAAATG
1 TCGAATTAAATTGAACTTTAAACTTCAAAATG
24193057 GTTTAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (33 bp):
TCGAATTAAATTGAACTTTAAACTTCAAAATGT
Found at i:24193432 original size:24 final size:24
Alignment explanation
Indices: 24193386--24193432 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24193376 TTTTTTTTCA
*
24193386 AATCGACTTTAGTTGAGTAAATTG
1 AATCGACTTTAGTTCAGTAAATTG
*
24193410 AATCGACTTT-GATTCAGTCAATT
1 AATCGACTTTAG-TTCAGTAAATT
24193433 TTATTTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (24 bp):
AATCGACTTTAGTTCAGTAAATTG
Found at i:24200163 original size:25 final size:25
Alignment explanation
Indices: 24200126--24200211 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 25
24200116 CATAATTGAA
**
24200126 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATATATTGATTTTGTATATT
* *
24200151 ATGAAATATATTGATTATGAATATT
1 ATGAAATATATTGATTTTGTATATT
24200176 GAATTG-AATATATGTGATATTGTGTATA-T
1 --A-TGAAATATAT-TGAT-TT-TGTATATT
24200205 ATGAAAT
1 ATGAAAT
24200212 TGAGACATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
25 21 0.44
26 2 0.04
27 12 0.25
28 6 0.12
29 2 0.04
30 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (25 bp):
ATGAAATATATTGATTTTGTATATT
Found at i:24200593 original size:27 final size:27
Alignment explanation
Indices: 24200563--24200617 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24200553 TGAAATGAAT
*
24200563 ATGAGACGAGAAATGAAATATGAAATA
1 ATGAAACGAGAAATGAAATATGAAATA
* ** *
24200590 ATGAAATGAGATGTGAATTATGAAATA
1 ATGAAACGAGAAATGAAATATGAAATA
24200617 A
1 A
24200618 AATCGAGTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.24
Consensus pattern (27 bp):
ATGAAACGAGAAATGAAATATGAAATA
Found at i:24204753 original size:56 final size:56
Alignment explanation
Indices: 24204617--24204753 Score: 154
Period size: 56 Copynumber: 2.4 Consensus size: 56
24204607 AAATGGAAGT
** *
24204617 ATAAGTAATATCGAATTTAAATA-TTAAAAAATAAAAGAATAATAAATAAATAGGTAA
1 ATAAGTAATATTAAATTTAAGTATTTAAAAAATAAAAGAATAATAAATAAATA-G-AA
** * *
24204674 A-ACAAAAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAATAAATGAATA-AA
1 ATA-AGTAATATTAAATTTAAGTATTTAAAAAATAAAAGAAT-AATAAATAAATAGAA
24204730 ATAAGTAATATTAAATTTAAGTAT
1 ATAAGTAATATTAAATTTAAGTAT
24204754 ATGAGAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
56 23 0.34
57 17 0.25
58 16 0.24
59 11 0.16
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (56 bp):
ATAAGTAATATTAAATTTAAGTATTTAAAAAATAAAAGAATAATAAATAAATAGAA
Found at i:24206372 original size:44 final size:43
Alignment explanation
Indices: 24206322--24207010 Score: 190
Period size: 45 Copynumber: 15.3 Consensus size: 43
24206312 ATTTTAACCT
* *
24206322 ACTGCAACTTTAGGGGTATAAA-ACTTGTAGTTTTAATCTACTCC
1 ACTGCAACTTTAGGGG-A-AAAGACTTGTAGCTTCAATCTACTCC
*
24206366 ACTGCAACTTCA-GGGAAAAGACTTGTAGCTTCAATCTACTCC
1 ACTGCAACTTTAGGGGAAAAGACTTGTAGCTTCAATCTACTCC
* * * * ** *
24206408 ACTGCAACTTTAGAGAGGTAAGATCTGTAACTTGTATCTTTAATATGTTAC
1 ACTGCAACTTTAG-G-GG-AA-A--AG--ACTTGTAGCTTCAATCTACTCC
* * * ** * *
24206459 ACTACAACTTTAGGGAGATACGATTTGCTATGGTAAATTTAATCCGAC-CC
1 ACTGCAACTTTAGGG-GAAAAGA----CT-T-GTAGCTTCAAT-CTACTCC
* * * * * **
24206509 ACTACAACTTCAGAGGTATAGGA-TT-TATTTTCAATCTACTCC
1 ACTGCAACTTTAG-GGGAAAAGACTTGTAGCTTCAATCTACTCC
* * * * *
24206551 GCTGCAA-TTTCAGGGAGATAAGACTTGTAGATTTAATCTTGCTCC
1 ACTGCAACTTT-AGGG-GAAAAGACTTGTAGCTTCAATC-TACTCC
* * * * *
24206596 ACTGCAACTTTAGAGAGATAAGATTTGTAACTTTAATCTACTCC
1 ACTGCAACTTTAG-GGGAAAAGACTTGTAGCTTCAATCTACTCC
* * * * * *
24206640 ACTGCAACTTCAGGGAGATAAGATTTGT-GACTTCAATCTGCGCT
1 ACTGCAACTTTAGGG-GAAAAGACTTGTAG-CTTCAATCTACTCC
* * * * * * *
24206684 ACAGCAATTTTAGAGTGATAAGATTTGCTATCTTCAATCTGCTCC
1 ACTGCAACTTTAG-GGGAAAAGACTTG-TAGCTTCAATCTACTCC
* * ** * * *
24206729 ACTGCAACTTCAGGGAGATAAGTTTTGCTATCTTCAATTTGCTCC
1 ACTGCAACTTTAGGG-GAAAAGACTTG-TAGCTTCAATCTACTCC
* * * * * *
24206774 ACTGCAACTTTAGGGAGATAAGATTTGTGGTTTTAATCTGCTCC
1 ACTGCAACTTTAGGG-GAAAAGACTTGTAGCTTCAATCTACTCC
* * * *
24206818 ACTGCAACTTCAGGGAGATAAGA-TTGGT-GACTTCAATCTGCTCT
1 ACTGCAACTTTAGGG-GAAAAGACTT-GTAG-CTTCAATCTACTCC
* * * * ** *
24206862 ACTGCAATTTTAGAGTGATAAGATTTGCTATATTCAATCTGCTCC
1 ACTGCAACTTTAG-GGGAAAAGACTTG-TAGCTTCAATCTACTCC
* * * * * * *
24206907 ACCGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCC
1 ACTGCAACTTTAG-GGGAAAAGACTTG-TAGCTTCAATCTACTCC
* * * * * * * * *
24206952 ACTGCAACTTCAAGGAGATAAGATTTGTGGTTTTAATTTGCTCC
1 ACTGCAACTT-TAGGGGAAAAGACTTGTAGCTTCAATCTACTCC
24206996 ACTGCAACTTTAGGG
1 ACTGCAACTTTAGGG
24207011 AGATAAGATT
Statistics
Matches: 511, Mismatches: 94, Indels: 81
0.74 0.14 0.12
Matches are distributed among these distances:
41 10 0.02
42 53 0.10
43 12 0.02
44 171 0.33
45 189 0.37
46 9 0.02
47 1 0.00
48 3 0.01
49 4 0.01
50 29 0.06
51 30 0.06
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (43 bp):
ACTGCAACTTTAGGGGAAAAGACTTGTAGCTTCAATCTACTCC
Found at i:24206402 original size:42 final size:44
Alignment explanation
Indices: 24206322--24206417 Score: 135
Period size: 42 Copynumber: 2.2 Consensus size: 44
24206312 ATTTTAACCT
* * *
24206322 ACTGCAACTTTAGGGGTATAAAACTTGTAGTTTTAATCTACTCC
1 ACTGCAACTTCAGGGGTATAAAACTTGTAGCTTCAATCTACTCC
24206366 ACTGCAACTTCA-GGG-A-AAAGACTTGTAGCTTCAATCTACTCC
1 ACTGCAACTTCAGGGGTATAAA-ACTTGTAGCTTCAATCTACTCC
24206408 ACTGCAACTT
1 ACTGCAACTT
24206418 TAGAGAGGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
41 3 0.06
42 31 0.65
43 3 0.06
44 11 0.23
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGGTATAAAACTTGTAGCTTCAATCTACTCC
Found at i:24206616 original size:45 final size:44
Alignment explanation
Indices: 24206538--24207022 Score: 483
Period size: 45 Copynumber: 10.9 Consensus size: 44
24206528 AGGATTTATT
* * *
24206538 TTCAATCTACTCCGCTGCAA-TTTCAGGGAGATAAGACTTGTAGA
1 TTCAATCTGCTCCACTGCAACTTT-AGGGAGATAAGATTTGTAGA
* *
24206582 TTTAATCTTGCTCCACTGCAACTTTAGAGAGATAAGATTTGTA-A
1 TTCAATC-TGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGA
* * *
24206626 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-GA
1 -TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGA
* * * * * * **
24206670 CTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATC
1 -TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGA
* * **
24206716 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGA
* * *
24206761 TTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGT
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGA
* * *
24206805 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGT-GA
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGA
* * * * *
24206848 CTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTTGCTATA
1 -TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGA
* * * **
24206894 TTCAATCTGCTCCACCGCAACTTCAGAGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGA
* * * *
24206939 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTGGT
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGA
* *
24206983 TTTAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTG
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG
24207023 CCATGATAAC
Statistics
Matches: 370, Mismatches: 62, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.00
44 179 0.48
45 186 0.50
46 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGA
Found at i:24206646 original size:89 final size:88
Alignment explanation
Indices: 24206322--24207022 Score: 553
Period size: 89 Copynumber: 7.8 Consensus size: 88
24206312 ATTTTAACCT
* * * ** *
24206322 ACTGCAACTTTAG-GGGTATAAAACTTGTAGTTTTAATCTACTCCACTGCAACTTCAGGGA-A-A
1 ACTGCAACTTTAGAGAG-ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
24206384 AGACTTGTAGCTTCAATCTACTCC
65 AGATTTGTAGATTCAATCTGCTCC
* * * * * * *
24206408 ACTGCAACTTTAGAGAGGTAAGATCTGTAACTTGTATCTTTAATATGTTACACTACAACTTTAGG
1 ACTGCAACTTTAGAGAGATAAGA----T---TTGTAACTTTAATCTGCTCCACTGCAACTTCAGG
* * *
24206473 GAGATACGATTTGCTATGGTAAATTTAATCCGAC-CC
59 GAGATAAGATTTG-TA--G---ATTCAATCTG-CTCC
* * * * * * *
24206509 ACTACAACTTCAGAG-GTATAGGA-TT-T-ATTTTCAATCTACTCCGCTGCAATTTCAGGGAGAT
1 ACTGCAACTTTAGAGAG-ATAAGATTTGTAACTTT-AATCTGCTCCACTGCAACTTCAGGGAGAT
* *
24206570 AAGACTTGTAGATTTAATCTTGCTCC
64 AAGATTTGTAGATTCAATC-TGCTCC
*
24206596 ACTGCAACTTTAGAGAGATAAGATTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTTAGAGAGATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
24206661 GATTTGT-GACTTCAATCTGCGCT
66 GATTTGTAGA-TTCAATCTGCTCC
* * * * *
24206684 ACAGCAATTTTAGAGTGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTTAGAGAGATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* ** *
24206749 AGTTTTGCTATCTTCAATTTGCTCC
65 AGATTTG-TAGATTCAATCTGCTCC
* ***
24206774 ACTGCAACTTTAGGGAGATAAGATTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTTAGAGAGATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
24206839 GATTGGT-GACTTCAATCTGCTCT
66 GATTTGTAGA-TTCAATCTGCTCC
* * * * *
24206862 ACTGCAATTTTAGAGTGATAAGATTTGCTATA-TTCAATCTGCTCCACCGCAACTTCAGAGAGAT
1 ACTGCAACTTTAGAGAGATAAGATTTG-TA-ACTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
**
24206926 AAGATTTGCTATCTTCAATCTGCTCC
64 AAGATTTG-TAGATTCAATCTGCTCC
* *** * *
24206952 ACTGCAACTTCA-AGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTTAGA-GAGATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
24207016 AGATTTG
65 AGATTTG
24207023 CCATGATAAC
Statistics
Matches: 486, Mismatches: 93, Indels: 69
0.75 0.14 0.11
Matches are distributed among these distances:
86 26 0.05
87 23 0.05
88 69 0.14
89 195 0.40
90 73 0.15
91 5 0.01
92 28 0.06
93 30 0.06
94 1 0.00
95 6 0.01
96 2 0.00
98 1 0.00
100 1 0.00
101 25 0.05
102 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (88 bp):
ACTGCAACTTTAGAGAGATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGTAGATTCAATCTGCTCC
Found at i:24206744 original size:178 final size:179
Alignment explanation
Indices: 24206538--24207022 Score: 735
Period size: 178 Copynumber: 2.7 Consensus size: 179
24206528 AGGATTTATT
* * * * ** *
24206538 TTCAATCTACTCCGCTGCAATTTCAGGGAGATAAGACTTG-TAGATTTAATCTTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTGCTCCACTGCA
*** *
24206602 ACTTTAGAGAGATAAGATTTGTAACTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
66 ACTTTAGAGAGATAAGATTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
*
24206667 TGACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATC
131 TGACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATA
*
24206716 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGCTATCTTCAAT-TTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTGCTCCACTGCA
* *
24206780 ACTTTAGGGAGATAAGATTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGG
66 ACTTTAGAGAGATAAGATTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* *
24206845 TGACTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTTGCTATA
131 TGACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATA
* *
24206894 TTCAATCTGCTCCACCGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATC-TGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTGCTCCACTGCA
* * *
24206958 ACTTCA-AGGAGATAAGATTTGTGGTTTTAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTT
66 ACTTTAGA-GAGATAAGATTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
24207022 G
130 G
24207023 CCATGATAAC
Statistics
Matches: 279, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
178 272 0.97
179 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (179 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTTGCTCCACTGCA
ACTTTAGAGAGATAAGATTTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
TGACTTCAATCTGCGCTACAGCAATTTTAGAGTGATAAGATTTGCTATA
Found at i:24218934 original size:19 final size:20
Alignment explanation
Indices: 24218907--24218960 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
24218897 ATCGAATTTT
*
24218907 AATATTAAAAAAATAAA-AG
1 AATAATAAAAAAATAAATAG
*
24218926 AATAATAAATAAATAAATAG
1 AATAATAAAAAAATAAATAG
*
24218946 AA-AAAACAAAAAATA
1 AATAATA-AAAAAATA
24218961 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (20 bp):
AATAATAAAAAAATAAATAG
Found at i:24218998 original size:4 final size:4
Alignment explanation
Indices: 24218989--24219014 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24218979 AAAGTAAAAG
24218989 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
24219015 ATAAGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:24219025 original size:64 final size:63
Alignment explanation
Indices: 24218888--24219038 Score: 180
Period size: 64 Copynumber: 2.4 Consensus size: 63
24218878 GAAGGGAAGT
* *
24218888 ATAAGTAATATCGAATTTTAA-TATTAAAAAAATAAAAGAATAATAAATAAATAAATAGAAAAA
1 ATAAGTAATAT-TAAATTTAAGTATTAAAAAAATAAAAGAATAATAAATAAATAAATAGAAAAA
* ** * * *
24218951 ACAAAAAATATTAAATTTAAGTATTTACAAAGTAAAAGAATAAATAAATAAATAAATA-AATAAA
1 ATAAGTAATATTAAATTTAAGTATTAAAAAAATAAAAGAAT-AATAAATAAATAAATAGAA-AAA
*
24219015 ATAAGTAATATTAAATTGAAGTAT
1 ATAAGTAATATTAAATTTAAGTAT
24219039 ATGAGAAATA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
62 7 0.10
63 27 0.37
64 39 0.53
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (63 bp):
ATAAGTAATATTAAATTTAAGTATTAAAAAAATAAAAGAATAATAAATAAATAAATAGAAAAA
Found at i:24220246 original size:21 final size:21
Alignment explanation
Indices: 24220220--24220261 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24220210 GCAGAGTAGT
*
24220220 TGGTGGTGGC-AGGCTAGGGTG
1 TGGTGGCGGCTAGG-TAGGGTG
24220241 TGGTGGCGGCTAGGTAGGGTG
1 TGGTGGCGGCTAGGTAGGGTG
24220262 CGGCGCTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.10, C:0.10, G:0.57, T:0.24
Consensus pattern (21 bp):
TGGTGGCGGCTAGGTAGGGTG
Found at i:24221885 original size:13 final size:14
Alignment explanation
Indices: 24221867--24221896 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24221857 CAATTTTTGG
24221867 GTTTTGA-TCTCGA
1 GTTTTGATTCTCGA
24221880 GTTTTGATTCTCGA
1 GTTTTGATTCTCGA
24221894 GTT
1 GTT
24221897 CAATTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.50
Consensus pattern (14 bp):
GTTTTGATTCTCGA
Found at i:24221910 original size:19 final size:20
Alignment explanation
Indices: 24221881--24221922 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
24221871 TGATCTCGAG
*
24221881 TTTTGATTCTCGAGTTCAAT
1 TTTTGATTCTCGAGTCCAAT
*
24221901 TTTTGA-TCTCTAGTCCAAT
1 TTTTGATTCTCGAGTCCAAT
24221920 TTT
1 TTT
24221923 CAAGTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (20 bp):
TTTTGATTCTCGAGTCCAAT
Found at i:24225243 original size:53 final size:53
Alignment explanation
Indices: 24225180--24225285 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
24225170 ACAGGGTATC
*
24225180 AACATATTTAACTACAATTAATTATCATTAATAATAAGGTTAAATTTGGCATT
1 AACATATTTAACTAAAATTAATTATCATTAATAATAAGGTTAAATTTGGCATT
24225233 AACATATTTAACTAAAATTAATTATCATTAATAATAAGGTTAAATTTGGCATT
1 AACATATTTAACTAAAATTAATTATCATTAATAATAAGGTTAAATTTGGCATT
24225286 TTCATCTACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (53 bp):
AACATATTTAACTAAAATTAATTATCATTAATAATAAGGTTAAATTTGGCATT
Found at i:24226757 original size:21 final size:22
Alignment explanation
Indices: 24226723--24226763 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24226713 CATGTACTTC
24226723 ATTTTGACATAATTTCATCCTT
1 ATTTTGACATAATTTCATCCTT
*
24226745 ATTTTGA-ATAATTTGATCC
1 ATTTTGACATAATTTCATCC
24226764 ATGCCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTTGACATAATTTCATCCTT
Found at i:24232343 original size:18 final size:18
Alignment explanation
Indices: 24232320--24232362 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
24232310 GAATAGATTT
24232320 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
24232338 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
24232356 TTAATTA
1 TTAATTA
24232363 TACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:24235790 original size:3 final size:3
Alignment explanation
Indices: 24235782--24235813 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24235772 TATGCTACCA
24235782 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24235814 GTGTTTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24236290 original size:22 final size:22
Alignment explanation
Indices: 24236265--24236319 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
24236255 TAGGAAGCAA
* *
24236265 AATGTAGATTAGTAGGCACCGT
1 AATGCAGATCAGTAGGCACCGT
*
24236287 AATGCAGATCAGTAGGCATCGT
1 AATGCAGATCAGTAGGCACCGT
* *
24236309 AGTGCAAATCA
1 AATGCAGATCA
24236320 CGTACAGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (22 bp):
AATGCAGATCAGTAGGCACCGT
Found at i:24243510 original size:3 final size:3
Alignment explanation
Indices: 24243502--24243550 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
24243492 TAATGTTCGT
24243502 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24243550 A
1 A
24243551 ATACAAAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24244574 original size:44 final size:44
Alignment explanation
Indices: 24244526--24244852 Score: 161
Period size: 44 Copynumber: 7.4 Consensus size: 44
24244516 AAGATTCGCT
* *
24244526 ATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACA
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* * ***
24244570 ATCTTTAACCTACTCCACTACTGCTCAGGGAGATAGGA-CTGGT
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
** * * * *
24244613 GGCTTAAATCTACTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACC
1 ATCTTTAATCTAC-TCCACTACT-GCTTAGGG-AGATAGGATCT-ACA
* * * * *
24244658 ATCTTTGATCTGCTTCACTACTGTTTAGGGAGACAGGATCTACA
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* * * ** * *
24244702 TTCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGAT-T--G
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* * * * * *
24244743 ATGGCTTAAATCTGCTTCC-CTACTACCTT-GGGAATATAAGAT-TCACC
1 AT--CTTTAATCTAC-TCCACTACT-GCTTAGGG-AGATAGGATCT-ACA
* * * *
24244790 GTCTTTGATCTACTCCACTACAGCTTAGGGAGACAGGATCTACA
1 ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
* *
24244834 ATCTTCAACCTACTCCACT
1 ATCTTTAATCTACTCCACT
24244853 GTTGCTCAGA
Statistics
Matches: 199, Mismatches: 65, Indels: 38
0.66 0.22 0.13
Matches are distributed among these distances:
41 1 0.01
43 34 0.17
44 130 0.65
45 33 0.17
47 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTTTAATCTACTCCACTACTGCTTAGGGAGATAGGATCTACA
Found at i:24244753 original size:132 final size:132
Alignment explanation
Indices: 24244516--24244861 Score: 557
Period size: 132 Copynumber: 2.6 Consensus size: 132
24244506 CCAGGGAAAG
* * *
24244516 AAGATTCGCTATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTTAACCT
1 AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
** *
24244581 ACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
66 ACTCCACTGTTGCTCAGGGAGATAGGACTGATGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
24244646 AT
131 AT
* * * *
24244648 AAGATTCACCATCTTTGATCTGCTTCACTACTGTTTAGGGAGACAGGATCTACATTCTTCAACCT
1 AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
* * *
24244713 ACTCCACTGTTGCTCAGGGAGATAGGATTGATGGCTTAAATCTGCTTCCCTACTACCTTGGGAAT
66 ACTCCACTGTTGCTCAGGGAGATAGGACTGATGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
24244778 AT
131 AT
* *
24244780 AAGATTCACCGTCTTTGATCTACTCCACTACAGCTTAGGGAGACAGGATCTACAATCTTCAACCT
1 AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
24244845 ACTCCACTGTTGCTCAG
66 ACTCCACTGTTGCTCAG
24244862 AGAGGTAAGG
Statistics
Matches: 195, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 195 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
AAGATTCACCATCTTTGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCT
ACTCCACTGTTGCTCAGGGAGATAGGACTGATGGCTTAAATCTACTTCCCTACTACCTTGGGAAG
AT
Found at i:24246306 original size:6 final size:6
Alignment explanation
Indices: 24246295--24246329 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
24246285 GGCCTCTCTC
24246295 CTTTTT CTTTTT CTTTTT -TTTTT C-TTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
24246330 ATCATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:24246316 original size:11 final size:11
Alignment explanation
Indices: 24246295--24246329 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
24246285 GGCCTCTCTC
24246295 CTTTTTCTTTTT
1 CTTTTT-TTTTT
24246307 CTTTTTTTTTT
1 CTTTTTTTTTT
*
24246318 CTTTTCTTTTT
1 CTTTTTTTTTT
24246329 C
1 C
24246330 ATCATTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:24246322 original size:16 final size:17
Alignment explanation
Indices: 24246296--24246328 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24246286 GCCTCTCTCC
24246296 TTTTTCTTTTTCTTTTT
1 TTTTTCTTTTTCTTTTT
24246313 TTTTTC-TTTTCTTTTT
1 TTTTTCTTTTTCTTTTT
24246329 CATCATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTTT
Found at i:24246363 original size:35 final size:35
Alignment explanation
Indices: 24246331--24246399 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
24246321 TTCTTTTTCA
24246331 TCATTTTCA-TTT-TTTATTTTTTGAAATATTTTT
1 TCATTTTCATTTTGTTTATTTTTTGAAATATTTTT
* * *
24246364 TGATTTTGATTTTGTTTTTTTTTTGAAATATTTTT
1 TCATTTTCATTTTGTTTATTTTTTGAAATATTTTT
24246399 T
1 T
24246400 GATCAGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 7 0.23
34 3 0.10
35 21 0.68
ACGTcount: A:0.19, C:0.03, G:0.07, T:0.71
Consensus pattern (35 bp):
TCATTTTCATTTTGTTTATTTTTTGAAATATTTTT
Found at i:24258490 original size:18 final size:20
Alignment explanation
Indices: 24258464--24258501 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24258454 AAACTACAAC
*
24258464 TCTACAAAAC-ATGGTTTTT
1 TCTACAAAACTAAGGTTTTT
24258483 TCTA-AAAACTAAGGTTTTT
1 TCTACAAAACTAAGGTTTTT
24258502 CGTAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (20 bp):
TCTACAAAACTAAGGTTTTT
Found at i:24263448 original size:27 final size:27
Alignment explanation
Indices: 24263417--24263487 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
24263407 TGTTCCGACC
24263417 CACAGCTCGTGTGAGCAG-GCTAATTTT
1 CACAGCTCGTGTGAGCAGAGC-AATTTT
* * *
24263444 TACAGCTTGTGTGAGCAGAGCCATTTT
1 CACAGCTCGTGTGAGCAGAGCAATTTT
*
24263471 CATAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
24263488 TACATGTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCAGAGCAATTTT
Found at i:24269517 original size:6 final size:6
Alignment explanation
Indices: 24269472--24269541 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 6
24269462 TGCCAGAAGC
* * * * *
24269472 AAATAA AAGAAAA AAATTAGA AAACAA AAATTA AACTAA AAATAA AAAAATA
1 AAATAA AA-ATAA AAA-TA-A AAATAA AAATAA AAATAA AAATAA AAATA-A
24269524 AAAT-A AAATAA AAATAA A
1 AAATAA AAATAA AAATAA A
24269542 TGGCTAAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
5 5 0.10
6 29 0.59
7 11 0.22
8 4 0.08
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:24270444 original size:26 final size:26
Alignment explanation
Indices: 24270415--24270490 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
24270405 CACCAATATC
* * *
24270415 GCAGCAAAACTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* *
24270441 GCAGCAATGCTGCTAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
*
24270467 GCAGCAAAGCTTCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
24270491 TATGTGGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:24270509 original size:27 final size:26
Alignment explanation
Indices: 24270427--24270511 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
24270417 AGCAAAACTG
* * * **
24270427 CCAGTAATAGTGATGCAGCAATGCTG
1 CCAGTAACAGTAATGCAGCAAAGCCA
* **
24270453 CTAGTAACAGTAATGCAGCAAAGCTT
1 CCAGTAACAGTAATGCAGCAAAGCCA
**
24270479 CCAGTAACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTA-ATGCAGCAAAGCCA
24270506 CCAGTA
1 CCAGTA
24270512 GAGTATACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 32 0.67
27 16 0.33
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGTAACAGTAATGCAGCAAAGCCA
Found at i:24270581 original size:32 final size:32
Alignment explanation
Indices: 24270545--24270626 Score: 92
Period size: 36 Copynumber: 2.4 Consensus size: 32
24270535 ATCCCACCCC
24270545 ATGCAGTATGTCATGCCATATAATATACGTGT
1 ATGCAGTATGTCATGCCATATAATATACGTGT
* * * *
24270577 ATGCAGTATGTCATACATGTCATTTATTATATGTGT
1 ATGCAGTATG---T-CATGCCATATAATATACGTGT
24270613 ATGCAGTATGTCAT
1 ATGCAGTATGTCAT
24270627 ACTCAATAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
32 13 0.31
33 1 0.02
35 1 0.02
36 27 0.64
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (32 bp):
ATGCAGTATGTCATGCCATATAATATACGTGT
Found at i:24270749 original size:27 final size:27
Alignment explanation
Indices: 24270705--24270793 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
24270695 TATAACAGTT
* *
24270705 ATTTTACCCTTTGAGGGTAATTC-AGTC
1 ATTTTACCCTTCGGGGGTAATTCGA-TC
24270732 ATTTTACCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGGGGGTAATTCGATC
24270759 ATTTTACCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGGGGGTAATTCGATC
24270786 ATTTTACC
1 ATTTTACC
24270794 ATGATTCGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTAATTCGATC
Found at i:24272288 original size:14 final size:14
Alignment explanation
Indices: 24272269--24272299 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24272259 TGATTGTTTT
*
24272269 TAATCTAAATTTAC
1 TAATCTAAATTAAC
24272283 TAATCTAAATTAAC
1 TAATCTAAATTAAC
24272297 TAA
1 TAA
24272300 GAATGCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:24273701 original size:15 final size:16
Alignment explanation
Indices: 24273677--24273710 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24273667 CACCGTATTA
24273677 TATTTAATATT-AAAT
1 TATTTAATATTAAAAT
*
24273692 TATTTTATATTAAAAT
1 TATTTAATATTAAAAT
24273708 TAT
1 TAT
24273711 ACAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:24274645 original size:12 final size:13
Alignment explanation
Indices: 24274621--24274650 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24274611 ACTTCTTCAA
24274621 TTCTCTCTCAAAT
1 TTCTCTCTCAAAT
24274634 TTCTCTCT-AAAT
1 TTCTCTCTCAAAT
24274646 TTCTC
1 TTCTC
24274651 AAAGCTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (13 bp):
TTCTCTCTCAAAT
Found at i:24277689 original size:13 final size:13
Alignment explanation
Indices: 24277671--24277699 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24277661 GCTGTTTCGA
24277671 TTTCTTTATTTAT
1 TTTCTTTATTTAT
24277684 TTTCTTTATTTAT
1 TTTCTTTATTTAT
24277697 TTT
1 TTT
24277700 TGTGCCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTATTTAT
Found at i:24280176 original size:24 final size:24
Alignment explanation
Indices: 24280148--24280195 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
24280138 AAAGATAATG
*
24280148 GTGAGTACACTTTCGACTCTGATA
1 GTGAGTACACTTCCGACTCTGATA
24280172 GTGAGTACACTTCCGACTCTGATA
1 GTGAGTACACTTCCGACTCTGATA
24280196 ATACAGATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (24 bp):
GTGAGTACACTTCCGACTCTGATA
Found at i:24283295 original size:16 final size:18
Alignment explanation
Indices: 24283274--24283312 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
24283264 AATTATCTTG
24283274 ATTTAAACT-AAAA-TAA
1 ATTTAAACTAAAAATTAA
24283290 ATTTAAACTAAAAATTAA
1 ATTTAAACTAAAAATTAA
24283308 ATTTA
1 ATTTA
24283313 TTATTATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTAAACTAAAAATTAA
Found at i:24287012 original size:15 final size:16
Alignment explanation
Indices: 24286988--24287021 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24286978 CACCGTATTA
24286988 TATTTAATATT-AAAT
1 TATTTAATATTAAAAT
*
24287003 TATTTTATATTAAAAT
1 TATTTAATATTAAAAT
24287019 TAT
1 TAT
24287022 ATAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:24288293 original size:14 final size:14
Alignment explanation
Indices: 24288274--24288304 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24288264 TGATTGTTTT
*
24288274 TAATCTAAATTTAC
1 TAATCTAAATTAAC
24288288 TAATCTAAATTAAC
1 TAATCTAAATTAAC
24288302 TAA
1 TAA
24288305 GAACGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:24293728 original size:14 final size:14
Alignment explanation
Indices: 24293709--24293739 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24293699 TGATTATTGT
*
24293709 TAATCTAAATTTAC
1 TAATCTAAATTAAC
24293723 TAATCTAAATTAAC
1 TAATCTAAATTAAC
24293737 TAA
1 TAA
24293740 GTACGCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:24295412 original size:12 final size:11
Alignment explanation
Indices: 24295369--24295415 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
24295359 ACACATTATT
*
24295369 TCTCAAGTTTC
1 TCTCAAATTTC
24295380 TCTCAAATTTC
1 TCTCAAATTTC
*
24295391 TGTCAAATTTC
1 TCTCAAATTTC
24295402 TCTCTAAATTTC
1 TCTC-AAATTTC
24295414 TC
1 TC
24295416 AAAGCTCTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:24295651 original size:25 final size:24
Alignment explanation
Indices: 24295600--24295650 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
24295590 TTCAATATTA
* *
24295600 TTTAATACTTTTTATTTATGTAAT
1 TTTAATAATTTTTATTTATATAAT
24295624 TTTAATTAATTTTTATTT-TATAAT
1 TTTAA-TAATTTTTATTTATATAAT
24295648 TTT
1 TTT
24295651 TTATATTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTAATAATTTTTATTTATATAAT
Found at i:24296374 original size:28 final size:28
Alignment explanation
Indices: 24296343--24296397 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
24296333 TGAGTGGGCC
24296343 ACACGAGCATGCGGGCCCACACGGGCAT
1 ACACGAGCATGCGGGCCCACACGGGCAT
* * *
24296371 ACACGGGCGTGTGGGCCCACACGGGCA
1 ACACGAGCATGCGGGCCCACACGGGCA
24296398 CAGACGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.35, G:0.36, T:0.07
Consensus pattern (28 bp):
ACACGAGCATGCGGGCCCACACGGGCAT
Found at i:24296410 original size:28 final size:28
Alignment explanation
Indices: 24296338--24296415 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
24296328 TGGGCTGAGT
* * *
24296338 GGGC-CACACGAGCATGCGGGCCCACAC
1 GGGCACACACGAACGTGTGGGCCCACAC
* **
24296365 GGGCATACACGGGCGTGTGGGCCCACAC
1 GGGCACACACGAACGTGTGGGCCCACAC
* * *
24296393 GGGCACAGACGAATGTGTAGGCC
1 GGGCACACACGAACGTGTGGGCC
24296416 TATTTTTACT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 4 0.10
28 36 0.90
ACGTcount: A:0.22, C:0.32, G:0.37, T:0.09
Consensus pattern (28 bp):
GGGCACACACGAACGTGTGGGCCCACAC
Found at i:24300033 original size:18 final size:18
Alignment explanation
Indices: 24300010--24300052 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
24300000 GCCAGGTGCA
* *
24300010 TATCCTTGCTCTTATATG
1 TATCCTTACCCTTATATG
*
24300028 TATCCTAACCCTTATATG
1 TATCCTTACCCTTATATG
*
24300046 TTTCCTT
1 TATCCTT
24300053 TTCCCAGTCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.49
Consensus pattern (18 bp):
TATCCTTACCCTTATATG
Found at i:24300564 original size:94 final size:93
Alignment explanation
Indices: 24300403--24300597 Score: 318
Period size: 94 Copynumber: 2.1 Consensus size: 93
24300393 AACATTGATT
* *
24300403 TTTTTAATATATTTTTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTGTTTA
*
24300468 ATATTTTAATAATAATTTATTTTTTTATA
66 ATATTTTAATAATAATTTA-TATTTTATA
* * *
24300497 TTTTTAATATATTTGTACACACTGTTTTTATATTATTTTATTTAATAAAATAAAAGTTGTGTTTA
1 TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTGTTTA
*
24300562 ATATTTTAATAGTAATTTATATTTTATA
66 ATATTTTAATAATAATTTATATTTTATA
24300590 TTTTTAAT
1 TTTTTAAT
24300598 CAAATAGAAG
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 16 0.17
94 78 0.83
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.57
Consensus pattern (93 bp):
TTTTTAATATATTTGTACAAAATGTTTTTATATTATTTCATTTAATAAAATAAAAGTTGTGTTTA
ATATTTTAATAATAATTTATATTTTATA
Found at i:24302357 original size:38 final size:39
Alignment explanation
Indices: 24302278--24302357 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 39
24302268 GTGTAGTGGG
*
24302278 GGAGTGTTGGAGTGATTTTAGGAGGAAAAAAATATGAGATT
1 GGAGTGTTGGAGTGATTTTAGAAGG--AAAAATATGAGATT
*
24302319 GGAGTGTTGGAGTGATTTTAGAAGG-AAAATATGGGATT
1 GGAGTGTTGGAGTGATTTTAGAAGGAAAAATATGAGATT
24302357 G
1 G
24302358 TGGAGTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 13 0.35
41 24 0.65
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (39 bp):
GGAGTGTTGGAGTGATTTTAGAAGGAAAAATATGAGATT
Found at i:24312048 original size:17 final size:18
Alignment explanation
Indices: 24312016--24312050 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
24312006 TGTGGTCAGC
24312016 CCGTGTGGAAATGCTCAAG
1 CCGTGTGG-AATGCTCAAG
24312035 CCGTGTGG-ATGCTCAA
1 CCGTGTGGAATGCTCAA
24312051 AATAACTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (18 bp):
CCGTGTGGAATGCTCAAG
Found at i:24315485 original size:15 final size:15
Alignment explanation
Indices: 24315465--24315546 Score: 67
Period size: 15 Copynumber: 5.5 Consensus size: 15
24315455 AGAAACATTT
24315465 TAATAAAAAGAATAA
1 TAATAAAAAGAATAA
*
24315480 TAATAAAAATAATAA
1 TAATAAAAAGAATAA
* *
24315495 CAATAATAA-AATAGA
1 TAATAAAAAGAATA-A
* ** **
24315510 AAATAACGAGAATGC
1 TAATAAAAAGAATAA
*
24315525 TAATAAAAATAATAA
1 TAATAAAAAGAATAA
24315540 TAATAAA
1 TAATAAA
24315547 TAAATAAATA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
14 4 0.08
15 44 0.86
16 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.22
Consensus pattern (15 bp):
TAATAAAAAGAATAA
Found at i:24315553 original size:17 final size:17
Alignment explanation
Indices: 24315531--24315563 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24315521 ATGCTAATAA
24315531 AAAT-AATAATAATAAAT
1 AAATAAATAA-AATAAAT
24315548 AAATAAATAAAATAAA
1 AAATAAATAAAATAAA
24315564 CAATGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAATAAAATAAAT
Found at i:24315556 original size:15 final size:12
Alignment explanation
Indices: 24315465--24315559 Score: 54
Period size: 12 Copynumber: 7.9 Consensus size: 12
24315455 AGAAACATTT
24315465 TAATAA-AAAGAA
1 TAATAATAAA-AA
24315477 TAATAATAAAAA
1 TAATAATAAAAA
* *
24315489 TAATAACAATAA
1 TAATAATAAAAA
*
24315501 TAA-AAT-AGAA
1 TAATAATAAAAA
** *
24315511 -AATAACGAGAA
1 TAATAATAAAAA
**
24315522 TGCTAATAAAAA
1 TAATAATAAAAA
24315534 TAATAATAATAAA
1 TAATAATAA-AAA
24315547 TAAATAAATAAAA
1 T-AAT-AATAAAA
24315560 TAAACAATGA
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
9 2 0.03
10 5 0.08
11 6 0.09
12 34 0.53
13 7 0.11
14 5 0.08
15 5 0.08
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (12 bp):
TAATAATAAAAA
Found at i:24321120 original size:15 final size:16
Alignment explanation
Indices: 24321096--24321129 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24321086 CACCGTTTTA
24321096 TATTTAATATT-AAAT
1 TATTTAATATTAAAAT
*
24321111 TATTTTATATTAAAAT
1 TATTTAATATTAAAAT
24321127 TAT
1 TAT
24321130 ATAAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTAATATTAAAAT
Found at i:24322274 original size:28 final size:28
Alignment explanation
Indices: 24322238--24322295 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
24322228 TAAGGATTAA
*
24322238 TTTTAATTT-T-TAAATATTATTTAATATT
1 TTTTAATTTATGTAAAT-TTAATT-ATATT
*
24322266 TTTTCATTTATGTAAATTTAATTATATT
1 TTTTAATTTATGTAAATTTAATTATATT
24322294 TT
1 TT
24322296 ATTTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 15 0.58
29 6 0.23
30 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTAATTTATGTAAATTTAATTATATT
Found at i:24323844 original size:18 final size:18
Alignment explanation
Indices: 24323821--24323864 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
24323811 TGCCAGGTGC
*
24323821 GTATCCTTGCCCTTATAT
1 GTATCCTTACCCTTATAT
*
24323839 GTATCCTAACCCTTATAT
1 GTATCCTTACCCTTATAT
24323857 GTATCCTT
1 GTATCCTT
24323865 TTCCCAGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (18 bp):
GTATCCTTACCCTTATAT
Found at i:24324363 original size:93 final size:93
Alignment explanation
Indices: 24324227--24324421 Score: 327
Period size: 93 Copynumber: 2.1 Consensus size: 93
24324217 ACATTGATAT
* * * *
24324227 TTTTTAATATGTTTGTACAAAATGTTTTTATATTGTTTAATTTAATAAAATAAAAGTTGTTTTTA
1 TTTTTAATATATTTGTACAAAATATTTTTATATTATTTAATTTAATAAAATAAAAGTTCTTTTTA
*
24324292 ATATTTTAATAGTAATTTATTTTTTATA
66 ATATTTTAATAGTAATTTATATTTTATA
* *
24324320 TTTTTAATATATTTGTACAAACTATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTTA
1 TTTTTAATATATTTGTACAAAATATTTTTATATTATTTAATTTAATAAAATAAAAGTTCTTTTTA
24324385 ATATTTTAATAGTAATTTATATTTTATA
66 ATATTTTAATAGTAATTTATATTTTATA
24324413 TTTTTAATA
1 TTTTTAATA
24324422 AAATAGGAGT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (93 bp):
TTTTTAATATATTTGTACAAAATATTTTTATATTATTTAATTTAATAAAATAAAAGTTCTTTTTA
ATATTTTAATAGTAATTTATATTTTATA
Found at i:24324424 original size:55 final size:55
Alignment explanation
Indices: 24324360--24324481 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
24324350 TATTATTTCA
****
24324360 TTTAATAAAATAAAAGTTCTTTTTAATATTTTAATAGTAATTT-ATA-TTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTTAATAAGACAATA-T-ATTTAATATTTTTATATT
** *
24324415 TTTAATAAAATAGGAGTTCTTTTTAATAAGACAATATTTTTAATATTTTTATATT
1 TTTAATAAAATAAAAGTTCTTTTTAATAAGACAATATATTTAATATTTTTATATT
24324470 TTTAATAAAATA
1 TTTAATAAAATA
24324482 GAAATAATGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.05
54 4 0.07
55 51 0.88
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (55 bp):
TTTAATAAAATAAAAGTTCTTTTTAATAAGACAATATATTTAATATTTTTATATT
Found at i:24324463 original size:8 final size:9
Alignment explanation
Indices: 24324447--24324476 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24324437 TTAATAAGAC
24324447 AATATTTTT
1 AATATTTTT
24324456 AATATTTTT
1 AATATTTTT
24324465 -ATATTTTT
1 AATATTTTT
24324473 AATA
1 AATA
24324477 AAATAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:24330645 original size:15 final size:15
Alignment explanation
Indices: 24330625--24330669 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
24330615 TGAAAGAAGG
24330625 GAAGAAAATAAAATA
1 GAAGAAAATAAAATA
* *
24330640 GAAGAAAATGAAAGA
1 GAAGAAAATAAAATA
* *
24330655 AAATAAAATAAAATA
1 GAAGAAAATAAAATA
24330670 TAAACATGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
GAAGAAAATAAAATA
Found at i:24338649 original size:14 final size:15
Alignment explanation
Indices: 24338630--24338661 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
24338620 TACTAAACTT
24338630 AATAAATGTTTTA-A
1 AATAAATGTTTTACA
24338644 AATAAATGTTTTACA
1 AATAAATGTTTTACA
24338659 AAT
1 AAT
24338662 TTTCGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (15 bp):
AATAAATGTTTTACA
Found at i:24338963 original size:18 final size:17
Alignment explanation
Indices: 24338936--24338969 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
24338926 ACCAAAAGAT
24338936 ATTTTAATTTTATATTA
1 ATTTTAATTTTATATTA
24338953 ATTTATAATTTTATATT
1 ATTT-TAATTTTATATT
24338970 TTATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTAATTTTATATTA
Found at i:24338989 original size:25 final size:24
Alignment explanation
Indices: 24338934--24338992 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
24338924 TCACCAAAAG
24338934 ATATTTTA-ATTTTATATTAATTT
1 ATATTTTATATTTTATATTAATTT
*
24338957 ATAATTTTATATTTTATTTTATTATTT
1 AT-ATTTTATATTTTATATTA--ATTT
24338984 AT-TTTTATA
1 ATATTTTATA
24338993 ATGATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 2 0.06
24 6 0.19
25 17 0.55
27 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATATTTTATATTTTATATTAATTT
Found at i:24339251 original size:24 final size:23
Alignment explanation
Indices: 24339200--24339252 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
24339190 TTAATTTGAT
*
24339200 ATATATTTAAATTACAAACGCAA
1 ATATAATTAAATTACAAACGCAA
* * *
24339223 TTATAATTACAATTACAAAGGTAA
1 ATATAATTA-AATTACAAACGCAA
24339247 ATATAA
1 ATATAA
24339253 AAAATGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (23 bp):
ATATAATTAAATTACAAACGCAA
Found at i:24339353 original size:16 final size:18
Alignment explanation
Indices: 24339332--24339370 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
24339322 AATTATCTTG
*
24339332 ATTTAAAC-TAAAA-TAA
1 ATTTAAACGAAAAATTAA
24339348 ATTTAAACGAAAAATTAA
1 ATTTAAACGAAAAATTAA
24339366 ATTTA
1 ATTTA
24339371 TTATTATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 8 0.40
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (18 bp):
ATTTAAACGAAAAATTAA
Found at i:24345594 original size:31 final size:29
Alignment explanation
Indices: 24345559--24345628 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
24345549 ATATCAAAAT
24345559 TATACATGAACTATGAATTAATGTGCAATTG
1 TATACATGAACT-TGAATT-ATGTGCAATTG
* * * *
24345590 TATACATAAACTTTAATTTTGTGCAATTT
1 TATACATGAACTTGAATTATGTGCAATTG
24345619 TATACATGAA
1 TATACATGAA
24345629 ATTTTGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.53
30 5 0.15
31 11 0.32
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (29 bp):
TATACATGAACTTGAATTATGTGCAATTG
Found at i:24345844 original size:31 final size:31
Alignment explanation
Indices: 24345781--24345892 Score: 106
Period size: 31 Copynumber: 3.7 Consensus size: 31
24345771 TGACTAAATT
* * * *
24345781 AAAATTAAAGTTTCAAGTATACATTTGAACC
1 AAAATTAAAGTTTCATGTATATAATTGCACC
* *
24345812 AAAATTAGAGTTTCATGTGTATAATTGCACC
1 AAAATTAAAGTTTCATGTATATAATTGCACC
*
24345843 -AAATTACAG-TTCATGTATATAATTGCA-C
1 AAAATTAAAGTTTCATGTATATAATTGCACC
*
24345871 ATTAAATCAAAGTTT-ATGTATA
1 A--AAATTAAAGTTTCATGTATA
24345893 ATTTTGAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.01
29 17 0.25
30 8 0.12
31 39 0.58
32 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
AAAATTAAAGTTTCATGTATATAATTGCACC
Found at i:24349763 original size:51 final size:50
Alignment explanation
Indices: 24349701--24349801 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
24349691 GAGATAAGAC
* ** **
24349701 TTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAGATAAGATTTGTAGT
1 TTGTAGCTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGA-TTGTAGT
*
24349752 TTGTAGTTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTGTAGT
1 TTGTAGCTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTGTAGT
24349802 CTTAATTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 7 0.16
51 37 0.84
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (50 bp):
TTGTAGCTTTAATCTGCTCTACTACAACTTCAAAGAGATAAGATTGTAGT
Found at i:24350056 original size:45 final size:44
Alignment explanation
Indices: 24349656--24350283 Score: 367
Period size: 44 Copynumber: 14.1 Consensus size: 44
24349646 AGGTATAGGA
* * *
24349656 ATTT-TAGTTTCAATCTACTCCACTACAAC-TCTAGAGAGATAAG
1 ATTTGTAGCTTCAATCTACTCCACTGCAACTTC-AGGGAGATAAG
* * ** * *
24349699 ACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAGATAAGATTTG
1 ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGAT-A-A---G
* * * * * **
24349748 TAGTTTGTAGTTTTAATCTGCTCTACTACAACTTCAAAGAGATAAG
1 -A-TTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * * * * * *
24349794 A-TTGTAGTCTT-AATTTGCCCCTCTGTAATTTTAAGGAAATAAG
1 ATTTGTAG-CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * * * * **
24349837 ACTAGTAGCTTTAATTTGCTCTACTGCAACTTTAAAGAGATAAG
1 ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * *** *
24349881 ATTTGTGGCATT-AATTTGCTCCACTGCAATTTCAATAAAATAAG
1 ATTTGTAGC-TTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * ** * *
24349925 ACTTGTAGCTTTAATTTTTTCCACTGTAACTTTAGGGAGATAAG
1 ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
*
24349969 ATTTGTAGCTTCAATCTACT-CATCTACAAC-TCTAGGGAGATAAG
1 ATTTGTAGCTTCAATCTACTCCA-CTGCAACTTC-AGGGAGATAAG
* * *
24350013 ATTTGCTATCTTTAATCTACTCCACTGCAACTTCAGGGGGATAAG
1 ATTTG-TAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * *
24350058 GTTTACTATCTTCAATCTGCTCCACT-CTAACTTCAGGGAAATAAG
1 ATTT-GTAGCTTCAATCTACTCCACTGC-AACTTCAGGGAGATAAG
* * * * *
24350103 ATTTGTAGCTTCAATCTAATCCATTACAACTTCAGGGAAATACG
1 ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * *
24350147 ATTTGTAGCTCCAATATTCTCCACTGCAACTTCAGGGAGATAAC
1 ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
* * * * *
24350191 ATTTGTAGCTTTAATTCGA-TCCACTGTAACTTCAGGGATATGAG
1 ATTTGTAGCTTCAA-TCTACTCCACTGCAACTTCAGGGAGATAAG
* *
24350235 ATTTGTAGCTTC-ATCTTGCTCCACTGCATCTTCAGGGAGATAAG
1 ATTTGTAGCTTCAATC-TACTCCACTGCAACTTCAGGGAGATAAG
24350279 ATTTG
1 ATTTG
24350284 CTATATTCAA
Statistics
Matches: 455, Mismatches: 105, Indels: 49
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.00
43 41 0.09
44 293 0.64
45 76 0.17
46 6 0.01
49 2 0.00
50 2 0.00
51 33 0.07
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (44 bp):
ATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAG
Found at i:24353492 original size:10 final size:10
Alignment explanation
Indices: 24353479--24353513 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
24353469 AGCTCAAATA
24353479 AGCTCGTTTG
1 AGCTCGTTTG
*
24353489 AGCTCGTTTC
1 AGCTCGTTTG
*
24353499 AGCTAGTTTG
1 AGCTCGTTTG
24353509 AGCTC
1 AGCTC
24353514 ATTTTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (10 bp):
AGCTCGTTTG
Found at i:24359717 original size:19 final size:20
Alignment explanation
Indices: 24359695--24359746 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
24359685 GGGTCTTTTT
*
24359695 ATGAAATTTAATGCAT-ATG-
1 ATGAAATGTAATGC-TGATGA
24359714 ATGAAATGTAATGCTGATGA
1 ATGAAATGTAATGCTGATGA
24359734 ATGAAATG-AATGC
1 ATGAAATGTAATGC
24359747 AAAAAGAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGCTGATGA
Found at i:24367185 original size:21 final size:21
Alignment explanation
Indices: 24367152--24367192 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24367142 AGAAAATTAA
** *
24367152 AATGTAATTTTTTATTATTTT
1 AATGTAAAATTTTATAATTTT
24367173 AATGTAAAATTTTATAATTT
1 AATGTAAAATTTTATAATTT
24367193 CTCGAGAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
AATGTAAAATTTTATAATTTT
Found at i:24369683 original size:21 final size:20
Alignment explanation
Indices: 24369650--24369692 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
24369640 TAAAATACCC
*
24369650 TTTTTTAACATTTTAACTAT
1 TTTTTTAACATTTCAACTAT
* *
24369670 TTTTTTATATATTTCAATTAT
1 TTTTTTA-ACATTTCAACTAT
24369691 TT
1 TT
24369693 ATAATTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTAACATTTCAACTAT
Found at i:24372481 original size:31 final size:31
Alignment explanation
Indices: 24372443--24372502 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
24372433 AAACGGTCAC
* *
24372443 TAAACTATTCGAAAGTTTTCATTTAAGTCGT
1 TAAACTATTCAAAAGTTTTCATCTAAGTCGT
*
24372474 TAAACTATTCAAAAGTTTTTATCTAAGTC
1 TAAACTATTCAAAAGTTTTCATCTAAGTC
24372503 ATTGGAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTTTCATCTAAGTCGT
Found at i:24381770 original size:2 final size:2
Alignment explanation
Indices: 24381765--24381789 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24381755 ATACACACAT
24381765 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24381790 CATGCAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24384693 original size:11 final size:11
Alignment explanation
Indices: 24384677--24384701 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24384667 GGTGATCCTT
24384677 TTTTATTTTTC
1 TTTTATTTTTC
24384688 TTTTATTTTTC
1 TTTTATTTTTC
24384699 TTT
1 TTT
24384702 GAATCTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:24396219 original size:44 final size:44
Alignment explanation
Indices: 24396156--24396914 Score: 531
Period size: 44 Copynumber: 16.7 Consensus size: 44
24396146 TCGTCGTGGA
* * *
24396156 AAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
24396200 AAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * *
24396244 AAATCTTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAA-ATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-C
* * * * *
24396289 AAATCCTAT-TACCCTAAAGTTGTAGTGGAACAAATTAAAGCTACAAGTTAC
1 AAATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAG---C----TAC
* * * * * *
24396340 AAATCTTATCTCTCTGACGTTGCAGTAGAGTAGATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
24396384 AAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * *
24396428 AAATCTTATCTCCCTGAAGTTGCAGTTGAGCAGAATGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* ** * **
24396473 AAATCGTATCTTTCTGAAGTTGCAATAAAGCAGATTAAAG-TCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-AC
* * ** *
24396517 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * * *
24396562 GAATCGTATCTCACTGAAGTTGTAGTAGAGCAGATTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
*
24396606 AAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAGATA-
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGCTAC
* * * *
24396649 ATGAATCTTATCTCCTTGAAGTTGCAGTGGATCAGATTGAAGATAGC
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * * * *
24396696 AAACCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * * *
24396740 AAGATAGAAATCTTAACTCTCTGAAGTTGCAGTGGAACAAATTGAAGATAC
1 -------AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
24396791 GAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAGGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----TA-AAGCTAC
* * * * *
24396842 AAATCTTATCTCTCTAAAGTTGCAGTGAAGCATATTGAAA-ATAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTAC
* *
24396886 AAATCTTATTTCCCAGAAGTTGCAGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA
24396915 ACGGATCTTA
Statistics
Matches: 567, Mismatches: 111, Indels: 74
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.00
44 278 0.49
45 177 0.31
46 2 0.00
47 1 0.00
50 2 0.00
51 102 0.18
52 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
Found at i:24396327 original size:89 final size:88
Alignment explanation
Indices: 24396156--24396819 Score: 467
Period size: 89 Copynumber: 7.3 Consensus size: 88
24396146 TCGTCGTGGA
* * * * ** * *
24396156 AAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCA-CAAATCTTATCTCCCTAAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
* *
24396220 TGCAATGGAGCAGATTAAAGCCAC
66 TGCAGT-GAACAGATTAAAGCCAC
* * * * *
24396244 AAATCTTATCTTCCTGAAGTTACAGTGGAGCAAATTGAAAATAGCAAATCCTAT-TACCCTAAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCT-CCCTGAAG
* *
24396308 TTGTAGTGGAACAAATTAAAGCTACAAGTTAC
65 TTGCAGT-GAACAGATTAAAGC--C-----AC
* * * * * * * *
24396340 AAATCTTATCTCTCTGACGTTGCAGTAGAGTAGATTGAAGTTA-CAAATCTTATCTCCTTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
24396404 TGCAGTGAAGCAGATTAAAGCCAC
66 TGCAGTGAA-CAGATTAAAGCCAC
* **
24396428 AAATCTTATCTCCCTGAAGTTGCAGTTGAGCAGAA-TGAAGATAGCAAATCGTATCTTTCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AATTGAAGATAGCAAATCGTATCTCCCTGAAG
* * *
24396492 TTGCAATAAAGCAGATTAAAGTCAC
65 TTGCAGTGAA-CAGATTAAAGCCAC
* * * ** *
24396517 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATATAGTGAATCGTATCTCACTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
* * * *
24396582 TGTAGTAGAGCAGATTGAAGCTAC
66 TGCAGT-GAACAGATTAAAGCCAC
* * *** * *
24396606 AAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAGATAATGAATCTTATCTCCTTGAAG
1 AAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAG
* * **
24396670 TTGCAGTGGATCAGATTGAAGATAGC
65 TTGCAGT-GAACAGATTAAAGCCA-C
* * * * * * *
24396696 AAACCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAAGCTACAAGATAG-AAATCTTAACTCT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT---G----AAGATAGCAAATCGTATCTCC
* * **
24396760 CTGAAGTTGCAGTGGAACAAATTGAAGATAC
59 CTGAAGTTGCAGT-GAACAGATTAAAGCCAC
* * *
24396791 GAATCTTATTTCCCTAAAGTTGCAGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA
24396820 ACAGATTAAG
Statistics
Matches: 468, Mismatches: 83, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
88 74 0.16
89 219 0.47
90 32 0.07
91 2 0.00
93 1 0.00
94 3 0.01
95 57 0.12
96 74 0.16
97 6 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAATCGTATCTCCCTGAAGT
TGCAGTGAACAGATTAAAGCCAC
Found at i:24396512 original size:184 final size:176
Alignment explanation
Indices: 24396156--24396648 Score: 494
Period size: 184 Copynumber: 2.7 Consensus size: 176
24396146 TCGTCGTGGA
* * * ** *
24396156 AAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGCCACAAATCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCT-CCTGAAGTT
* * * * *
24396221 GCAATGGAGCAGATTAAAGCCACAAATCTTATCTTCCTGAAGTTACAGTGGAGCA-AATTGAAAA
65 GCAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAA-TGAAGA
* * *
24396285 TAGCAAATCCTATTACCCTAAAGTTGTAGTGGAACAAATTAAAGCTACAAGTTAC
129 TAGCAAATCCTATTACCCTAAAGTTGCAATGAAACAAATTAAAG-T-C-----AC
* * * *
24396340 AAATCTTATCTCTCTGACGTTGCAGTAGAGTAGATTGAAGTTACAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCC-TGAAGTT
*
24396405 GCAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTTGAGCAGAATGAAGAT
65 GCAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAT
* ** * *
24396470 AGCAAATCGTATCT-TTCTGAAGTTGCAAT-AAAGCAGATTAAAGTCAC
130 AGCAAATCCTAT-TACCCTAAAGTTGCAATGAAA-CAAATTAAAGTCAC
* ** *
24396517 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-TATAGTGAATCGTATCTCACTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA-CAAATCTTATCTC-CTGAAG
* * * * *
24396581 TTGTAGT-AGAGCAGATTGAAGCTACAAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAA
63 TTGCAGTGA-AGCAGATTAAAGCCACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGAATGA
24396644 AGATA
126 AGATA
24396649 ATGAATCTTA
Statistics
Matches: 262, Mismatches: 38, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
176 1 0.00
177 40 0.15
178 73 0.28
179 1 0.00
182 1 0.00
183 5 0.02
184 138 0.53
185 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (176 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCTGAAGTTG
CAGTGAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGATA
GCAAATCCTATTACCCTAAAGTTGCAATGAAACAAATTAAAGTCAC
Found at i:24396767 original size:51 final size:50
Alignment explanation
Indices: 24396688--24396868 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
24396678 GATCAGATTG
*
24396688 AAGATAGCAAACCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAAGCTAC
1 AAGATAG-AAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATT-AAGCTAC
* *
24396740 AAGATAGAAATCTTAACTCTCTGAAGTTGCAGTGGAACAAATT--G----
1 AAGATAGAAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAGCTAC
* * *
24396784 AAGATACG-AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAGGCTAC
1 AAGATA-GAAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAA-GCTAC
* *
24396835 AAGTTACAAATCTTATCTCTCTAAAGTTGCAGTG
1 AAGATAGAAATCTTATCTCTCTAAAGTTGCAGTG
24396869 AAGCATATTG
Statistics
Matches: 108, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
44 36 0.33
45 1 0.01
47 1 0.01
48 1 0.01
51 62 0.57
52 7 0.06
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (50 bp):
AAGATAGAAATCTTATCTCTCTAAAGTTGCAGTGGAACAAATTAAGCTAC
Found at i:24396834 original size:95 final size:95
Alignment explanation
Indices: 24396384--24396916 Score: 434
Period size: 89 Copynumber: 5.8 Consensus size: 95
24396374 TTGAAGTTAC
* ** *
24396384 AAATCTTATCTC-CTTGAAGTTGCAGT-GAAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAG
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAA-CAGATTGAAGATACAAATCTTATCTCCCTAAAG
* * *
24396447 TTGCAGTTGAGCAG----AA--T-GAAGATAG
64 TTGCAGTGGAACAGATTAAAGCTACAAGATAG
* * * * * *
24396472 CAAATCGTATCTTTCTGAAGTTGCAAT-AAAGCAGATTAAAG-TCACAAATCTTATCTCCCTGAA
1 -AAATCTTATCTCTCTGAAGTTGCAGTGGAA-CAGATTGAAGAT-ACAAATCTTATCTCCCTAAA
* * * *
24396535 GTTACAGTGGAGCAGATTGAA--TA-TAG-T-G
63 GTTGCAGTGGAACAGATTAAAGCTACAAGATAG
* * * * * * *
24396563 -AATCGTATCTCACTGAAGTTGTAGTAGAGCAGATTGAAGCTACAAATCTTATCTCCCTAGAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTAAAGTT
* *
24396627 GCAGTGGAGCAGATTAAAG--A-TA-AT-G
66 GCAGTGGAACAGATTAAAGCTACAAGATAG
* * *
24396652 -AATCTTATCTC-CTTGAAGTTGCAGTGGATCAGATTGAAGATAGCAAACCTTATCTCTCTAAAG
1 AAATCTTATCTCTC-TGAAGTTGCAGTGGAACAGATTGAAGATA-CAAATCTTATCTCCCTAAAG
*
24396715 TTGCAGTGGAACAAATTAAAGCTACAAGATAG
64 TTGCAGTGGAACAGATTAAAGCTACAAGATAG
* * * *
24396747 AAATCTTAACTCTCTGAAGTTGCAGTGGAACAAATTGAAGATACGAATCTTATTTCCCTAAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTAAAGTT
* * *
24396812 GCAGTGGAACAGATTAAGGCTACAAGTTAC
66 GCAGTGGAACAGATTAAAGCTACAAGATAG
* * * *
24396842 AAATCTTATCTCTCTAAAGTTGCAGT-GAAGCATATTGAAAATACAAATCTTATTTCCC-AGAAG
1 AAATCTTATCTCTCTGAAGTTGCAGTGGAA-CAGATTGAAGATACAAATCTTATCTCCCTA-AAG
24396905 TTGCAGTGGAAC
64 TTGCAGTGGAAC
24396917 GGATCTTATC
Statistics
Matches: 376, Mismatches: 46, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
88 1 0.00
89 174 0.46
90 39 0.10
91 1 0.00
92 2 0.01
93 6 0.02
94 6 0.02
95 109 0.29
96 37 0.10
97 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (95 bp):
AAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGATACAAATCTTATCTCCCTAAAGTT
GCAGTGGAACAGATTAAAGCTACAAGATAG
Found at i:24396998 original size:44 final size:44
Alignment explanation
Indices: 24396929--24397032 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 44
24396919 ATCTTATCTC
* **
24396929 TCTGAAGTTGTAGTGGAGCAGATTGAAGTGACAAACCCTATACA
1 TCTGAAGTTGTAGTGGAGCAAATTGAAGCAACAAACCCTATACA
* * *
24396973 TCTGAAGTTGTAGTGGAGTAAATTGAAGCAACAAATCCTATACC
1 TCTGAAGTTGTAGTGGAGCAAATTGAAGCAACAAACCCTATACA
* *
24397017 TCTGAAATTGCAGTGG
1 TCTGAAGTTGTAGTGG
24397033 GTTGGAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTGAAGTTGTAGTGGAGCAAATTGAAGCAACAAACCCTATACA
Found at i:24397330 original size:9 final size:9
Alignment explanation
Indices: 24397318--24397346 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
24397308 AAAAAACCCT
24397318 AATGGCCCA
1 AATGGCCCA
24397327 AATGGCCCA
1 AATGGCCCA
24397336 AATGGCCCA
1 AATGGCCCA
24397345 AA
1 AA
24397347 CACTTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.21, T:0.10
Consensus pattern (9 bp):
AATGGCCCA
Found at i:24404911 original size:26 final size:26
Alignment explanation
Indices: 24404873--24404923 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
24404863 TGGGGACTTT
24404873 TACCCACACAAGTCCACGTCTACCCC
1 TACCCACACAAGTCCACGTCTACCCC
* * *
24404899 TACCCATATAAGTCCACTTCTACCC
1 TACCCACACAAGTCCACGTCTACCC
24404924 ATACATCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.45, G:0.06, T:0.22
Consensus pattern (26 bp):
TACCCACACAAGTCCACGTCTACCCC
Found at i:24406619 original size:8 final size:9
Alignment explanation
Indices: 24406599--24406623 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24406589 ATTAAGTTAA
24406599 TTTTAAAGT
1 TTTTAAAGT
24406608 TTTTAAAGT
1 TTTTAAAGT
24406617 TTTTAAA
1 TTTTAAA
24406624 TTTATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
TTTTAAAGT
Found at i:24409153 original size:26 final size:25
Alignment explanation
Indices: 24409093--24409180 Score: 97
Period size: 26 Copynumber: 3.5 Consensus size: 25
24409083 TATATATAAG
*
24409093 AATGAATAAATTTTCTACAAAAAAA
1 AATGAATAAATTGTCTACAAAAAAA
* * * *
24409118 AACGAGTAAACTTGTATGCAAAAAAA
1 AATGAATAAA-TTGTCTACAAAAAAA
*
24409144 AATGAATAAAATTGTCTAC-AAAACA
1 AATGAAT-AAATTGTCTACAAAAAAA
24409169 AATGAATAAATT
1 AATGAATAAATT
24409181 TGTTAACGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 5 0.10
25 20 0.39
26 23 0.45
27 3 0.06
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (25 bp):
AATGAATAAATTGTCTACAAAAAAA
Found at i:24419021 original size:23 final size:24
Alignment explanation
Indices: 24418995--24419107 Score: 140
Period size: 23 Copynumber: 4.7 Consensus size: 24
24418985 AAAATTTACT
24418995 GTCAATTCATCCTTTACA-TTTCC
1 GTCAATTCATCCTTTACATTTTCC
24419018 GTCAATTCATCCTTTACAATTTTTCC
1 GTCAATTCATCCTTTAC-A-TTTTCC
* * * *
24419044 GTTAGTTCCTCTTTTACATTTTCC
1 GTCAATTCATCCTTTACATTTTCC
* *
24419068 GTTAATTAATCCTTTACATTTT-C
1 GTCAATTCATCCTTTACATTTTCC
24419091 GTCAATTCATCCTTTAC
1 GTCAATTCATCCTTTAC
24419108 CAAGAATGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
23 33 0.43
24 25 0.32
25 1 0.01
26 18 0.23
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.48
Consensus pattern (24 bp):
GTCAATTCATCCTTTACATTTTCC
Found at i:24419968 original size:18 final size:17
Alignment explanation
Indices: 24419926--24419968 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
24419916 AACCATTAAA
24419926 TCCAATTTTTATCTATT
1 TCCAATTTTTATCTATT
* *
24419943 T-TAATTTTTATTTCATT
1 TCCAATTTTTATCT-ATT
24419960 TCCAATTTT
1 TCCAATTTT
24419969 ACCCTTAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (17 bp):
TCCAATTTTTATCTATT
Found at i:24425622 original size:2 final size:2
Alignment explanation
Indices: 24425615--24425639 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24425605 GTTCAGAATG
24425615 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
24425640 ACCACTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24426053 original size:24 final size:24
Alignment explanation
Indices: 24426005--24426050 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
24425995 TTTTGAGATA
* *
24426005 TTTATAAAATATATTTTCCAAAAT
1 TTTATAAAATATATATTCAAAAAT
24426029 TTTAT-AAATATATATTCAAAAA
1 TTTATAAAATATATATTCAAAAA
24426051 ATTCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTATAAAATATATATTCAAAAAT
Found at i:24428030 original size:15 final size:15
Alignment explanation
Indices: 24428010--24428066 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
24428000 ATTCAATTTT
24428010 AATATTTTAATAATA
1 AATATTTTAATAATA
*
24428025 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
24428044 AATATATTAATAATA
1 AATATTTTAATAATA
*
24428059 AATGTTTT
1 AATATTTT
24428067 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:24430724 original size:29 final size:31
Alignment explanation
Indices: 24430678--24430741 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
24430668 AACGATTAAA
**
24430678 TCCCCAGAAACTGGTAAAA-TTGTTATAAGG
1 TCCCCAGAAACTAATAAAATTTGTTATAAGG
24430708 TCCCCA-AAACTAATAAAATTTGTTATAAGG
1 TCCCCAGAAACTAATAAAATTTGTTATAAGG
24430738 TCCC
1 TCCC
24430742 TTTAGAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (31 bp):
TCCCCAGAAACTAATAAAATTTGTTATAAGG
Found at i:24445839 original size:11 final size:11
Alignment explanation
Indices: 24445825--24445854 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
24445815 AAAATAGTAA
24445825 ATAAATAATAT
1 ATAAATAATAT
24445836 ATAAATAATAT
1 ATAAATAATAT
24445847 ATAAATAA
1 ATAAATAA
24445855 ATGAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:24447144 original size:22 final size:23
Alignment explanation
Indices: 24447105--24447162 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
24447095 TAAATGGACT
**
24447105 TTTGATATTTGGACTTATTTATTTA
1 TTTG-TATTTGGTTTTATTTA-TTA
24447130 TTT-T-TTTGGTTTTATTTATTA
1 TTTGTATTTGGTTTTATTTATTA
24447151 TTTGTATTTGGT
1 TTTGTATTTGGT
24447163 CTTGGGCCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 6 0.21
22 13 0.45
23 7 0.24
25 3 0.10
ACGTcount: A:0.17, C:0.02, G:0.14, T:0.67
Consensus pattern (23 bp):
TTTGTATTTGGTTTTATTTATTA
Found at i:24447618 original size:93 final size:95
Alignment explanation
Indices: 24447496--24448299 Score: 376
Period size: 93 Copynumber: 8.8 Consensus size: 95
24447486 TAATAACTTC
* * * * *
24447496 AATCTACTCCACTGCAACTTCAGGAAGATAAGGTTTGT-G-G-CTTTAATCTACTCCACTGCAAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCGTCTTCAATCTGCTCCACTGCAAC
** *
24447558 TTCAGAGAGATAAGATTTGTAACCCGTCTTC
66 TTCAGAGAGATAAGATTTGT-ACTTGTCTTT
* *
24447589 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTGCTCCACTGCA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAG--CGTCTTCAATCTGCTCCACTGCA
* * *
24447654 ACTTCGGGGAGATAA-AGTTTG----TGGCTTT
64 ACTTCAGAGAGATAAGA-TTTGTACTTGTCTTT
* *
24447682 AATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGTCTTCAATCTGCTCCACTGCA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-C-GTCTTCAATCTGCTCCACTGCA
* * * *
24447747 ACTTCAGGGAGATAAGA-TTG-ATTTATTTTT
64 ACTTCAGAGAGATAAGATTTGTACTTGTCTTT
* * * * * * * * *
24447777 AACCTGTTCCACTGTAACTTCAAGGAGAAAAGGTTTGT-G-G-CTTTAATCTGCTCTATTGCAAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCGTCTTCAATCTGCTCCACTGCAAC
24447839 TTCA-ATGAGATAAGATTTGTAGCTTGTCTTT
66 TTCAGA-GAGATAAGATTTGTA-CTTGTCTTT
* * * * * * * **
24447870 AATTTGTTCCACTGCAACTTCAAGGAGATAAGA-TTG--GCTTATTTTTAACCTATTCCACTGCA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC--GTCTTCAATCTGCTCCACTGCA
* * * *
24447932 ACTTTAGGGAGATAA-A---GT--TTG-ATAT
64 ACTTCAGAGAGATAAGATTTGTACTTGTCTTT
* * * * * *
24447957 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTA---TCTTCAGTCTGCTCCACTGTAA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCGTCTTCAATCTGCTCCACTGCAA
* * *
24448019 CTTTAGGGAGATAAGACTTGTAAC-T-TC---
65 CTTCAGAGAGATAAGATTTGT-ACTTGTCTTT
* * * * * **
24448046 AACCTACTCCACTACAACTTCAGGGAGAT-A-ATGTT-T-GC-T-AT-GATCTGCTCTGCTGCAA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGTAGCGTCTTCAATCTGCTCCACTGCAA
* * * * * *
24448104 CTTCAAAGAGATAAGATCTGCAATTTATAACTTC
65 CTTCAGAGAGATAAGATTTG-TACTTGT--CTTT
* * * * * *
24448138 AATCTGTTCTATTGCAACTTCAGGGAAATAAGATTCGCTA---TCTTCAGTCTGCTCCACTGCAA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCGTCTTCAATCTGCTCCACTGCAA
* * * *
24448200 CTTCATG-GAGATAATACTAGTA---AT-TTT
65 CTTCA-GAGAGATAAGATTTGTACTTGTCTTT
* * *
24448227 AAACTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTAG-GATCTTCAATC--CATCCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCG-TCTTCAATCTGC-T-CCACTG
24448289 CAACTTCAGAG
62 CAACTTCAGAG
24448300 GTATAGGATT
Statistics
Matches: 541, Mismatches: 113, Indels: 115
0.70 0.15 0.15
Matches are distributed among these distances:
85 28 0.05
86 32 0.06
87 34 0.06
88 7 0.01
89 59 0.11
90 35 0.06
91 9 0.02
92 56 0.10
93 145 0.27
94 7 0.01
95 65 0.12
96 27 0.05
97 2 0.00
98 35 0.06
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (95 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCGTCTTCAATCTGCTCCACTGCAAC
TTCAGAGAGATAAGATTTGTACTTGTCTTT
Found at i:24447804 original size:46 final size:46
Alignment explanation
Indices: 24447678--24447946 Score: 175
Period size: 49 Copynumber: 5.8 Consensus size: 46
24447668 AAGTTTGTGG
* * * * * * *
24447678 CTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGA-TTG-A-CTTAT
* * * * *
24447727 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTAT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACTTAT
* * * * **
24447773 TTTTAACCTGTTCCACTGTAACTTCAAGGAGAAAAGGTT---TGTGG
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACT-TAT
* * * * * *
24447817 CTTTAATCTGCTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTGT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGA-TTG-A-CTTAT
** *
24447866 CTTTAATTTGTTCCACTGCAACTTCAAGGAGATAAGATTGGCTTAT
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACTTAT
* * * *
24447912 TTTTAACCTATTCCACTGCAACTTTAGGGAGATAA
1 CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAA
24447947 AGTTTGATAT
Statistics
Matches: 174, Mismatches: 39, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 29 0.17
45 2 0.01
46 66 0.38
47 1 0.01
48 6 0.03
49 68 0.39
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (46 bp):
CTTTAACCTGTTCCACTGCAACTTCAAGGAGATAAGATTGACTTAT
Found at i:24447851 original size:139 final size:139
Alignment explanation
Indices: 24447503--24448263 Score: 597
Period size: 139 Copynumber: 5.5 Consensus size: 139
24447493 TTCAATCTAC
* *
24447503 TCCACTGCAACTTC-AGGAAGATAAGGTTTGTGGCTTTAATCTACTCCACTGCAACTTCAGAGAG
1 TCCACTGCAACTTCAAGG-AGATAAAGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAG
* * * * **
24447567 ATAAGATTTGTAACCCGTCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAGCCC
65 ATAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-A-CTT
* * * * *
24447632 GTCTTCAATCTGC
127 ATTTTTAACCTGT
** * *
24447645 TCCACTGCAACTTCGGGGAGATAAAGTTTGTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGA
1 TCCACTGCAACTTCAAGGAGATAAAGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGA
* *
24447710 TAAAATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGATTTATTT
66 TAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGACTTATTT
24447775 TTAACCTGT
131 TTAACCTGT
* * *
24447784 TCCACTGTAACTTCAAGGAGA-AAAGGTTTGTGGCTTTAATCTGCTCTATTGCAACTTCA-ATGA
1 TCCACTGCAACTTCAAGGAGATAAA-GTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGA-GA
* * * * * *
24447847 GATAAGATTTGTAGCTTGTCTTTAATTTGTTCCACTGCAACTTCAAGGAGATAAGATTGGCTTAT
64 GATAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGACTTAT
*
24447912 TTTTAACCTAT
129 TTTTAACCTGT
* * * * * *
24447923 TCCACTGCAACTTTAGGGAGATAAAG-TT-T-GATATGATCTGCTCTACTGCAACTTCAGAGAGA
1 TCCACTGCAACTTCAAGGAGATAAAGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGA
* * * * * **
24447985 TAAGA--T-TCG-CTATCTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTG---TAAC
66 TAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGACTTATT
* **
24448043 TTCAACCTAC
130 TTTAACCTGT
* * * * * ** *
24448053 TCCACTACAACTTCAGGGAGATAATG-TT-T-GCTATGATCTGCTCTGCTGCAACTTCAAAGAGA
1 TCCACTGCAACTTCAAGGAGATAAAGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGA
* * *** * * * * *
24448115 TAAGATCTGCAATTTATAACTTCAATCTGTTCTATTGCAACTTCAGGGAAATAAGATTCG-C-TA
66 TAAGATTTGTAGCCTGT--CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GACTTA
* * ** *
24448178 TCTTCAGTCTGC
128 TTTTTAACCTGT
* * * *** * *
24448190 TCCACTGCAACTTCATGGAGATAATA-CTAGTAATTTTAAACTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAAGGAGATAA-AGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAG
*
24448254 ATAAGGTTTG
65 ATAAGATTTG
24448264 CTAGGATCTT
Statistics
Matches: 510, Mismatches: 91, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
130 71 0.14
132 33 0.06
133 5 0.01
134 4 0.01
135 2 0.00
136 63 0.12
137 34 0.07
138 6 0.01
139 146 0.29
140 35 0.07
141 3 0.01
142 106 0.21
143 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (139 bp):
TCCACTGCAACTTCAAGGAGATAAAGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGA
TAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGACTTATTT
TTAACCTGT
Found at i:24448021 original size:45 final size:45
Alignment explanation
Indices: 24447457--24448258 Score: 372
Period size: 44 Copynumber: 17.6 Consensus size: 45
24447447 GTTTTAACTC
* * ** *
24447457 GCTCCACTGCAACTTTAGGGAGATAGGATT-AATAACTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCT
* * * * ** *
24447501 ACTCCACTGCAACTTCAGGAAGATAAGGTTTG-TGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCT
* * *
24447545 ACTCCACTGCAACTTCAGAGAGATAAGATTTG-TAACCCGTCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCT-A----TCTTCAATCT
* * *
24447594 GCTCCACTACAACTTTAGGGAGATAAGATTTG-TAGCCCGTCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTA-----TCTTCAATCT
* * ** *
24447643 GCTCCACTGCAACTTCGGGGAGATAA-AGTTTG-TGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTCAATCT
* * * *
24447687 GCTCCACTGTAACTTCAGGGAGATAAAATTTGTAGCCTGTCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TCG-CTATCTTCAATCT
* * * *
24447736 GCTCCACTGCAACTTCAGGGAGATAAGATT-GATTTATTTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCG--CTATCTTCAATCT
* * * * * * ** *
24447782 GTTCCACTGTAACTTCAAGGAGAAAAGGTTTG-TGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCT
* * ** * * * *
24447826 GCTCTATTGCAACTTCAATGAGATAAGATTTGTAGCTTGTCTTTAATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TCGC-TATCTTCAATCT
* * * * * *
24447875 GTTCCACTGCAACTTCAAGGAGATAAGATTGGCTTATTTTTAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGC-TATCTTCAATCT
** * * * *
24447921 ATTCCACTGCAACTTTAGGGAGATAA-AGTTTG--AT-AT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTCAATCT
* * *
24447962 GCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCT
* * * *
24448007 GCTCCACTGTAACTTTAGGGAGATAAGACTT-G-TAACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTCAATCT
* * * *
24448051 ACTCCACTACAACTTCAGGGAGATAATG-TTTGCTA---T-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAA-GATTCGCTATCTTCAATCT
** **
24448092 GCTCTGCTGCAACTTCAAAGAGATAAGA-TCTGCAATTTATAACTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTC-GC----TAT--CTTCAATCT
* * * * *
24448143 GTTCTATTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCT
* * * * * *
24448188 GCTCCACTGCAACTTCATGGAGATAATACTAG-TAAT-TTTAAACT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTCGCT-ATCTTCAATCT
24448232 GCTCCACTGCAACTTCAGGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
24448259 GTTTGCTAGG
Statistics
Matches: 590, Mismatches: 124, Indels: 88
0.74 0.15 0.11
Matches are distributed among these distances:
40 2 0.00
41 52 0.09
42 3 0.01
43 6 0.01
44 189 0.32
45 70 0.12
46 76 0.13
47 10 0.02
48 2 0.00
49 149 0.25
50 1 0.00
51 28 0.05
52 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCT
Found at i:24449234 original size:17 final size:17
Alignment explanation
Indices: 24449186--24449233 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
24449176 CTCTCCTTTT
*
24449186 TCTTTTTCTTCTTTTCC
1 TCTTTTTTTTCTTTTCC
24449203 T-TTTTCTTTTCTTTTCC
1 TCTTTT-TTTTCTTTTCC
24449220 TCTTTTTTTT-TTTT
1 TCTTTTTTTTCTTTT
24449234 TGAAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.29
17 16 0.57
18 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTTTTTTTCTTTTCC
Found at i:24451571 original size:10 final size:10
Alignment explanation
Indices: 24451558--24451582 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24451548 AAATATGTAA
24451558 ATATATATGT
1 ATATATATGT
24451568 ATATATATGT
1 ATATATATGT
24451578 ATATA
1 ATATA
24451583 AAAATATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
ATATATATGT
Found at i:24453999 original size:35 final size:35
Alignment explanation
Indices: 24453948--24454023 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
24453938 ACACTTAAAA
*
24453948 CCTTAACTTTCCCAAGAAACAAAGCTAATTCTTAG
1 CCTTGACTTTCCCAAGAAACAAAGCTAATTCTTAG
24453983 CCTTGACTTTCCCAAGAAACAAAGCTAATTCTTAG
1 CCTTGACTTTCCCAAGAAACAAAGCTAATTCTTAG
24454018 CCTTGA
1 CCTTGA
24454024 TCCGACTCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (35 bp):
CCTTGACTTTCCCAAGAAACAAAGCTAATTCTTAG
Found at i:24463398 original size:93 final size:92
Alignment explanation
Indices: 24463266--24463460 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
24463256 TTGATTTTAG
* *
24463266 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
24463330 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
24463358 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
24463423 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
24463451 CAAATTCATA
1 TAAATTCATA
24463461 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:24463508 original size:48 final size:52
Alignment explanation
Indices: 24463438--24463536 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
24463428 AATAATTATT
24463438 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
24463486 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
24463537 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:24463518 original size:17 final size:17
Alignment explanation
Indices: 24463493--24463526 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24463483 ATAATTTTAA
*
24463493 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
24463510 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
24463527 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:24463543 original size:17 final size:16
Alignment explanation
Indices: 24463498--24463545 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
24463488 TTTAAATTTT
24463498 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
24463515 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
24463529 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
24463546 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:24463600 original size:54 final size:54
Alignment explanation
Indices: 24463542--24463720 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
24463532 ATAATCATAT
24463542 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
24463596 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
24463659 TA
54 -A
*
24463661 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
24463716 ATTAT
1 ATTAT
24463721 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:24463603 original size:61 final size:61
Alignment explanation
Indices: 24463538--24463725 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
24463528 AGTTATAATC
24463538 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
24463599 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
24463658 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
24463719 ATATATT
1 ATATATT
24463726 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:24463617 original size:18 final size:17
Alignment explanation
Indices: 24463586--24463620 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24463576 ATTATTAAGA
24463586 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
24463603 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
24463621 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:24463659 original size:120 final size:120
Alignment explanation
Indices: 24463535--24463757 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
24463525 ATTAGTTATA
24463535 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
24463600 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
24463655 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
24463720 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
24463758 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:24463734 original size:18 final size:17
Alignment explanation
Indices: 24463706--24463740 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24463696 ATTATTAAGA
*
24463706 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24463723 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24463741 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24463752 original size:54 final size:54
Alignment explanation
Indices: 24463569--24463754 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
24463559 TTCATATAAG
* *
24463569 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
24463623 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
24463686 AAG
53 -TT
* *
24463689 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
24463743 AATAATAATTAT
1 AATAATAATTAT
24463755 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:24463861 original size:144 final size:147
Alignment explanation
Indices: 24463694--24463965 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
24463684 ATAAGAATAT
*
24463694 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
24463759 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
24463821 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
24463838 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
24463903 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
24463966 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:24463878 original size:18 final size:17
Alignment explanation
Indices: 24463850--24463884 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24463840 ATTATTAAGA
*
24463850 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24463867 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24463885 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24464095 original size:44 final size:45
Alignment explanation
Indices: 24464046--24464140 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
24464036 TTACACCTCT
* *
24464046 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
24464090 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
24464135 ATTACA
1 ATTACA
24464141 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:24464140 original size:16 final size:16
Alignment explanation
Indices: 24464121--24464172 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
24464111 GATTTGCTAT
* *
24464121 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
24464137 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24464153 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
24464169 TACA
1 TACA
24464173 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:24464393 original size:16 final size:16
Alignment explanation
Indices: 24464324--24464391 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
24464314 TTTGGTTCGC
24464324 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24464340 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24464356 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
24464372 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
24464388 TGTA
1 TGTA
24464392 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Done.