Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 142 of 211
Found at i:44815259 original size:28 final size:28
Alignment explanation
Indices: 44815226--44815300 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
44815216 AAAATTGAAA
44815226 AGTTTAATTTAATTAAATTCATCTTTAT
1 AGTTTAATTTAATTAAATTCATCTTTAT
*
44815254 AGTTTAATTTAATTAAATTCATTTTTAT
1 AGTTTAATTTAATTAAATTCATCTTTAT
* *
44815282 AATTTAATTTAATTTAATT
1 AGTTTAATTTAATTAAATT
44815301 TTAATTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (28 bp):
AGTTTAATTTAATTAAATTCATCTTTAT
Found at i:44815302 original size:23 final size:23
Alignment explanation
Indices: 44815230--44815303 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
44815220 TTGAAAAGTT
*
44815230 TAATTTAATTAAATTCATCTTTATA
1 TAATTTAATTAAATTCA-ATTT-TA
*
44815255 GTTTAATTTAATTAAATTCATTTTTA
1 ---TAATTTAATTAAATTCAATTTTA
* *
44815281 TAATTTAATTTAATTTAATTTTA
1 TAATTTAATTAAATTCAATTTTA
44815304 ATTTTAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 20 0.48
26 2 0.05
27 3 0.07
28 17 0.40
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (23 bp):
TAATTTAATTAAATTCAATTTTA
Found at i:44815664 original size:19 final size:20
Alignment explanation
Indices: 44815634--44815676 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
44815624 CGATCTGATT
* *
44815634 AATTCAAAAAAATCATTAAA
1 AATTCAAAAAAATAAATAAA
44815654 AATTC-AAAAAATAAATAAA
1 AATTCAAAAAAATAAATAAA
44815673 AATT
1 AATT
44815677 TTAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AATTCAAAAAAATAAATAAA
Found at i:44820103 original size:42 final size:42
Alignment explanation
Indices: 44820053--44820150 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
44820043 TCTTGGTATT
* **
44820053 GCACACTTAGTGCCCGTTATTCGACATCGTCATTTTTGTTTC
1 GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
*
44820095 GCACACTTAGTGTCCGTTATTCAACATCGTCATTTTAATTTC
1 GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
44820137 GCACACTTAGTGCC
1 GCACACTTAGTGCC
44820151 ATTCGTATAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (42 bp):
GCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTC
Found at i:44821917 original size:24 final size:24
Alignment explanation
Indices: 44821880--44821943 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
44821870 AAAGGAAGGC
* *
44821880 GATGAAGATGAAGATGAAAACGAG
1 GATGGAGATAAAGATGAAAACGAG
* * * *
44821904 GGTGGAGATAAAGATAAAAATGAT
1 GATGGAGATAAAGATGAAAACGAG
*
44821928 GATTGAGATAAAGATG
1 GATGGAGATAAAGATG
44821944 TGTACAAGAG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (24 bp):
GATGGAGATAAAGATGAAAACGAG
Found at i:44826859 original size:19 final size:20
Alignment explanation
Indices: 44826817--44826859 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
44826807 CCCCTCAAAT
***
44826817 CTAACCAAAAACACTAATTT
1 CTAACCAAAAACACTAAACC
44826837 CTAACC-AAAACACTAAACC
1 CTAACCAAAAACACTAAACC
44826856 CTAA
1 CTAA
44826860 TTTTTAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (20 bp):
CTAACCAAAAACACTAAACC
Found at i:44827758 original size:4 final size:4
Alignment explanation
Indices: 44827749--44827773 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
44827739 CATTTCGCTT
44827749 TTGC TTGC TTGC TTGC TTGC TTGC T
1 TTGC TTGC TTGC TTGC TTGC TTGC T
44827774 GGGTGGGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (4 bp):
TTGC
Found at i:44833669 original size:12 final size:12
Alignment explanation
Indices: 44833652--44833684 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
44833642 GGTTGTTTTC
44833652 CCTTCTTGAAGT
1 CCTTCTTGAAGT
44833664 CCTTCTTGAAGT
1 CCTTCTTGAAGT
44833676 CCTTCTTGA
1 CCTTCTTGA
44833685 CTTCTACGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (12 bp):
CCTTCTTGAAGT
Found at i:44835137 original size:87 final size:85
Alignment explanation
Indices: 44834856--44835142 Score: 268
Period size: 83 Copynumber: 3.4 Consensus size: 85
44834846 AATTAAATCA
* * *
44834856 AAATAAAATCTGTTAAACGACGGAAATAAATCCCGAAATAGA-ATTATTTGA--TTAAGTCTTCG
1 AAATAAAATCTGTTAAACGACGGAAATAAATCCCGAAACAGATTTTATTTAATTTTAAGTCTT-G
44834918 TTTGGAAACAAATC-AAGATCG
65 TTTGGAAACAAATCAAAGAT-G
** * * * * **
44834939 -AATAAAATCTGTTAAGTGACAGAAATAGATCCCAAAACAGATTTTATTTAATTTTAATTTCTCA
1 AAATAAAATCTGTTAAACGACGGAAATAAATCCCGAAACAGATTTTATTTAATTTTAA-GTCTTG
*
44835003 TTTGGCAACAAA--AAA-ATG
65 TTTGGAAACAAATCAAAGATG
* * * ** *
44835021 GAATAAAATTTGTTGAACGGGGGGAATAAATCCCGAAACAGATTTTATTTTAATTTTAA-TACTT
1 AAATAAAATCTGTTAAACGACGGAAATAAATCCCGAAACAGATTTTA-TTTAATTTTAAGT-CTT
*
44835085 GTTTGGAAATAAAATCAAAGATG
64 GTTTGGAAA-CAAATCAAAGATG
* *
44835108 AAATAAAATTTGTTAAACGACGGGAATAAATCCCG
1 AAATAAAATCTGTTAAACGACGGAAATAAATCCCG
44835143 GAATTCTTTC
Statistics
Matches: 162, Mismatches: 30, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
82 37 0.23
83 54 0.33
84 16 0.10
85 15 0.09
86 6 0.04
87 34 0.21
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (85 bp):
AAATAAAATCTGTTAAACGACGGAAATAAATCCCGAAACAGATTTTATTTAATTTTAAGTCTTGT
TTGGAAACAAATCAAAGATG
Found at i:44835279 original size:16 final size:16
Alignment explanation
Indices: 44835258--44835303 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
44835248 ACAAAAAAAT
44835258 ATAAATATAAATATAA
1 ATAAATATAAATATAA
** *
44835274 ATAAATATTTATATAT
1 ATAAATATAAATATAA
44835290 ATAAA-ATAAA-ATAA
1 ATAAATATAAATATAA
44835304 GTTGAATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 3 0.12
15 3 0.12
16 18 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATATAAATATAA
Found at i:44835301 original size:22 final size:23
Alignment explanation
Indices: 44835253--44835302 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
44835243 AGCGAACAAA
44835253 AAAATATAAATATAAATATAAAT
1 AAAATATAAATATAAATATAAAT
** *
44835276 -AAATATTTATATATATA-AAAT
1 AAAATATAAATATAAATATAAAT
44835297 AAAATA
1 AAAATA
44835303 AGTTGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATATAAATATAAATATAAAT
Found at i:44835370 original size:21 final size:20
Alignment explanation
Indices: 44835337--44835393 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
44835327 TTGGATATGT
44835337 AAAACCAATAAATAACATAA-CA
1 AAAACCAA-AAATAA-A-AATCA
44835359 AAAACCAAAAATCAAAAATCA
1 AAAACCAAAAAT-AAAAATCA
*
44835380 AAAATCAAAAATAA
1 AAAACCAAAAATAA
44835394 GAAACGAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.12
21 18 0.56
22 10 0.31
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (20 bp):
AAAACCAAAAATAAAAATCA
Found at i:44835375 original size:6 final size:7
Alignment explanation
Indices: 44835357--44835391 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
44835347 AATAACATAA
*
44835357 CAAAAAC
1 CAAAAAT
44835364 CAAAAAT
1 CAAAAAT
44835371 CAAAAAT
1 CAAAAAT
44835378 CAAAAAT
1 CAAAAAT
44835385 CAAAAAT
1 CAAAAAT
44835392 AAGAAACGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (7 bp):
CAAAAAT
Found at i:44840063 original size:13 final size:13
Alignment explanation
Indices: 44840045--44840095 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
44840035 TTTTTCATTA
44840045 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
44840058 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
** *
44840071 CAGTGGAAAAGTG
1 CTTTTGAAAAGTG
44840084 CTTTTGAAAAGT
1 CTTTTGAAAAGT
44840096 TTGGTTTACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:44841855 original size:26 final size:26
Alignment explanation
Indices: 44841826--44841878 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
44841816 AGTTTGGCAA
44841826 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTGTGGAAAAGTACTTTTGAGAAG
*
44841852 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTGTGGAAAAGTACTTTTGAGAAG
44841878 T
1 T
44841879 ACTTTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (26 bp):
TGCTGTGGAAAAGTACTTTTGAGAAG
Found at i:44841865 original size:13 final size:13
Alignment explanation
Indices: 44841826--44841868 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
44841816 AGTTTGGCAA
44841826 TGCTGTGGAAAAG
1 TGCTGTGGAAAAG
* * * *
44841839 TACTTTTGAGAAG
1 TGCTGTGGAAAAG
44841852 TGCTGTGGAAAAG
1 TGCTGTGGAAAAG
44841865 TGCT
1 TGCT
44841869 TTTGAGAAGT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (13 bp):
TGCTGTGGAAAAG
Found at i:44841878 original size:13 final size:13
Alignment explanation
Indices: 44841836--44841886 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
44841826 TGCTGTGGAA
44841836 AAGTACTTTTGAG
1 AAGTACTTTTGAG
* * * *
44841849 AAGTGCTGTGGAA
1 AAGTACTTTTGAG
*
44841862 AAGTGCTTTTGAG
1 AAGTACTTTTGAG
44841875 AAGTACTTTTGA
1 AAGTACTTTTGA
44841887 AAATTTTGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:44844110 original size:72 final size:72
Alignment explanation
Indices: 44843940--44844244 Score: 447
Period size: 72 Copynumber: 4.2 Consensus size: 72
44843930 ATAAACAACT
* *
44843940 ATTGATAAAACTA-ATTTA-ATATAAATAAGTAGAACATAAATTTAATATCCAAATACATACCAA
1 ATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCC-AA-A-A-ACCAA
*
44844003 ACATAAACA-AC
61 ACATAAACAGTC
*
44844014 TATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACAT
1 -ATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACAT
44844079 AAACAGTC
65 AAACAGTC
* *
44844087 ATTGAGAAAACTAGATTACACATAAATAAGTAGAGCATAAATTCAATATCCAAAAACCAAACATA
1 ATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATA
44844152 AACAGTC
66 AACAGTC
44844159 ATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATA
1 ATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATA
* *
44844224 AATA-AC
66 AACAGTC
44844230 TATTGATAAAACTAG
1 -ATTGATAAAACTAG
44844245 TTTAGCATTG
Statistics
Matches: 215, Mismatches: 11, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
71 1 0.00
72 163 0.76
73 2 0.01
74 1 0.00
75 17 0.08
76 31 0.14
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (72 bp):
ATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATA
AACAGTC
Found at i:44844699 original size:18 final size:18
Alignment explanation
Indices: 44844678--44844725 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
44844668 TCCATCAATT
44844678 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
44844696 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
44844714 TGAACATCATTT
1 TGAACATCATTT
44844726 CTCACATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:44845559 original size:3 final size:3
Alignment explanation
Indices: 44845551--44845579 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44845541 GAGCATTCAT
44845551 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
44845580 TTAAAGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:44856389 original size:38 final size:38
Alignment explanation
Indices: 44856344--44856422 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
44856334 CCAATTTAAA
44856344 ATATTGGAATTTTGTACCAATTAAGTAAAATATAAAAT
1 ATATTGGAATTTTGTACCAATTAAGTAAAATATAAAAT
44856382 ATATTGGAATTTTGTACCAATTAAGTAAAATATAAAAT
1 ATATTGGAATTTTGTACCAATTAAGTAAAATATAAAAT
44856420 ATA
1 ATA
44856423 CTTTTCTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (38 bp):
ATATTGGAATTTTGTACCAATTAAGTAAAATATAAAAT
Found at i:44861400 original size:13 final size:11
Alignment explanation
Indices: 44861355--44861403 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
44861345 AATTTGAGGC
44861355 AAATTA-TTAA
1 AAATTAGTTAA
*
44861365 AAATTACTT-A
1 AAATTAGTTAA
44861375 AAATTAGTTAA
1 AAATTAGTTAA
44861386 AAATTAGTATTAA
1 AAATTAG--TTAA
44861399 AAATT
1 AAATT
44861404 TCAAATACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
10 15 0.44
11 10 0.29
13 9 0.26
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (11 bp):
AAATTAGTTAA
Found at i:44862789 original size:27 final size:27
Alignment explanation
Indices: 44862759--44862824 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
44862749 ATCAGGGTAT
44862759 GCCACAAAGGC-AGTTCTTTCAGAGTTC
1 GCCACAAAGGCTA-TTCTTTCAGAGTTC
*
44862786 GCCACAAAGACTATTCTTTCAGAGTTC
1 GCCACAAAGGCTATTCTTTCAGAGTTC
*
44862813 GTCACAAAGGCT
1 GCCACAAAGGCT
44862825 TACAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (27 bp):
GCCACAAAGGCTATTCTTTCAGAGTTC
Found at i:44870206 original size:50 final size:50
Alignment explanation
Indices: 44870089--44870283 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
44870079 GATAATAACA
* * ** * ** *
44870089 TGCCAAAGCCATGTCCCAGACATGATCTTACATGGGATGTTTTTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
44870138 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *** *
44870188 TGCCCATGCCATGTCCCAGACATGGTTTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
44870238 TGCCAACGTCATGTCCCAGACATGGTTTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
44870284 ACCTCAATGA
Statistics
Matches: 117, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 79 0.68
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:44873678 original size:42 final size:43
Alignment explanation
Indices: 44873617--44873702 Score: 140
Period size: 42 Copynumber: 2.0 Consensus size: 43
44873607 TTTTATCCTA
*
44873617 GAAAAAATAATTTAAAAAAAGGAGAAGATAATA-TTGGGTTGTT
1 GAAAAAAGAATTTAAAAAAAGGAGAAGATAA-ACTTGGGTTGTT
44873660 GAAAAAAGAATTT-AAAAAAGGAGAAGATAAACTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAAAGGAGAAGATAAACTTGGGTTGTT
44873702 G
1 G
44873703 GATTTACCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.68
43 12 0.29
ACGTcount: A:0.50, C:0.01, G:0.23, T:0.26
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAAAGGAGAAGATAAACTTGGGTTGTT
Found at i:44879647 original size:9 final size:9
Alignment explanation
Indices: 44879633--44879663 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44879623 GTTAAACGAA
44879633 TCGAGTTAT
1 TCGAGTTAT
*
44879642 TCGAGTTAA
1 TCGAGTTAT
44879651 TCGAGTTAT
1 TCGAGTTAT
44879660 TCGA
1 TCGA
44879664 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:44879746 original size:9 final size:9
Alignment explanation
Indices: 44879717--44879753 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
44879707 TGAGTTTTCG
44879717 AATTCGAAT
1 AATTCGAAT
*
44879726 AACTCGAAT
1 AATTCGAAT
44879735 AATTCGAAT
1 AATTCGAAT
*
44879744 AATTCAAAT
1 AATTCGAAT
44879753 A
1 A
44879754 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44880778 original size:15 final size:15
Alignment explanation
Indices: 44880758--44880790 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44880748 CTCAAAAATT
44880758 TTCGATTCGATTTGA
1 TTCGATTCGATTTGA
*
44880773 TTCGATTCGGTTTGA
1 TTCGATTCGATTTGA
44880788 TTC
1 TTC
44880791 AATCGAACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (15 bp):
TTCGATTCGATTTGA
Found at i:44881069 original size:25 final size:25
Alignment explanation
Indices: 44881013--44881069 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
44881003 GGCTCTCCAA
*
44881013 AGCTTT-TCGATATTGGCTCGCTTG
1 AGCTTTCTCGATATTGGCTCGATTG
* *
44881037 AACCTTCTCGATATTGGCTC-ATATG
1 AGCTTTCTCGATATTGGCTCGAT-TG
44881062 AGCTTTCT
1 AGCTTTCT
44881070 GTTAATGGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (25 bp):
AGCTTTCTCGATATTGGCTCGATTG
Found at i:44881113 original size:25 final size:24
Alignment explanation
Indices: 44881051--44881117 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
44881041 TTCTCGATAT
* * *
44881051 TGGCTCATATGAGCTTTCTGTTAA
1 TGGCTCACATGAGCTTCCCGTTAA
*
44881075 TGGCTCTC-TAGAGCTTCCCGTTACA
1 TGGCTCACAT-GAGCTTCCCGTTA-A
44881100 TGGCTCACATGAGCTTCC
1 TGGCTCACATGAGCTTCC
44881118 TATTATATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 16 0.46
26 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:44881127 original size:25 final size:25
Alignment explanation
Indices: 44881051--44881170 Score: 86
Period size: 25 Copynumber: 4.8 Consensus size: 25
44881041 TTCTCGATAT
* *
44881051 TGGCTCATATGAGCTTTCTGTTA-A
1 TGGCTCACATGAGCTTCCTGTTATA
* * *
44881075 TGGCTCTC-TAGAGCTTCCCGTTACA
1 TGGCTCACAT-GAGCTTCCTGTTATA
*
44881100 TGGCTCACATGAGCTTCCTATTATA
1 TGGCTCACATGAGCTTCCTGTTATA
* * * *
44881125 TGGATCGA-AAGAGCTACCCGTTTATA
1 TGGCTC-ACATGAGCTTCCTG-TTATA
44881151 T-GCTCACATGAGCATTCCTG
1 TGGCTCACATGAGC-TTCCTG
44881171 AATATGAATT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
23 1 0.01
24 18 0.25
25 41 0.57
26 12 0.17
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCTGTTATA
Found at i:44881922 original size:14 final size:15
Alignment explanation
Indices: 44881890--44881922 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44881880 TATGTTAATG
*
44881890 TATGATTTGAGATAA
1 TATGATTGGAGATAA
44881905 TATGATTGGAGA-AA
1 TATGATTGGAGATAA
44881919 TATG
1 TATG
44881923 CATATACGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (15 bp):
TATGATTGGAGATAA
Found at i:44887975 original size:50 final size:50
Alignment explanation
Indices: 44887896--44888007 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 50
44887886 ATTGGCTCGT
* *
44887896 ATGAGCTTTCC-GTTAATGGCTTACTAGAGC-AGCCCATTACAT-TGCTCAC
1 ATGAGCATTCCTGTTAATGGCTTACAAGAGCTA-CCCATT-CATATGCTCAC
* *
44887945 ATGAGC-TTCCTGTTATATGGCTTGA-AAGAGCTACCCGTTTATATGCTCAC
1 ATGAGCATTCCTGTTA-ATGGCTT-ACAAGAGCTACCCATTCATATGCTCAC
44887995 ATGAGCATTCCTG
1 ATGAGCATTCCTG
44888008 AATATGAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
48 4 0.07
49 12 0.22
50 30 0.56
51 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (50 bp):
ATGAGCATTCCTGTTAATGGCTTACAAGAGCTACCCATTCATATGCTCAC
Found at i:44888000 original size:25 final size:24
Alignment explanation
Indices: 44887938--44888000 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
44887928 CCCATTACAT
* *
44887938 TGCTCACATGAGCTTCCTGTTATA
1 TGCTCACATGAGCTACCCGTTATA
* *
44887962 TGGCTTGA-AAGAGCTACCCGTTTATA
1 T-GC-TCACATGAGCTACCCG-TTATA
44887988 TGCTCACATGAGC
1 TGCTCACATGAGC
44888001 ATTCCTGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
24 3 0.10
25 18 0.62
26 8 0.28
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (24 bp):
TGCTCACATGAGCTACCCGTTATA
Found at i:44888759 original size:14 final size:15
Alignment explanation
Indices: 44888727--44888759 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44888717 TATGTTAATG
*
44888727 TATGATTTGAGATAA
1 TATGATTGGAGATAA
44888742 TATGATTGGAGA-AA
1 TATGATTGGAGATAA
44888756 TATG
1 TATG
44888760 CATATATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (15 bp):
TATGATTGGAGATAA
Found at i:44890346 original size:14 final size:14
Alignment explanation
Indices: 44890327--44890353 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44890317 AATTTTGAAA
44890327 TTAAGTTTTCAAAC
1 TTAAGTTTTCAAAC
44890341 TTAAGTTTTCAAA
1 TTAAGTTTTCAAA
44890354 TTACAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (14 bp):
TTAAGTTTTCAAAC
Found at i:44894083 original size:20 final size:22
Alignment explanation
Indices: 44894053--44894096 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
44894043 AGAAAAAGAG
44894053 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
44894074 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
44894095 AA
1 AA
44894097 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:44896988 original size:35 final size:33
Alignment explanation
Indices: 44896896--44897065 Score: 177
Period size: 35 Copynumber: 5.1 Consensus size: 33
44896886 GTCCAAAAAG
* * *
44896896 AAATAATACATGAACAGGAGAGATTCCCTGCAAG
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAAA
*
44896930 AAATGAT-GTGAACA-G-AAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAAAGATTCCCTGCAA-A
* *
44896961 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAG
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAAA
*
44896995 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAAAGATTCCCTGCAA-A
* *
44897028 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAA-A
44897063 AAA
1 AAA
44897066 GACAAGTGAA
Statistics
Matches: 113, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
30 13 0.12
31 7 0.06
32 29 0.26
33 12 0.11
34 13 0.12
35 39 0.35
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (33 bp):
AAATAATCGTGAACAGGAAAGATTCCCTGCAAA
Found at i:44897000 original size:65 final size:67
Alignment explanation
Indices: 44896896--44897064 Score: 279
Period size: 67 Copynumber: 2.6 Consensus size: 67
44896886 GTCCAAAAAG
* *
44896896 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACA-G-AAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
44896959 CA
66 CA
44896961 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
44897026 CA
66 CA
* * *
44897028 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAA
1 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAA
44897065 AGACAAGTGA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
65 46 0.47
66 1 0.01
67 50 0.52
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:44897349 original size:14 final size:13
Alignment explanation
Indices: 44897322--44897359 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
44897312 AATTTTGAAA
44897322 TTTTCAAATTAAG
1 TTTTCAAATTAAG
44897335 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
44897349 TTTTCAAATTA
1 TTTTCAAATTA
44897360 CAAATATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:44907207 original size:43 final size:43
Alignment explanation
Indices: 44907134--44907402 Score: 371
Period size: 43 Copynumber: 6.3 Consensus size: 43
44907124 GCAAAGAAAT
* *
44907134 AAACGCTGCTATAGATCATGA-TCTTCAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACT-TTTAGCGGCGCTTTTCCCAC
* *
44907177 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* *
44907220 AAACGCCGCTATAGATCATGACTTTTAGCGGTGCTTTTTGCC-C
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGC-TTTTCCCAC
*
44907263 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * *
44907306 AAACACCGCTATAGATCATGACTTTTAGCGGCGCTTCTCCTAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * **
44907349 AAACGCCGCTATAAATCTTGACTTTTAGTGGCGCTTTTTTCAC
1 AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
44907392 AAACGCCGCTA
1 AAACGCCGCTA
44907403 AAAATGTCAT
Statistics
Matches: 202, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
42 5 0.02
43 191 0.95
44 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:44911088 original size:23 final size:23
Alignment explanation
Indices: 44911062--44911115 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
44911052 TATATGAAAT
44911062 TATTTAATATATAAATTAAAAAA
1 TATTTAATATATAAATTAAAAAA
*
44911085 TATTTAAAATATAAATTAAAAAA
1 TATTTAATATATAAATTAAAAAA
*
44911108 TAATTAAT
1 TATTTAAT
44911116 CTAAAACCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TATTTAATATATAAATTAAAAAA
Found at i:44911093 original size:11 final size:11
Alignment explanation
Indices: 44911075--44911114 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
44911065 TTAATATATA
44911075 AATTAAAAAAT
1 AATTAAAAAAT
* *
44911086 ATTTAAAATAT
1 AATTAAAAAAT
44911097 AAATTAAAAAAT
1 -AATTAAAAAAT
44911109 AATTAA
1 AATTAA
44911115 TCTAAAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATTAAAAAAT
Found at i:44911188 original size:22 final size:23
Alignment explanation
Indices: 44911148--44911209 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
44911138 ACCTATGAAT
**
44911148 CCTTAAACCCTAAATCCC-TAAC
1 CCTTAAACCCTAACCCCCTTAAC
*
44911170 TCTTAAACCCTAACCCCCTTAAC
1 CCTTAAACCCTAACCCCCTTAAC
* *
44911193 CCCTAACCCCTAACCCC
1 CCTTAAACCCTAACCCC
44911210 TAAACCTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (23 bp):
CCTTAAACCCTAACCCCCTTAAC
Found at i:44911196 original size:16 final size:15
Alignment explanation
Indices: 44911171--44911212 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
44911161 ATCCCTAACT
*
44911171 CTTAAACCCTAACCCC
1 CTTAACCCCTAA-CCC
44911187 CTTAACCCCTAACCC
1 CTTAACCCCTAACCC
44911202 C-TAACCCCTAA
1 CTTAACCCCTAA
44911213 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 11 0.44
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (15 bp):
CTTAACCCCTAACCC
Found at i:44911201 original size:7 final size:7
Alignment explanation
Indices: 44911163--44911212 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
44911153 AACCCTAAAT
44911163 CCCTAAC
1 CCCTAAC
* * *
44911170 TCTTAAA
1 CCCTAAC
44911177 CCCTAACC
1 CCCTAA-C
44911185 CCCTTAAC
1 CCC-TAAC
44911193 CCCTAAC
1 CCCTAAC
44911200 CCCTAAC
1 CCCTAAC
44911207 CCCTAA
1 CCCTAA
44911213 ACCTTAAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 25 0.71
8 7 0.20
9 3 0.09
ACGTcount: A:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:44911607 original size:7 final size:7
Alignment explanation
Indices: 44911574--44911619 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
44911564 AAAACATAAA
44911574 CCCTAAC
1 CCCTAAC
*
44911581 CCCCAAC
1 CCCTAAC
44911588 CCCTAAC
1 CCCTAAC
**
44911595 AACTAAC
1 CCCTAAC
44911602 CCCTAAC
1 CCCTAAC
*
44911609 CCCTAAA
1 CCCTAAC
44911616 CCCT
1 CCCT
44911620 CATTTACAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.33, C:0.54, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAC
Found at i:44911742 original size:7 final size:7
Alignment explanation
Indices: 44911732--44911776 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
44911722 TACTAACTCT
*
44911732 TAACCTC
1 TAACCCC
*
44911739 TAACCTC
1 TAACCCC
44911746 TAACCCC
1 TAACCCC
44911753 TAACCCC
1 TAACCCC
**
44911760 TAACTAC
1 TAACCCC
44911767 TAACCCC
1 TAACCCC
44911774 TAA
1 TAA
44911777 ACCTTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:44911748 original size:21 final size:21
Alignment explanation
Indices: 44911732--44911776 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
44911722 TACTAACTCT
*
44911732 TAACCTCTAACCTCTAACCCC
1 TAACCCCTAACCTCTAACCCC
44911753 TAACCCCTAA-CTACTAACCCC
1 TAACCCCTAACCT-CTAACCCC
44911774 TAA
1 TAA
44911777 ACCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.22
Consensus pattern (21 bp):
TAACCCCTAACCTCTAACCCC
Found at i:44912342 original size:41 final size:41
Alignment explanation
Indices: 44912297--44912698 Score: 437
Period size: 41 Copynumber: 9.8 Consensus size: 41
44912287 ATGTTTTTGT
*
44912297 GGCGCTTTTTAAAAAACACCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* * *
44912338 GGCGCTTTTTTAAAAACGCCGCTAAAACCCAGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* ** * * ** *
44912379 AGCGCTTTTTTGAACACGCCGTTAAAGCCCAAAGCATTAGT
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* * *
44912420 GGCGC-TTTTACGAAAACGCCGCTAAAGCCCCAAGCGTTAGC
1 GGCGCTTTTTA-AAAAACGCCGCTAAAGCCCCGAGCATTAGC
* ****
44912461 GGCGCTTTTTCAAAAACGCCGCTAAAGATTTGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* *
44912502 GGCGCTTTTTAGAAAACGTCGCTAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* *
44912543 GGCGCTTTTTAAAAAATGCCGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
** * * * *
44912584 GATGCTTCTTCAAAAATGCCGCTAAATCCCCGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* * * * * * *
44912625 CGCGGTTCTTCAAAAACGCCACTAAATCCCTGAGCATTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
* *
44912666 GGCGCTTCTTCAAAAACGCCGCTAAAGCCCCGA
1 GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGA
44912699 AAGATCAGAT
Statistics
Matches: 304, Mismatches: 55, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
40 4 0.01
41 296 0.97
42 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
GGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAGC
Found at i:44912832 original size:40 final size:40
Alignment explanation
Indices: 44912745--44912854 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
44912735 ATTTCTTGGA
* *
44912745 AAAACGCCTCTAATGCTC-ATTTTTAGCGGCGCTTTCCTT
1 AAAACGCCGCTAATGCTCGATTTTTAGCGGCGCTTTCATT
* * * *
44912784 AAAGCGCCGCTAATGCTCGATCTTTAGCGGTG-TTTTATGT
1 AAAACGCCGCTAATGCTCGATTTTTAGCGGCGCTTTCAT-T
* *
44912824 AAAACGCCGTTAATGTTCGATTTTTAGCGGC
1 AAAACGCCGCTAATGCTCGATTTTTAGCGGC
44912855 ATTTTTTTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 20 0.34
40 38 0.66
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (40 bp):
AAAACGCCGCTAATGCTCGATTTTTAGCGGCGCTTTCATT
Found at i:44913456 original size:49 final size:49
Alignment explanation
Indices: 44913401--44913498 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
44913391 AAATTTGTTA
44913401 ATTTTGTATTTTGGTTTATGAGTATTGATCAAATTATCAATTTACTCTT
1 ATTTTGTATTTTGGTTTATGAGTATTGATCAAATTATCAATTTACTCTT
44913450 ATTTTGTATTTTGGTTTATGAGTATTGATCAAATTATCAATTTACTCTT
1 ATTTTGTATTTTGGTTTATGAGTATTGATCAAATTATCAATTTACTCTT
44913499 GGTAGATCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (49 bp):
ATTTTGTATTTTGGTTTATGAGTATTGATCAAATTATCAATTTACTCTT
Found at i:44919215 original size:22 final size:19
Alignment explanation
Indices: 44919190--44919233 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
44919180 TGATAATAGC
44919190 TAATATATAATTAAATTTATTA
1 TAATATAT-ATT-AA-TTATTA
*
44919212 TAATGTATATTAATTATTA
1 TAATATATATTAATTATTA
44919231 TAA
1 TAA
44919234 ACTTTGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 2 0.10
21 3 0.14
22 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:44919994 original size:25 final size:26
Alignment explanation
Indices: 44919952--44920005 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
44919942 TTCTCCGAAA
*
44919952 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
44919978 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
44920003 TTT
1 TTT
44920006 ACACTAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:44921834 original size:17 final size:17
Alignment explanation
Indices: 44921814--44921847 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44921804 GAAAGCTGGG
44921814 CATGCATGAAAGTTTAA
1 CATGCATGAAAGTTTAA
44921831 CATGCATGAAAGTTTAA
1 CATGCATGAAAGTTTAA
44921848 GTCTCTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
CATGCATGAAAGTTTAA
Found at i:44924415 original size:13 final size:13
Alignment explanation
Indices: 44924399--44924423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44924389 TTACCTTTTA
44924399 ATTTTCTTAGTTC
1 ATTTTCTTAGTTC
44924412 ATTTTCTTAGTT
1 ATTTTCTTAGTT
44924424 AAAATCTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (13 bp):
ATTTTCTTAGTTC
Found at i:44924713 original size:17 final size:17
Alignment explanation
Indices: 44924685--44924733 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
44924675 ATCTTTATTA
44924685 ATTTTAATATTTTTTTAT
1 ATTTT-ATATTTTTTTAT
*
44924703 ATTTTATATTTTTGTAT
1 ATTTTATATTTTTTTAT
*
44924720 -TTGTA-ATTTTTTTA
1 ATTTTATATTTTTTTA
44924734 GTAATTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 4 0.14
17 11 0.39
18 5 0.18
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
ATTTTATATTTTTTTAT
Found at i:44924884 original size:19 final size:19
Alignment explanation
Indices: 44924828--44924923 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 19
44924818 TATAAATGTG
*
44924828 ATTTTTAATAAATTTTAAGT
1 ATTTTTAATAATTTTTAA-T
* *
44924848 AATTCTTATTAATTTTTAAT
1 -ATTTTTAATAATTTTTAAT
*
44924868 ATTTTTAATATTTTTTACA-
1 ATTTTTAATAATTTTTA-AT
* *
44924887 ATTATTAATAACTTTTAAAT
1 ATTTTTAATAA-TTTTTAAT
*
44924907 ATTTTTTTATAATTTTT
1 A-TTTTTAATAATTTTT
44924924 TATTTTTTTG
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 24 0.41
20 12 0.20
21 23 0.39
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTTTTAATAATTTTTAAT
Found at i:44924926 original size:10 final size:10
Alignment explanation
Indices: 44924828--44924923 Score: 79
Period size: 10 Copynumber: 9.6 Consensus size: 10
44924818 TATAAATGTG
44924828 ATTTTTAATA
1 ATTTTTAATA
*
44924838 AATTTTAAGTA
1 ATTTTTAA-TA
* *
44924849 ATTCTTATTA
1 ATTTTTAATA
44924859 ATTTTTAAT-
1 ATTTTTAATA
44924868 ATTTTTAAT-
1 ATTTTTAATA
* *
44924877 ATTTTTTACA
1 ATTTTTAATA
*
44924887 ATTATTAATA
1 ATTTTTAATA
*
44924897 ACTTTTAAATA
1 A-TTTTTAATA
* *
44924908 TTTTTTTATA
1 ATTTTTAATA
44924918 ATTTTT
1 ATTTTT
44924924 TATTTTTTTG
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
9 16 0.24
10 36 0.55
11 14 0.21
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:44926384 original size:43 final size:43
Alignment explanation
Indices: 44926336--44926421 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
44926326 GACTGTTCAT
*
44926336 CGCCTTGTCACTTCATCTGCCTTCCTTCTTCAAGACGCTTCCA
1 CGCCTTGTCACTTCATCTACCTTCCTTCTTCAAGACGCTTCCA
* *
44926379 CGCCTTGTCACTTCATCTACCTTTCTTTTTCAAGACGCTTCCA
1 CGCCTTGTCACTTCATCTACCTTCCTTCTTCAAGACGCTTCCA
44926422 TACTCCCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.15, C:0.37, G:0.10, T:0.37
Consensus pattern (43 bp):
CGCCTTGTCACTTCATCTACCTTCCTTCTTCAAGACGCTTCCA
Found at i:44933151 original size:3 final size:3
Alignment explanation
Indices: 44933106--44933134 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44933096 ATTAAGTTGC
44933106 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44933135 ATTTACAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44934628 original size:22 final size:23
Alignment explanation
Indices: 44934575--44934630 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
44934565 CCCGTTTTTA
* * *
44934575 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
44934598 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
44934620 ATTAAAATTAA
1 ATTAAAATTAA
44934631 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:44934643 original size:16 final size:16
Alignment explanation
Indices: 44934606--44934645 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44934596 TTAATAAAAT
* *
44934606 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
44934622 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
44934638 TAAAATTA
1 TAAAATTA
44934646 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:44934724 original size:59 final size:59
Alignment explanation
Indices: 44934656--44934834 Score: 232
Period size: 68 Copynumber: 2.9 Consensus size: 59
44934646 TCAAATTATT
*
44934656 AATTGTTAATAGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATAGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
44934715 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAATAAATTTA
1 AATTATT-A----A-T-A--GTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
44934780 TCA
57 TCA
* * *
44934783 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAATATTTGATTAGTAAA
1 AATTATTAATAGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
44934835 ACAAACTTGA
Statistics
Matches: 105, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
59 44 0.42
60 1 0.01
62 1 0.01
63 1 0.01
64 1 0.01
65 1 0.01
66 1 0.01
67 1 0.01
68 54 0.51
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATAGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:44934751 original size:9 final size:9
Alignment explanation
Indices: 44934718--44934745 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44934708 TTTATCAAAT
44934718 TATTAATTG
1 TATTAATTG
44934727 TATTAATTG
1 TATTAATTG
44934736 TATTAATTG
1 TATTAATTG
44934745 T
1 T
44934746 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:44934756 original size:68 final size:68
Alignment explanation
Indices: 44934634--44934804 Score: 301
Period size: 68 Copynumber: 2.5 Consensus size: 68
44934624 AAATTAATTG
* *
44934634 TTAGTAAAATTATCAAATTATTAATTG--TTAATAGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
44934697 TGA
66 TGA
44934700 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
44934765 TGA
66 TGA
*
44934768 TTAATAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
44934805 TGTAACAAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
66 26 0.26
68 74 0.74
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:44942201 original size:6 final size:6
Alignment explanation
Indices: 44942164--44942199 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
44942154 TTGTATATTC
*
44942164 CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA TTTGAA
1 CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA
44942200 TTATTGTACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (6 bp):
CTTGAA
Found at i:44943569 original size:15 final size:15
Alignment explanation
Indices: 44943549--44943578 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44943539 GTGATTGTTT
44943549 GCTCTAATCAAAGAA
1 GCTCTAATCAAAGAA
44943564 GCTCTAATCAAAGAA
1 GCTCTAATCAAAGAA
44943579 CCCATTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
GCTCTAATCAAAGAA
Found at i:44943758 original size:19 final size:20
Alignment explanation
Indices: 44943734--44943772 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44943724 CTTAATATTA
*
44943734 CTTTC-AACACAAATATAAT
1 CTTTCAAACAAAAATATAAT
44943753 CTTTCAAACAAAAATATAAT
1 CTTTCAAACAAAAATATAAT
44943773 GTTCAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (20 bp):
CTTTCAAACAAAAATATAAT
Found at i:44943777 original size:19 final size:20
Alignment explanation
Indices: 44943739--44943779 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
44943729 TATTACTTTC
* *
44943739 AACACAAATATAATCTTTCA
1 AACAAAAATATAATCGTTCA
44943759 AACAAAAATATAAT-GTTCA
1 AACAAAAATATAATCGTTCA
44943778 AA
1 AA
44943780 GTTATATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (20 bp):
AACAAAAATATAATCGTTCA
Found at i:44943856 original size:119 final size:118
Alignment explanation
Indices: 44943722--44944062 Score: 445
Period size: 110 Copynumber: 2.9 Consensus size: 118
44943712 TTTAAATTAT
* *
44943722 ATCTTAATATTACTTTCAACACAAATATAATCTTTCAAACAAAAATATAATGTTCAAAGTTATAT
1 ATCTTAATATTACTTTCAACACAAATCTAATCATTCAAACAAAAATATAATGTTCAAAGTTATAT
44943787 CTT-AAATATACAAATTATTATTACAATATAAAAAAACATACACTAATCAAACCA
66 -TTAAAATATACAAATTATTATTA-AATATAAAAAAACATACACTAATCAAACCA
*
44943841 ATCTTAGTATTACTTTCAACACAAATCTAATCATTCAAACAAAAATATAATGTTCAAAGTTATAT
1 ATCTTAATATTACTTTCAACACAAATCTAATCATTCAAACAAAAATATAATGTTCAAAGTTATAT
* * *
44943906 ATTAAAATATAC-AA--ATTA-T---TA-AAAAAAA-ATGCACTAGTGAAACCA
66 -TTAAAATATACAAATTATTATTAAATATAAAAAAACATACACTAATCAAACCA
* *
44943951 ATCTTAATATTACTTTCAAAAAAAATCTAATCATTCAAACAAAAATATAAAT-TT-AAATGTTAT
1 ATCTTAATATTACTTTCAACACAAATCTAATCATTCAAACAAAAATAT-AATGTTCAAA-GTTAT
*
44944014 ATTTAAAAATATACAAATTATTATTTAAAAATAAAATAAACATACACTA
64 ATTT-AAAATATACAAATTATTA-TTAAATATAAAA-AAACATACACTA
44944063 CAAAACAAAA
Statistics
Matches: 195, Mismatches: 12, Indels: 28
0.83 0.05 0.12
Matches are distributed among these distances:
109 5 0.03
110 77 0.39
111 12 0.06
112 2 0.01
113 4 0.02
115 1 0.01
116 1 0.01
117 4 0.02
118 1 0.01
119 70 0.36
120 11 0.06
121 7 0.04
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.33
Consensus pattern (118 bp):
ATCTTAATATTACTTTCAACACAAATCTAATCATTCAAACAAAAATATAATGTTCAAAGTTATAT
TTAAAATATACAAATTATTATTAAATATAAAAAAACATACACTAATCAAACCA
Found at i:44944196 original size:55 final size:55
Alignment explanation
Indices: 44944129--44944238 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
44944119 ATTCAAACAA
*
44944129 AAATATAATATTCAAAGTTAACATACCTTAATACTAATCTAATATAATAATATAT
1 AAATATAATATTCAAAATTAACATACCTTAATACTAATCTAATATAATAATATAT
44944184 AAATATAATATTCAAAATTAACATACCTTAATACTAATCTAATATAATAATATAT
1 AAATATAATATTCAAAATTAACATACCTTAATACTAATCTAATATAATAATATAT
44944239 CTTAATACTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (55 bp):
AAATATAATATTCAAAATTAACATACCTTAATACTAATCTAATATAATAATATAT
Found at i:44944242 original size:29 final size:28
Alignment explanation
Indices: 44944155--44944247 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 28
44944145 GTTAACATAC
44944155 CTTAATACTAATCTAATATAATAATATA
1 CTTAATACTAATCTAATATAATAATATA
* * * *
44944183 -TAAATA-TAATATTCAA-A-ATTAACATA
1 CTTAATACTAAT-CT-AATATAATAATATA
44944209 CCTTAATACTAATCTAATATAATAATATA
1 -CTTAATACTAATCTAATATAATAATATA
44944238 TCTTAATACT
1 -CTTAATACT
44944248 CTAAGTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
26 11 0.22
27 9 0.18
28 9 0.18
29 20 0.41
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (28 bp):
CTTAATACTAATCTAATATAATAATATA
Found at i:44949603 original size:16 final size:17
Alignment explanation
Indices: 44949569--44949612 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
44949559 ATCCACATAA
*
44949569 TATTTTCTTATTTTTTG
1 TATTTTCTTATTTTCTG
44949586 TATTTTCTT-TTTTCTG
1 TATTTTCTTATTTTCTG
44949602 TACTTTT-TTAT
1 TA-TTTTCTTAT
44949613 CACTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.75
Consensus pattern (17 bp):
TATTTTCTTATTTTCTG
Found at i:44951967 original size:57 final size:57
Alignment explanation
Indices: 44951898--44952017 Score: 240
Period size: 57 Copynumber: 2.1 Consensus size: 57
44951888 CGAGTTCTTC
44951898 GTCAATCAAATAGTAGCTACCCTATCAGGATATTACAATCTTCCACTAACATAACGA
1 GTCAATCAAATAGTAGCTACCCTATCAGGATATTACAATCTTCCACTAACATAACGA
44951955 GTCAATCAAATAGTAGCTACCCTATCAGGATATTACAATCTTCCACTAACATAACGA
1 GTCAATCAAATAGTAGCTACCCTATCAGGATATTACAATCTTCCACTAACATAACGA
44952012 GTCAAT
1 GTCAAT
44952018 AAGAACTATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (57 bp):
GTCAATCAAATAGTAGCTACCCTATCAGGATATTACAATCTTCCACTAACATAACGA
Found at i:44971401 original size:138 final size:138
Alignment explanation
Indices: 44971250--44971670 Score: 668
Period size: 138 Copynumber: 3.1 Consensus size: 138
44971240 GAGAATATAG
44971250 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
44971315 AATATAAATAGTTATATTAATTAATTTCAGCCAAAATATAAAAGCCAT-GAAAATTAATATTCTT
66 AATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATAG-AAATTAATATTCTT
44971379 TTGGAAAGA
130 TTGGAAAGA
**
44971388 ATATAATTAATATATGAATTTGATTCATGTAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * * *
44971453 AATATAAACAATTATATTAATTAATTT-TGATCAAAATATAAAAGACATAGACATGAATATTCTT
66 AATATAAATAGTTATATTAATTAATTTCAG-TCAAAATATAAAAGACATAGAAATTAATATTCTT
44971517 TTGGAAAGA
130 TTGGAAAGA
* * **
44971526 ATATAATTAAT-TATGTATTTGATTCACACAAAATATTAATTGTATATATTTTACTAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *
44971590 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGGCATAGAAATTAATATTCTTT
66 AATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATAGAAATTAATATTCTTT
44971655 TGGAAAGA
131 TGGAAAGA
44971663 ATATAATT
1 ATATAATT
44971671 CTTTTTTCTA
Statistics
Matches: 259, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
137 121 0.47
138 137 0.53
139 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATAGAAATTAATATTCTTT
TGGAAAGA
Found at i:44980654 original size:22 final size:22
Alignment explanation
Indices: 44980609--44980671 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 22
44980599 TATGTATATG
44980609 TTTATAAAATGTATTATAATTTATAA
1 TTTATAAAAT-T-TTAT-ATTTAT-A
*
44980635 TTTATAAAATTTTAT-TTTATG
1 TTTATAAAATTTTATATTTATA
44980656 TTT-TAAAATTTT-TATT
1 TTTATAAAATTTTATATT
44980672 CATTTCGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 5 0.14
24 4 0.11
25 1 0.03
26 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATAAAATTTTATATTTATA
Found at i:44993179 original size:46 final size:46
Alignment explanation
Indices: 44993107--44993213 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 46
44993097 GTAGATCGCA
*
44993107 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATT
1 TCAGGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAATT
* *
44993153 TCAGATCTTATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAATT
* *
44993199 TAAGGCCTTATCTCC
1 TCAGGTCTTATCTCC
44993214 TAGATAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (46 bp):
TCAGGTCTTATCTCCCTAAGATTACAGTGGAATAGACCAAAGAATT
Found at i:44995184 original size:22 final size:22
Alignment explanation
Indices: 44995139--44995201 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 22
44995129 TATGTATATG
44995139 TTTATAAAATGTATTATAATTTATAA
1 TTTATAAAAT-T-TTAT-ATTTAT-A
*
44995165 TTTATAAAATTTTAT-TTTATG
1 TTTATAAAATTTTATATTTATA
44995186 TTT-TAAAATTTT-TATT
1 TTTATAAAATTTTATATT
44995202 CATTTCGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.09
22 5 0.14
24 4 0.11
25 1 0.03
26 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTATAAAATTTTATATTTATA
Found at i:44999986 original size:27 final size:27
Alignment explanation
Indices: 44999931--44999986 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
44999921 AAAGGTTGTT
* *
44999931 AAATGATCGAAATACCCCTATAAGTTA
1 AAATGATCGAAATACCCCTAGAAGGTA
* * *
44999958 AAATGATCGTAATGCCCCTAGAGGGTA
1 AAATGATCGAAATACCCCTAGAAGGTA
44999985 AA
1 AA
44999987 TGACTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (27 bp):
AAATGATCGAAATACCCCTAGAAGGTA
Found at i:45004290 original size:77 final size:75
Alignment explanation
Indices: 45004161--45004307 Score: 206
Period size: 77 Copynumber: 1.9 Consensus size: 75
45004151 ATGGAAATTA
* *
45004161 ATATTCTTTTGGAAAGAATATAATTCATCTTTCTAACTTTTCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTTTCGAAAGAATATAATTCATCTTTCTAACTTTTCATTTGTCTTCTCTATTAACAAGG
45004226 AAATACTCAT
66 AAATACTCAT
* * *
45004236 ATATTCTTTTCGAAAGAATATAGTTCCTTTTTTTCTAACTTTTCATTT-TCCTTCTCTATTAACA
1 ATATTCTTTTCGAAAGAATATAATT-C-ATCTTTCTAACTTTTCATTTGT-CTTCTCTATTAACA
*
45004300 AGGGAATA
63 AGGAAATA
45004308 ATCTTGATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
75 23 0.37
76 2 0.03
77 38 0.60
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTCGAAAGAATATAATTCATCTTTCTAACTTTTCATTTGTCTTCTCTATTAACAAGG
AAATACTCAT
Found at i:45006477 original size:187 final size:187
Alignment explanation
Indices: 45006158--45006527 Score: 458
Period size: 187 Copynumber: 2.0 Consensus size: 187
45006148 AAACTTTTAA
** *
45006158 AAATTATATCGTGATCCAACATTTATTACGGACCATAGAGTATTGAATATCTTCACGGAAACCCT
1 AAATTATATAATGATCCAACATTTATTACGGACCATAGAGTATTGAATATCTTCACGAAAACCCT
* * * * * * *
45006223 AGTGTGGTGGAAGGACATGTTGTTATACGATTTTACAAATGATTATCTACGGGCTTGGCAGTTTG
66 AGTGTGGTGGAAGGACATATTGTTATACAAATTTACAAATGATTACCTACAGCCTTGGCACTTTG
*
45006288 GTGCCTTAGTGTGGTGTAGTTACTAC-TCTAACGAGCAACCTGATGTGGTCTAGTTAC
131 GTGCCCTAGTGTGGTGTAGTTACTACTTC-AACGAGCAACCTGATGTGGTCTAGTTAC
* ** * **
45006345 AAATTATATAATGATCCAACATTTGTTGTGGACCATCA-AGTATTGAATATCTTTAC-AAAGATG
1 AAATTATATAATGATCCAACATTTATTACGGACCAT-AGAGTATTGAATATCTTCACGAAA-ACC
* * * * * *
45006408 CTAGTGTGGTGTAGGGACGTATTGTTATACAAATTTACAGATGATTGCCTACAGCCTTTGCACTT
64 CTAGTGTGGTGGAAGGACATATTGTTATACAAATTTACAAATGATTACCTACAGCCTTGGCACTT
* * *
45006473 TGGTGCCCTGGTGTGGTGTAGTTACTACTTCAATGAGCAACCTGGTGTGGTCTAG
129 TGGTGCCCTAGTGTGGTGTAGTTACTACTTCAACGAGCAACCTGATGTGGTCTAG
45006528 ATACCTGTGT
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
186 2 0.01
187 149 0.97
188 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (187 bp):
AAATTATATAATGATCCAACATTTATTACGGACCATAGAGTATTGAATATCTTCACGAAAACCCT
AGTGTGGTGGAAGGACATATTGTTATACAAATTTACAAATGATTACCTACAGCCTTGGCACTTTG
GTGCCCTAGTGTGGTGTAGTTACTACTTCAACGAGCAACCTGATGTGGTCTAGTTAC
Found at i:45010573 original size:19 final size:20
Alignment explanation
Indices: 45010536--45010582 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
45010526 ATTTTATAAT
45010536 TTGAATTTATGAATGTTTTG
1 TTGAATTTATGAATGTTTTG
45010556 TTGAATTT-TGAAT-TTTT-
1 TTGAATTTATGAATGTTTTG
45010573 TTGCAATTTA
1 TTG-AATTTA
45010583 GTACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 3 0.12
18 9 0.36
19 5 0.20
20 8 0.32
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (20 bp):
TTGAATTTATGAATGTTTTG
Found at i:45021780 original size:20 final size:21
Alignment explanation
Indices: 45021740--45021780 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45021730 GCGCAGGTAG
*
45021740 TATGTCACGACATAGGAGGGC
1 TATGTCACGACATACGAGGGC
45021761 TATGTCACGACAT-CGAGGGC
1 TATGTCACGACATACGAGGGC
45021781 AGTTTTGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.20
Consensus pattern (21 bp):
TATGTCACGACATACGAGGGC
Found at i:45023278 original size:13 final size:13
Alignment explanation
Indices: 45023260--45023301 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
45023250 TAAATGCTTC
*
45023260 CATATAAGCATTT
1 CATATAAACATTT
*
45023273 CATATAACCATTT
1 CATATAAACATTT
45023286 CACT-TAAACATTT
1 CA-TATAAACATTT
45023299 CAT
1 CAT
45023302 CTTACCATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:45023770 original size:20 final size:20
Alignment explanation
Indices: 45023747--45023784 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45023737 GAAGTGTAGA
45023747 CAGAGGCA-CAAATGTGCAAT
1 CAGAGGCACCAAA-GTGCAAT
45023767 CAGAGGCACCAAAGTGCA
1 CAGAGGCACCAAAGTGCA
45023785 TACTCGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAT
Found at i:45028490 original size:13 final size:13
Alignment explanation
Indices: 45028472--45028502 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
45028462 TAATTTTTAG
45028472 GGTTTGATTCTTA
1 GGTTTGATTCTTA
45028485 GGTTTGATTCTTA
1 GGTTTGATTCTTA
*
45028498 AGTTT
1 GGTTT
45028503 TTCTTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.55
Consensus pattern (13 bp):
GGTTTGATTCTTA
Found at i:45034764 original size:16 final size:18
Alignment explanation
Indices: 45034739--45034773 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45034729 TAGGCCTTAG
45034739 TTTTATTTTTA-GTTCTT
1 TTTTATTTTTATGTTCTT
45034756 TTTTA-TTTTATGTTCTT
1 TTTTATTTTTATGTTCTT
45034773 T
1 T
45034774 GGAGAACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTATGTTCTT
Found at i:45036812 original size:12 final size:12
Alignment explanation
Indices: 45036791--45036834 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
45036781 CTTTTGACCA
*
45036791 AAAAAATAAACG
1 AAAAAGTAAACG
*
45036803 AAAAAGTAAAAAG
1 AAAAAGT-AAACG
45036816 AAAAA-TAAACG
1 AAAAAGTAAACG
45036827 AAAAAGTA
1 AAAAAGTA
45036835 TAAAAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 9 0.33
12 9 0.33
13 9 0.33
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.09
Consensus pattern (12 bp):
AAAAAGTAAACG
Found at i:45036819 original size:24 final size:25
Alignment explanation
Indices: 45036792--45036839 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
45036782 TTTTGACCAA
45036792 AAAAATAAACGAAAAAGTA-AAAAG
1 AAAAATAAACGAAAAAGTATAAAAG
45036816 AAAAATAAACGAAAAAGTATAAAA
1 AAAAATAAACGAAAAAGTATAAAA
45036840 AAATGCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.75, C:0.04, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAAATAAACGAAAAAGTATAAAAG
Found at i:45043954 original size:14 final size:14
Alignment explanation
Indices: 45043935--45043961 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45043925 TCTAATGAAT
45043935 GAATTAACCAGAAC
1 GAATTAACCAGAAC
45043949 GAATTAACCAGAA
1 GAATTAACCAGAA
45043962 TTTCTTCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (14 bp):
GAATTAACCAGAAC
Found at i:45044965 original size:49 final size:49
Alignment explanation
Indices: 45044893--45045042 Score: 255
Period size: 49 Copynumber: 3.1 Consensus size: 49
45044883 TGATTCATGC
* * *
45044893 TATACAATGCTAAACTTGGTCTTCCACTGTCCACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
45044942 TATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
1 TATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
* *
45044991 TAGACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCAATATT
1 TATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
45045040 TAT
1 TAT
45045043 CCCTTCTTAA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 95 1.00
ACGTcount: A:0.27, C:0.26, G:0.07, T:0.39
Consensus pattern (49 bp):
TATACATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATT
Found at i:45046171 original size:43 final size:43
Alignment explanation
Indices: 45046109--45046194 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
45046099 TCATATTTGA
** *
45046109 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATCAAATAATCATTTATCATATTTGCCATTTCAATAT
* * *
45046152 TTTCTCATCAAATATTCATTTATCATATTTTCTATTTCAATAT
1 TTTCTCATCAAATAATCATTTATCATATTTGCCATTTCAATAT
45046195 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.01, T:0.51
Consensus pattern (43 bp):
TTTCTCATCAAATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:45047399 original size:16 final size:18
Alignment explanation
Indices: 45047378--45047410 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
45047368 CATCTATTTT
45047378 TCTTTC-TTTT-ATTATA
1 TCTTTCATTTTAATTATA
45047394 TCTTTCATTTTAATTAT
1 TCTTTCATTTTAATTAT
45047411 TATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTTTCATTTTAATTATA
Found at i:45047680 original size:15 final size:15
Alignment explanation
Indices: 45047662--45047692 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45047652 TAAATTCATA
45047662 AATATTTAATTAAAT
1 AATATTTAATTAAAT
45047677 AATATTTAATTAAAT
1 AATATTTAATTAAAT
45047692 A
1 A
45047693 TTTATGAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTAATTAAAT
Found at i:45049857 original size:49 final size:49
Alignment explanation
Indices: 45049784--45049904 Score: 129
Period size: 49 Copynumber: 2.5 Consensus size: 49
45049774 TGAGCATCCA
* * *
45049784 GATATATGGCTC-TTTGGAGCTTCTCGATATTGGCTCACTTGAACCTTCCC
1 GATATATGGCTCATAT-GAGCTTCTCGATAATGGCTCAC-CGAACCTTCCC
* * * * *
45049834 GATAT-TGGCTCGTATGAGCTTCTCGTTAATGGCTCTCCGGAGCTTCCC
1 GATATATGGCTCATATGAGCTTCTCGATAATGGCTCACCGAACCTTCCC
*
45049882 GTTATATGGCTCATATGAGCTTC
1 GATATATGGCTCATATGAGCTTC
45049905 CCGTTTATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 12 0.20
49 41 0.68
50 7 0.12
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (49 bp):
GATATATGGCTCATATGAGCTTCTCGATAATGGCTCACCGAACCTTCCC
Found at i:45049909 original size:25 final size:24
Alignment explanation
Indices: 45049767--45049907 Score: 92
Period size: 25 Copynumber: 5.7 Consensus size: 24
45049757 ACACACCGTA
* *
45049767 GCTCTTATGAGCATCCAGATATATG
1 GCTC-TATGAGCTTCCCGATATATG
* *
45049792 GCTCTTTGGAGCTTCTCGATAT-TG
1 GCTCTAT-GAGCTTCCCGATATATG
*
45049816 GCTC-ACTTGAACCTTCCCGATAT-TG
1 GCTCTA--TG-AGCTTCCCGATATATG
* *
45049841 GCTCGTATGAGCTTCTCGTTA-ATG
1 GCTC-TATGAGCTTCCCGATATATG
** *
45049865 GCTCTCCGGAGCTTCCCGTTATATG
1 GCTCT-ATGAGCTTCCCGATATATG
45049890 GCTCATATGAGCTTCCCG
1 GCTC-TATGAGCTTCCCG
45049908 TTTATGTGCT
Statistics
Matches: 91, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.01
24 36 0.40
25 52 0.57
26 1 0.01
27 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (24 bp):
GCTCTATGAGCTTCCCGATATATG
Found at i:45049924 original size:25 final size:25
Alignment explanation
Indices: 45049828--45049913 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 25
45049818 TCACTTGAAC
*
45049828 CTTCCCGATAT-TGGCTC-GTATGAG
1 CTTCCCGTTATATGGCTCAG-ATGAG
* ****
45049852 CTTCTCGTTA-ATGGCTCTCCGGAG
1 CTTCCCGTTATATGGCTCAGATGAG
*
45049876 CTTCCCGTTATATGGCTCATATGAG
1 CTTCCCGTTATATGGCTCAGATGAG
45049901 CTTCCCGTT-TATG
1 CTTCCCGTTATATG
45049914 TGCTTGGATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
24 30 0.61
25 19 0.39
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (25 bp):
CTTCCCGTTATATGGCTCAGATGAG
Found at i:45051203 original size:32 final size:31
Alignment explanation
Indices: 45051148--45051318 Score: 184
Period size: 32 Copynumber: 5.4 Consensus size: 31
45051138 GAATGGCTAC
* *
45051148 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAG-AATATGATCGGCACA
*
45051179 AAGCCATTAGTAGCACAG-ATATGATCGGCACA
1 AAGCCATCAGTA--ACAGAATATGATCGGCACA
* * * *
45051211 CAGCCATTAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAG-AATATGATCGGCACA
*
45051243 AAGCCATCAGTAACAGTAATATGATCGACACA
1 AAGCCATCAGTAACAG-AATATGATCGGCACA
* *
45051275 AAGCCATCAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAG-AATATGATCGGCACA
45051307 AAGCCATCAGTA
1 AAGCCATCAGTA
45051319 GCATCGCAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.02
31 10 0.08
32 105 0.86
34 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (31 bp):
AAGCCATCAGTAACAGAATATGATCGGCACA
Found at i:45051265 original size:64 final size:63
Alignment explanation
Indices: 45051148--45051318 Score: 229
Period size: 64 Copynumber: 2.7 Consensus size: 63
45051138 GAATGGCTAC
* ** * *
45051148 AAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATTAGTAGCACAGATATGATCGGCACA
1 AAGCCATAAGTAACGGTAATATGACCGGCACAAAGCCATCAGTA-CACAGATATGATCGACACA
* *
45051211 CAGCCATTAGTAACGGTAATATGACCGGCACAAAGCCATCAGTA-ACAGTAATATGATCGACACA
1 AAGCCATAAGTAACGGTAATATGACCGGCACAAAGCCATCAGTACACAG--ATATGATCGACACA
*
45051275 AAGCCATCAGTAACGGTAATATGACCGGCACAAAGCCATCAGTA
1 AAGCCATAAGTAACGGTAATATGACCGGCACAAAGCCATCAGTA
45051319 GCATCGCAGC
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
62 4 0.04
63 9 0.09
64 83 0.86
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (63 bp):
AAGCCATAAGTAACGGTAATATGACCGGCACAAAGCCATCAGTACACAGATATGATCGACACA
Found at i:45051345 original size:26 final size:26
Alignment explanation
Indices: 45051316--45051365 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45051306 AAAGCCATCA
*
45051316 GTAGCATCGCAGCAAAGCTGCCAGCG
1 GTAGCATCACAGCAAAGCTGCCAGCG
*
45051342 GTAGTATCACAGCAAAGCTGCCAG
1 GTAGCATCACAGCAAAGCTGCCAG
45051366 TAATAGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (26 bp):
GTAGCATCACAGCAAAGCTGCCAGCG
Found at i:45051372 original size:26 final size:26
Alignment explanation
Indices: 45051325--45051374 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
45051315 AGTAGCATCG
**
45051325 CAGCAAAGCTGCCAGCGGTAGTATCA
1 CAGCAAAGCTGCCAGCAATAGTATCA
*
45051351 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGCAATAGTAT
45051375 ATGTGGCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAATAGTATCA
Found at i:45051392 original size:27 final size:27
Alignment explanation
Indices: 45051362--45051421 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
45051352 AGCAAAGCTG
45051362 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAATAGTGAT-TGTGG-CAGAGCCA
*
45051389 CCAGTAATGGTGATTGTGGCAGAGCCA
1 CCAGTAATAGTGATTGTGGCAGAGCCA
45051416 CCAGTA
1 CCAGTA
45051422 CAGTACATCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (27 bp):
CCAGTAATAGTGATTGTGGCAGAGCCA
Found at i:45051522 original size:23 final size:23
Alignment explanation
Indices: 45051490--45051570 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
45051480 TCATGCTCAG
*
45051490 AATCAGTCATTCAAATCACA-ACA
1 AATCAATCATTCAAA-CACAGACA
*
45051513 AATCAATCATACCAAACACAGACA
1 AATCAATCAT-TCAAACACAGACA
* * *
45051537 AATCAGTCATTTAACCACAGACA
1 AATCAATCATTCAAACACAGACA
45051560 AATCAATCATT
1 AATCAATCATT
45051571 TGACCTCAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
23 33 0.67
24 16 0.33
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.21
Consensus pattern (23 bp):
AATCAATCATTCAAACACAGACA
Found at i:45051650 original size:27 final size:27
Alignment explanation
Indices: 45051610--45052002 Score: 518
Period size: 27 Copynumber: 14.6 Consensus size: 27
45051600 CCACTAGGGC
* *
45051610 ATTACGGTCTTTTTACCCTACAGTGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
45051637 ATTACAGTTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
45051664 ATTACGGTCATTCTACCCTACAGAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
45051691 ATTACGGTCATTCTACCCTGCAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
45051718 ATTACGGTCATTTTACCCTACA-GGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
45051744 ATTACGGTCATTTTACCCTACAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
45051771 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * **
45051798 ATTACGGCCATTTTATCCTATACAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
45051825 ATTACGATTATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
45051852 ATTACGGTCATTCTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
45051879 ATTACGGTCATCTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
45051906 ATTACGATCATTTTATCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
**
45051933 ATTACGGTCATTTTACCCTACAGGAAT
1 ATTACGGTCATTTTACCCTACAGGGGT
45051960 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
45051987 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
45052003 AACCTTTTCG
Statistics
Matches: 314, Mismatches: 51, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 26 0.08
27 288 0.92
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:45054378 original size:37 final size:37
Alignment explanation
Indices: 45054320--45054395 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
45054310 CCTGGCCACA
45054320 ATGGCGTGTGTCCCCTACACCTTGGAAAAATTTTGAT
1 ATGGCGTGTGTCCCCTACACCTTGGAAAAATTTTGAT
* *
45054357 ATGGTGTGTGTCCCCTGCACCTTGGAAAAATTTTGAT
1 ATGGCGTGTGTCCCCTACACCTTGGAAAAATTTTGAT
45054394 AT
1 AT
45054396 TTTGCGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (37 bp):
ATGGCGTGTGTCCCCTACACCTTGGAAAAATTTTGAT
Found at i:45056738 original size:4 final size:4
Alignment explanation
Indices: 45056724--45056754 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
45056714 TTATTATTTC
45056724 TATT ATATT TATT TATT TATT TATT TATT TA
1 TATT -TATT TATT TATT TATT TATT TATT TA
45056755 CCTAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:45062056 original size:14 final size:13
Alignment explanation
Indices: 45062030--45062054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45062020 AATATTTCAT
45062030 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
45062043 AAAAGAAAAAAA
1 AAAAGAAAAAAA
45062055 AGGAGAGGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:45062783 original size:50 final size:47
Alignment explanation
Indices: 45062698--45063001 Score: 186
Period size: 44 Copynumber: 6.5 Consensus size: 47
45062688 TGAAGCCACT
* * * *
45062698 AATCCTATATCCCTGAAGTTGCAGTG-GGATGGATTGAAGTCATCATGGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAG-TAGATTGAAG-CATCA--GTG
*
45062748 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGC--CACT-
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGCATCAGTG
* * * *
45062792 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAG-AT-AGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGCATCAGTG
* * * *
45062837 AATCTTATTTCCCTGAAGTTGCAGTGGAA-TAGATTAAAGCTATAAATTG
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGC-AT-CAGTG
* * * * * *
45062886 CAAATCTTATCTCTCTGAAATTGCAGT-AAGGCAGAATAAAGC-T-A-TA
1 --AATCTTATCTCCCTGAAGTTGCAGTGAA-GTAGATTGAAGCATCAGTG
* * * **
45062932 AACCTTATCTCCCTGAAGTTGTAGTGGAA-TAGACTGAAG-AT-AGCA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGCATCAGTG
*
45062977 AATCTTATCTCTCTGAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
45063002 AGAGCAGAAT
Statistics
Matches: 203, Mismatches: 34, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
44 67 0.33
45 54 0.27
46 6 0.03
47 5 0.02
49 6 0.03
50 33 0.16
51 32 0.16
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (47 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAGCATCAGTG
Found at i:45063002 original size:89 final size:88
Alignment explanation
Indices: 45062748--45063273 Score: 362
Period size: 89 Copynumber: 5.8 Consensus size: 88
45062738 CATCATGGTG
** * *
45062748 AATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTGAAGCCA-CTAGTCTTATCTCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-TAGATTGAAGATAGCAAATCTTATCTCCCTGAAGT
* * * **
45062811 TGCAGTGAAGCAGACTGAAGATAGCG
65 TGCAGT-AGGCAGAATAAAGATA-TA
* * *
45062837 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTATAAATTGCAAATCTTATCTCTCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAG--AT--A--GCAAATCTTATCTCCCT
* *
45062902 GAAATTGCAGTAAGGCAGAATAAAGCTATA
60 GAAGTTGCAGT-AGGCAGAATAAAGATATA
* * * *
45062932 AACCTTATCTCCCTGAAGTTGTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
*
45062997 GCAGTAGAGCAGAATAAAGCTATA
66 GCAGTAG-GCAGAATAAAGATATA
* * * * ** * * * *
45063021 AACCTTACCTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * *
45063085 ACAGTGGAGCAGACTAAAGATAGCT-
66 GCAGTAG-GCAGAATAAAGATA--TA
* * * * * *
45063110 AATCTTATTTCCCTGAAGTTACAGTGCAACAGATT-AAGGTTGCAAATTACAATTGGATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGCAAA-T-C--TT--ATCTCCCT
* * * *
45063174 GAAGTTGCAGTGGGGCAGATTGAAGATACA
60 GAAGTTGCAGT-AGGCAGAATAAAGATATA
* ** * * * * *
45063204 AGTCTTATCTCTTTGAAGTTGTAGTGGAGTAGACTGAAGATAACAAATCTTATCTCTCC-AAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGCAAATCTTATCTC-CCTGAAGT
45063268 TGCAGT
65 TGCAGT
45063274 GGAATAGATC
Statistics
Matches: 347, Mismatches: 68, Indels: 44
0.76 0.15 0.10
Matches are distributed among these distances:
88 43 0.12
89 153 0.44
90 7 0.02
91 4 0.01
93 6 0.02
94 26 0.07
95 71 0.20
96 37 0.11
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTAGGCAGAATAAAGATATA
Found at i:45063221 original size:44 final size:45
Alignment explanation
Indices: 45062748--45063276 Score: 298
Period size: 44 Copynumber: 11.6 Consensus size: 45
45062738 CATCATGGTG
* * * * ** *
45062748 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTGAAG-CCACT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * * * *
45062792 AGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATAGCG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * ** * *
45062837 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTATAAATTGCA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG--AT-AA---CA
* * * * * *
45062888 AATCTTATCTCTCTGAAATTGCAGT-AAGGCAGAATAAAGCT-ATA
1 AATCTTATCTCTCTGAAGTTGCAGTGGA-GCAGACTGAAGATAACA
* * * ** *
45062932 AACCTTATCTCCCTGAAGTTGTAGTGGAATAGACTGAAGATAGCA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * * * *
45062977 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAATAAAGCT-ATA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * * ** *
45063021 AACCTTACCTCTCTAAAGTTGCAGTGGAGCAGGTTGAAG-TTACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * * * * * *
45063065 AGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGATAGCT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * * * * * * **
45063110 AATCTTATTTCCCTGAAGTTACAGTGCAACAGA-TTAAGGTTGCA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * *
45063154 AATTACAATTGGATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGAT-ACA
1 AA-T-C--TT--ATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
* * * *
45063204 AGTCTTATCTCTTTGAAGTTGTAGTGGAGTAGACTGAAGATAACA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
**
45063249 AATCTTATCTCTCCAAAGTTGCAGTGGA
1 AATCTTATCTCTCTGAAGTTGCAGTGGA
45063277 ATAGATCGAA
Statistics
Matches: 369, Mismatches: 96, Indels: 39
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.00
44 170 0.46
45 124 0.34
46 3 0.01
47 3 0.01
48 4 0.01
49 2 0.01
50 26 0.07
51 36 0.10
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAACA
Found at i:45063512 original size:9 final size:9
Alignment explanation
Indices: 45063490--45063525 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
45063480 CAGAAACCAA
*
45063490 AAAATAAATA
1 AAAAT-AATT
45063500 AAAATAATT
1 AAAATAATT
45063509 AAAATAATT
1 AAAATAATT
45063518 AAAATAAT
1 AAAATAAT
45063526 CCAAATTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATAATT
Found at i:45064875 original size:4 final size:4
Alignment explanation
Indices: 45064861--45064895 Score: 61
Period size: 4 Copynumber: 8.5 Consensus size: 4
45064851 TTATTATTTC
45064861 TATT ATATT TATT TATT TATT TATT TATT TATT TA
1 TATT -TATT TATT TATT TATT TATT TATT TATT TA
45064896 CCTAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:45065837 original size:18 final size:18
Alignment explanation
Indices: 45065816--45065851 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45065806 TTGAGTTTTC
*
45065816 GAATTCGAATAACTCGAA
1 GAATTCAAATAACTCGAA
*
45065834 GAATTCAAATAATTCGAA
1 GAATTCAAATAACTCGAA
45065852 TATCAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (18 bp):
GAATTCAAATAACTCGAA
Found at i:45066103 original size:30 final size:31
Alignment explanation
Indices: 45066067--45066126 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
45066057 AAACCTTTTA
*
45066067 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
** *
45066097 TTTTCCCTTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
45066127 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:45068264 original size:29 final size:29
Alignment explanation
Indices: 45068241--45068460 Score: 226
Period size: 29 Copynumber: 7.6 Consensus size: 29
45068231 TTGACTATCG
*
45068241 ACTATGAAAAGGGATGGTGATGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
*
45068270 ACTATGAAAAGGGATGGTAACGACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
* * *** *
45068299 AATATGAAAAGGGATAGTTTTGACTATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
*
45068328 ACTATGAAAAGGGATGGTGACAACCATCA
1 ACTATGAAAAGGGATGGTGACGACCATCA
* * *
45068357 ACTATTAAAAGGGATGGCGACGACCATCG
1 ACTATGAAAAGGGATGGTGACGACCATCA
* * **
45068386 ATTAATGAAAAGAGATGGTTTCGACCATCA
1 ACT-ATGAAAAGGGATGGTGACGACCATCA
* * * * *
45068416 AATATGAAAAAGGATTGTGACAATCATCGA
1 ACTATGAAAAGGGATGGTGACGACCATC-A
45068446 A-TATGAAAAGGGATG
1 ACTATGAAAAGGGATG
45068461 CTTACAACCA
Statistics
Matches: 153, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
29 129 0.84
30 24 0.16
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (29 bp):
ACTATGAAAAGGGATGGTGACGACCATCA
Found at i:45068319 original size:87 final size:88
Alignment explanation
Indices: 45068206--45068460 Score: 325
Period size: 87 Copynumber: 2.9 Consensus size: 88
45068196 TATCGACAAG
* * * **
45068206 CATCAATTAAAGAAAAGGGATAGTTTTGACTATCGACTATGAAAAGGGATGGTGATGACCATCAA
1 CATCAAATAATGAAAAGGGATAGTTTTGACTATCAACTATGAAAAGGGATGGTGACAACCATCAA
*
45068271 CTATGAAAAGGGATGGTAACGAC
66 CTATGAAAAGGGATGGCAACGAC
45068294 CATCAAAT-ATGAAAAGGGATAGTTTTGACTATCAACTATGAAAAGGGATGGTGACAACCATCAA
1 CATCAAATAATGAAAAGGGATAGTTTTGACTATCAACTATGAAAAGGGATGGTGACAACCATCAA
* *
45068358 CTATTAAAAGGGATGGCGACGAC
66 CTATGAAAAGGGATGGCAACGAC
* * * * * * * * * *
45068381 CATCGATTAATGAAAAGAGATGGTTTCGACCATCAAATATGAAAAAGGATTGTGACAATCATCGA
1 CATCAAATAATGAAAAGGGATAGTTTTGACTATCAACTATGAAAAGGGATGGTGACAACCATC-A
45068446 A-TATGAAAAGGGATG
65 ACTATGAAAAGGGATG
45068461 CTTACAACCA
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
87 78 0.53
88 66 0.45
89 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.23
Consensus pattern (88 bp):
CATCAAATAATGAAAAGGGATAGTTTTGACTATCAACTATGAAAAGGGATGGTGACAACCATCAA
CTATGAAAAGGGATGGCAACGAC
Found at i:45068451 original size:117 final size:115
Alignment explanation
Indices: 45068241--45068472 Score: 281
Period size: 117 Copynumber: 2.0 Consensus size: 115
45068231 TTGACTATCG
* * *
45068241 ACTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTAACGACCATCAAATATGA
1 ACTATGAAAAGGGATGGCGACGACCATCAACTATGAAAAGAGATGGTAACGACCATCAAATATGA
* * *
45068306 AAAGGGATAGTTTTGACTATCAACTATGAAAAGGGATGGTGACAACCATCA
66 AAAAGGA-AGTTGTGACTATCAACTATGAAAAGGGATGCTGACAACCATCA
* * * **
45068357 ACTATTAAAAGGGATGGCGACGACCATCGATTAATGAAAAGAGATGGTTTCGACCATCAAATATG
1 ACTATGAAAAGGGATGGCGACGACCATCAACT-ATGAAAAGAGATGGTAACGACCATCAAATATG
*
45068422 AAAAAGG-A-TTGTGACAATCATCGAA-TATGAAAAGGGATGCTTACAACCATC
65 AAAAAGGAAGTTGTGAC--T-ATC-AACTATGAAAAGGGATGCTGACAACCATC
45068473 GTTTAGCACA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
114 6 0.06
115 1 0.01
116 28 0.28
117 62 0.63
118 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (115 bp):
ACTATGAAAAGGGATGGCGACGACCATCAACTATGAAAAGAGATGGTAACGACCATCAAATATGA
AAAAGGAAGTTGTGACTATCAACTATGAAAAGGGATGCTGACAACCATCA
Found at i:45078752 original size:16 final size:17
Alignment explanation
Indices: 45078726--45078772 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
45078716 TGTACAAAAA
*
45078726 ATTTAAAATATAAATTT
1 ATTTAATATATAAATTT
45078743 ATTAATATATATATAAATTT
1 ATT--TA-ATATATAAATTT
45078763 A-TTAATATAT
1 ATTTAATATAT
45078773 GTAAAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
19 3 0.12
20 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAATATATAAATTT
Found at i:45078758 original size:20 final size:20
Alignment explanation
Indices: 45078733--45078772 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45078723 AAAATTTAAA
45078733 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
45078753 ATATAAATTTATTAATATAT
1 ATATAAATTTATTAATATAT
45078773 GTAAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATAT
Done.