Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 326 of 343
Found at i:104913194 original size:165 final size:164
Alignment explanation
Indices: 104912923--104913228 Score: 470
Period size: 165 Copynumber: 1.9 Consensus size: 164
104912913 TGAAAGACAA
* * ** **
104912923 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTTTT
* *
104912988 TTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCCACTCACCTCTCGCAATATGAG
66 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
104913053 TTGATTTTTTTGAAAGGCAGAAGTTGAAAAACGG
131 TTGATTTTTTTGAAAGGCAGAAGTTGAAAAACGG
* * * *
104913087 AAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGTAATACAAGTTGA-TTT
1 AAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTT
*
104913151 TTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
64 TTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
104913216 AGTTGATTTTTTT
129 AGTTGATTTTTTT
104913229 AAGAATACCT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
164 21 0.17
165 78 0.61
166 28 0.22
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (164 bp):
AAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTTTT
TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAGGCAGAAGTTGAAAAACGG
Found at i:104913228 original size:76 final size:75
Alignment explanation
Indices: 104913086--104913228 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 75
104913076 TTGAAAAACG
* * *
104913086 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGTAATACAAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTAAGGCTCAACTCACCTCTCGCAATACAAGTTGATTT
104913151 TTTTGACAACA
65 TTTTGACAACA
* * * **
104913162 GAAATTGAAATTACCTCAGCGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTT
104913226 TTT
66 TTT
104913229 AAGAATACCT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTT
TTTGACAACA
Found at i:104920791 original size:24 final size:24
Alignment explanation
Indices: 104920764--104920813 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
104920754 ATGAAAGTTT
*
104920764 AATGCCAATG-ATGCAATGCAATGC
1 AATGCAAATGTATGCAATG-AATGC
*
104920788 AATGCAAATGTATGGAATGAATGC
1 AATGCAAATGTATGCAATGAATGC
104920812 AA
1 AA
104920814 AAGAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (24 bp):
AATGCAAATGTATGCAATGAATGC
Found at i:104923340 original size:15 final size:17
Alignment explanation
Indices: 104923320--104923351 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
104923310 TTAGGAAACG
104923320 TACATAA-A-AAATATA
1 TACATAATATAAATATA
104923335 TACATAATATAAATATA
1 TACATAATATAAATATA
104923352 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:104924379 original size:32 final size:30
Alignment explanation
Indices: 104924350--104924406 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
104924340 GGTTTCTTAG
*
104924350 TTTTT-TTTTTTTTGAGGTTAGGTTTTTCT
1 TTTTTCTTTTTTTTTAGGTTAGGTTTTTCT
*
104924379 TTTTTCTTTTTTTTTTGGTTAGGTTTTT
1 TTTTTCTTTTTTTTTAGGTTAGGTTTTT
104924407 TTTGGGGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.05, C:0.04, G:0.16, T:0.75
Consensus pattern (30 bp):
TTTTTCTTTTTTTTTAGGTTAGGTTTTTCT
Found at i:104926954 original size:26 final size:26
Alignment explanation
Indices: 104926923--104927056 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 26
104926913 TGAAATTCCC
* *
104926923 ATCATGGAACATTTAACTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
104926949 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
104926975 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104927001 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
104927027 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104927053 ATCA
1 ATCA
104927057 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104935797 original size:12 final size:12
Alignment explanation
Indices: 104935780--104935810 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
104935770 GTGAATAAAG
104935780 AAGATAAATGGA
1 AAGATAAATGGA
104935792 AAGAT-AATGGA
1 AAGATAAATGGA
104935803 AAGATAAA
1 AAGATAAA
104935811 ACGTGGCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (12 bp):
AAGATAAATGGA
Found at i:104938464 original size:20 final size:20
Alignment explanation
Indices: 104938441--104938478 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
104938431 AAATTTTTGG
104938441 ATTTTTGAAATTTATTTTTA
1 ATTTTTGAAATTTATTTTTA
104938461 ATTTTTGAAATTTATTTT
1 ATTTTTGAAATTTATTTT
104938479 GAACTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTTGAAATTTATTTTTA
Found at i:104939780 original size:17 final size:17
Alignment explanation
Indices: 104939749--104939791 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
104939739 AAATTTAAAC
104939749 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
104939765 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
*
104939782 -TTTTATTTAA
1 ATTTTAATTAA
104939792 TAAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:104939791 original size:16 final size:16
Alignment explanation
Indices: 104939749--104939788 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
104939739 AAATTTAAAC
104939749 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
104939765 ATTTTAATTAAGATAAT
1 ATTTT-ATTAAAATAAT
104939782 -TTTTATT
1 ATTTTATT
104939789 TAATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:104941872 original size:24 final size:24
Alignment explanation
Indices: 104941806--104941875 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
104941796 TTTTAAAAAT
**
104941806 TTATAAAAATATA-AATTATTAAAA
1 TTATAAAAATATATAATT-TTATTA
* * * *
104941830 TAAT-AAAATTTTTACTTTTATTA
1 TTATAAAAATATATAATTTTATTA
104941853 TTATAAAAATATATAATTTTATT
1 TTATAAAAATATATAATTTTATT
104941876 TTTGAAAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
23 13 0.38
24 21 0.62
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATAAAAATATATAATTTTATTA
Found at i:104942958 original size:26 final size:26
Alignment explanation
Indices: 104942849--104942950 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
104942839 CATGAAATTC
104942849 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
104942875 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
104942901 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
104942927 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
104942951 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104959478 original size:19 final size:20
Alignment explanation
Indices: 104959454--104959493 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
104959444 CTATTTGATT
* *
104959454 ATTTTATTAGTTATAT-TAA
1 ATTTTAATAGTAATATATAA
104959473 ATTTTAATAGTAATATATAA
1 ATTTTAATAGTAATATATAA
104959493 A
1 A
104959494 AAAAATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTTAATAGTAATATATAA
Found at i:104964061 original size:26 final size:26
Alignment explanation
Indices: 104964032--104964113 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
104964022 CATGAAATTC
104964032 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
104964058 TTATCATGAAACATTTACCTAGCCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
104964084 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
104964110 TTAT
1 TTAT
104964114 TAATTTGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104965169 original size:14 final size:13
Alignment explanation
Indices: 104965145--104965179 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
104965135 TAAAAATCAA
*
104965145 TTTATTAAAATTT
1 TTTATTAAAATAT
104965158 TTTATTATAAATAT
1 TTTATTA-AAATAT
104965172 TTTATTAA
1 TTTATTAA
104965180 TTATATGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATTAAAATAT
Found at i:104972268 original size:31 final size:30
Alignment explanation
Indices: 104972198--104972278 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
104972188 TGGCGTGGAG
* *
104972198 GGCTTAATTGATTTATTATTATTATTTTACGA
1 GGCTTAATTGATTT-TTA-TAGTATTTTAGGA
104972230 GGTCTTAATTGACTTTTTA-AGTATTTTAGGA
1 GG-CTTAATTGA-TTTTTATAGTATTTTAGGA
*
104972261 GAGCTTAATTCATTTTTA
1 G-GCTTAATTGATTTTTA
104972279 GGGATTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
30 6 0.14
31 19 0.44
32 3 0.07
33 12 0.28
34 3 0.07
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (30 bp):
GGCTTAATTGATTTTTATAGTATTTTAGGA
Found at i:104972779 original size:20 final size:20
Alignment explanation
Indices: 104972754--104972807 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
104972744 TTTTCTAACT
*
104972754 TTTTTTATTAATTTTTA-TAA
1 TTTTTTA-TAATTTTAATTAA
*
104972774 TTTTTTATCATTTTAATTAA
1 TTTTTTATAATTTTAATTAA
*
104972794 TTTTATATAATTTT
1 TTTTTTATAATTTT
104972808 CTATCATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTATAATTTTAATTAA
Found at i:104972805 original size:30 final size:29
Alignment explanation
Indices: 104972755--104972816 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
104972745 TTTCTAACTT
* *
104972755 TTTTTATTAATTTTTATAATTTTTTATCA
1 TTTTAATTAATTTTTATAATTTTCTATCA
104972784 TTTTAATTAATTTTATATAATTTTCTATCA
1 TTTTAATTAATTTT-TATAATTTTCTATCA
104972814 TTT
1 TTT
104972817 CTAGATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTAATTAATTTTTATAATTTTCTATCA
Found at i:104972816 original size:10 final size:10
Alignment explanation
Indices: 104972756--104972807 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
104972746 TTCTAACTTT
104972756 TTTTAT-TAA
1 TTTTATATAA
104972765 TTTT-TATAA
1 TTTTATATAA
* *
104972774 TTTTTTATCA
1 TTTTATATAA
104972784 TTTTA-ATTAA
1 TTTTATA-TAA
104972794 TTTTATATAA
1 TTTTATATAA
104972804 TTTT
1 TTTT
104972808 CTATCATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
8 1 0.03
9 12 0.33
10 22 0.61
11 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTATATAA
Found at i:104972886 original size:10 final size:9
Alignment explanation
Indices: 104972871--104972938 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 9
104972861 CATATTAATA
104972871 AAATTTTAT
1 AAATTTTAT
104972880 AACA-TTTAGT
1 AA-ATTTTA-T
*
104972890 -AATTTTTT
1 AAATTTTAT
104972898 AAAATTTTAT
1 -AAATTTTAT
*
104972908 AATATTTAAT
1 AA-ATTTTAT
*
104972918 AATTTTCTAT
1 AAATTT-TAT
104972928 AAATTTTAT
1 AAATTTTAT
104972937 AA
1 AA
104972939 TAAACTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
8 2 0.04
9 20 0.43
10 24 0.52
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (9 bp):
AAATTTTAT
Found at i:104972901 original size:28 final size:28
Alignment explanation
Indices: 104972869--104972938 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
104972859 AGCATATTAA
* *
104972869 TAAAATTTTATAACATTTAGTAATTTTT
1 TAAAATTTTATAACATTTAATAATTTTC
*
104972897 TAAAATTTTATAATATTTAATAATTTTC
1 TAAAATTTTATAACATTTAATAATTTTC
104972925 TATAAATTTTATAA
1 TA-AAATTTTATAA
104972939 TAAACTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 27 0.71
29 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (28 bp):
TAAAATTTTATAACATTTAATAATTTTC
Found at i:104976426 original size:34 final size:33
Alignment explanation
Indices: 104976378--104976441 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
104976368 AGTGAAATAT
*
104976378 AAGAATTAAAATTAAAATTTAACCATAAAATTA
1 AAGAATTAAAATTAAAATTTAACCAAAAAATTA
* *
104976411 AAGAGATTAGAATTAAAATTTAGCCAAAAAA
1 AAGA-ATTAAAATTAAAATTTAACCAAAAAA
104976442 AACATTGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (33 bp):
AAGAATTAAAATTAAAATTTAACCAAAAAATTA
Found at i:104979875 original size:19 final size:19
Alignment explanation
Indices: 104979851--104979912 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
104979841 CTTGGGTGAT
104979851 TTGCAAAAATGGAGATCAA
1 TTGCAAAAATGGAGATCAA
* * *
104979870 TTGCAAATCA-GG-G-TGAT
1 TTGCAAA-AATGGAGATCAA
104979887 TTGCAAAAATGGAGATCAA
1 TTGCAAAAATGGAGATCAA
104979906 TTGCAAA
1 TTGCAAA
104979913 TCAATCTCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
18 2 0.06
19 18 0.55
20 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (19 bp):
TTGCAAAAATGGAGATCAA
Found at i:104979891 original size:36 final size:36
Alignment explanation
Indices: 104979844--104979915 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
104979834 TGATTGTCTT
104979844 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
1 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
104979880 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
1 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
104979916 ATCTCAGCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (36 bp):
GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
Found at i:104980549 original size:20 final size:20
Alignment explanation
Indices: 104980511--104980549 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104980501 TAAATTTAAA
* * *
104980511 AAATTTATAAAATATTATAT
1 AAATTAATAAAAAAATATAT
104980531 AAATTAATAAAAAAATATA
1 AAATTAATAAAAAAATATA
104980550 ATTTTTTCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTAATAAAAAAATATAT
Found at i:104982369 original size:15 final size:16
Alignment explanation
Indices: 104982351--104982385 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
104982341 TAATGATGTG
104982351 AATAATAAAATAT-AA
1 AATAATAAAATATCAA
*
104982366 AATATTAAAATATCAA
1 AATAATAAAATATCAA
104982382 AATA
1 AATA
104982386 TTAGAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAAAATATCAA
Found at i:104982374 original size:8 final size:8
Alignment explanation
Indices: 104982351--104982393 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
104982341 TAATGATGTG
*
104982351 AATAATAA
1 AATATTAA
104982359 AATA-TAA
1 AATATTAA
104982366 AATATTAA
1 AATATTAA
*
104982374 AATATCAA
1 AATATTAA
*
104982382 AATATTAG
1 AATATTAA
104982390 AATA
1 AATA
104982394 ATAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:104982385 original size:16 final size:15
Alignment explanation
Indices: 104982351--104982393 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
104982341 TAATGATGTG
*
104982351 AATAATAAAATATAA
1 AATATTAAAATATAA
104982366 AATATTAAAATATCAA
1 AATATTAAAATAT-AA
*
104982382 AATATTAGAATA
1 AATATTAAAATA
104982394 ATAATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AATATTAAAATATAA
Found at i:104982608 original size:22 final size:24
Alignment explanation
Indices: 104982545--104982609 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
104982535 TGTGATAATA
*
104982545 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
104982570 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
104982593 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
104982610 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:104982634 original size:30 final size:29
Alignment explanation
Indices: 104982598--104982665 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
104982588 TATAGTTAAG
*
104982598 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATAAATAAGATAACAT-TAAAAATAT
* * *
104982628 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAAATAT
*
104982657 ATACATAAA
1 ATATATAAA
104982666 ATAGTATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAAATAT
Found at i:104982656 original size:25 final size:24
Alignment explanation
Indices: 104982539--104982757 Score: 96
Period size: 23 Copynumber: 9.0 Consensus size: 24
104982529 TAAATATGTG
* *
104982539 ATAATATTAAAAATATGTACATAAT
1 ATAATATT-AAGATATATACATAAT
* * * *
104982564 ATAGTGTTAAAAATACATACATAAT
1 ATAATATT-AAGATATATACATAAT
* *
104982589 AT-A-GTTAAGATATATACATAAG
1 ATAATATTAAGATATATACATAAT
* * *
104982611 ATAACATGTAAAAATATATATATAAATAAT
1 ATAATAT-T----A-AGATATATACATAAT
*
104982641 ATAATATTAAAGATATATACATAAA
1 ATAATATT-AAGATATATACATAAT
* * *
104982666 ATAGTA-TAATATATATACGTAAT
1 ATAATATTAAGATATATACATAAT
*
104982689 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATA-TTAAGATATATACATAAT
* * *
104982712 ATATTA-AAAGA-ATATATATAAT
1 ATAATATTAAGATATATACATAAT
*
104982734 ATAATATTAAGAAATATA-ATAAT
1 ATAATATTAAGATATATACATAAT
104982757 A
1 A
104982758 ACAAAAAAGG
Statistics
Matches: 151, Mismatches: 28, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
21 2 0.01
22 30 0.20
23 45 0.30
24 8 0.05
25 44 0.29
26 2 0.01
29 2 0.01
30 18 0.12
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
ATAATATTAAGATATATACATAAT
Found at i:104983282 original size:30 final size:30
Alignment explanation
Indices: 104983247--104983359 Score: 181
Period size: 30 Copynumber: 3.8 Consensus size: 30
104983237 GGTACAAGTA
* *
104983247 GTGGTGGAGAAGGTGTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGGAGTGGCTAGTGGAGTTG
*
104983277 GTGGTGGAAAAAGAGTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGGAGTGGCTAGTGGAGTTG
*
104983307 GTGGTGGAAAAGGTGTGGCTAGTGGAGTTG
1 GTGGTGGAAAAGGAGTGGCTAGTGGAGTTG
*
104983337 GTGGTGGAAAAGGACTGGCTAGT
1 GTGGTGGAAAAGGAGTGGCTAGT
104983360 TGAGAAAAGT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.25
Consensus pattern (30 bp):
GTGGTGGAAAAGGAGTGGCTAGTGGAGTTG
Found at i:104984281 original size:75 final size:75
Alignment explanation
Indices: 104984158--104984408 Score: 317
Period size: 76 Copynumber: 3.3 Consensus size: 75
104984148 AGCATGTGAG
* * *
104984158 CCGAGACTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAATTGAAATTACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
104984221 TCAGCGTGTC
66 TCAGCGTGTC
* * * *
104984231 CCGAGGCTCAACTCACCTTTCGAAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAA-TTGAAAATAC
104984296 CTCAGCGTGTC
65 CTCAGCGTGTC
* * * * * *
104984307 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAATTTGAAAAGACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
**
104984372 TCAGCATGTGAG
66 TCAGC--GTGTC
*
104984384 CCAAGGCTCAACTCACCTCTCGCAA
1 CCGAGGCTCAACTCACCTCTCGCAA
104984409 AAGTAGATTT
Statistics
Matches: 151, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
73 30 0.20
74 1 0.01
75 30 0.20
76 65 0.43
77 25 0.17
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (75 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:104984321 original size:76 final size:75
Alignment explanation
Indices: 104984121--104984408 Score: 298
Period size: 76 Copynumber: 3.8 Consensus size: 75
104984111 AAAACAGAAA
* * * *
104984121 TTGAAAAGCA-AAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATA
*
104984185 TGAGTT-A-ATTT
63 TGAGTTGATTTTT
* * ** * *
104984196 TTGACAAACAGAAA-TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGAAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATG
104984260 AGTTGATTTTT
65 AGTTGATTTTT
* *
104984271 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATG
104984336 AGTTGATTTTT
65 AGTTGATTTTT
* ** * * *
104984347 TTTACGAACAG-AATTTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAA
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAA
104984409 AAGTAGATTT
Statistics
Matches: 180, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
73 33 0.18
74 1 0.01
75 56 0.31
76 64 0.36
77 24 0.13
78 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (75 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:104984499 original size:14 final size:14
Alignment explanation
Indices: 104984480--104984529 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
104984470 GAGTTAATTT
* *
104984480 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
104984494 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
104984509 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
104984523 TT-AAAAA
1 TTGAAAAA
104984530 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:104984710 original size:14 final size:14
Alignment explanation
Indices: 104984671--104984710 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
104984661 GAAAAAATAT
*
104984671 AAATTAAAAAAACAG
1 AAATT-AAAAAGCAG
*
104984686 AAATTGAAAAGCAG
1 AAATTAAAAAGCAG
104984700 AAATTAAAAAG
1 AAATTAAAAAG
104984711 ACCTCAGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (14 bp):
AAATTAAAAAGCAG
Found at i:104984744 original size:180 final size:181
Alignment explanation
Indices: 104984440--104984862 Score: 701
Period size: 180 Copynumber: 2.3 Consensus size: 181
104984430 CGACATGTGA
* *
104984440 ACCCAAGGCTCAACTCACATCTCGCAATATGAGTT-AATTTTTGAAAAATATAAATTGAAAAAAC
1 ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAAAAC
*
104984504 AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGC
66 AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCAC
*
104984569 AATATGAGTT-AATTTTTGACAAACAGAAATTG-AAATTACCTCAGCGTGT
131 AATATGAGTTGAATTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
* * *
104984618 -CCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAAATATAAATTAAAAAA
1 ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAATATAAATTGAAAAA
104984682 ACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTC
64 ACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTC
*
104984747 ACAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
129 ACAATATGAGTTGAATTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
* *
104984800 AAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAA
1 -ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAA
104984863 CACCTCAGCA
Statistics
Matches: 225, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
177 31 0.14
178 1 0.00
179 6 0.03
180 94 0.42
181 21 0.09
182 32 0.14
183 7 0.03
184 33 0.15
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (181 bp):
ACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATATAAATTGAAAAAAC
AGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCAC
AATATGAGTTGAATTTTTGACAAACAGAAATTGAAAAATACCTCAGCGTGT
Found at i:104984832 original size:77 final size:75
Alignment explanation
Indices: 104984689--104984929 Score: 314
Period size: 77 Copynumber: 3.2 Consensus size: 75
104984679 AAAACAGAAA
* * * *
104984689 TTGAAAAGCAGAAATT-AAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
104984753 TGAGTTGATTTT
64 TGAGTTGATTTT
* * *
104984765 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
104984830 TGAGTTGATTTT
64 TGAGTTGATTTT
* *
104984842 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGTAATATG
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
104984903 AGTTGA-TTT
66 AGTTGATTTT
*
104984912 TTGAAAAACATAAATTGA
1 TTGAAAAACAGAAATTGA
104984930 GCAGAAATTG
Statistics
Matches: 148, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
70 18 0.12
71 31 0.21
74 1 0.01
76 29 0.20
77 69 0.47
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:104984910 original size:71 final size:71
Alignment explanation
Indices: 104984689--104985093 Score: 325
Period size: 71 Copynumber: 5.3 Consensus size: 71
104984679 AAAACAGAAA
* * * *
104984689 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGA---G-G-CTCAACTCACCTCTCGCAATAT
104984754 GAGTTGATTTT
61 GAGTTGATTTT
* *
104984765 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTG-AAAATACCTCAGCATGT--G---AGGCTCAACTCACCTCTCGCAATA
104984830 TGAGTTGATTTT
60 TGAGTTGATTTT
* * *
104984842 TTGAAAAATAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
104984907 GA-TTT
66 GATTTT
* * *
104984912 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGAGTCTTGAGGTTCAACTCACCTC
1 TTG------A-AAA---A-CAGAAATTGAAAATACCTCAGC-A-T-GTGAGGCTCAACTCACCTC
104984977 TCGCAATATGAGTTGATTTT
52 TCGCAATATGAGTTGATTTT
** * * * *
104984997 TTG---ATGATAAATTGAAAATACCTCAATGTGACT-TGAGGTTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTC-A-G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATG
104985058 AGTTGATTTT
62 AGTTGATTTT
104985068 TTGAATTAAAACAGAAATTGAAAATA
1 TTG-A--AAAACAGAAATTGAAAATA
104985094 GAAATGGAAA
Statistics
Matches: 272, Mismatches: 27, Indels: 59
0.76 0.08 0.16
Matches are distributed among these distances:
70 6 0.02
71 88 0.32
72 1 0.00
73 2 0.01
74 1 0.00
75 1 0.00
76 30 0.11
77 79 0.29
78 1 0.00
79 2 0.01
80 1 0.00
81 19 0.07
82 2 0.01
83 1 0.00
84 32 0.12
85 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (71 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTT
Found at i:104984998 original size:155 final size:157
Alignment explanation
Indices: 104984810--104985149 Score: 435
Period size: 155 Copynumber: 2.2 Consensus size: 157
104984800 AAGCCAAGGC
104984810 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTC-A-G-C
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAAT--AAATTGAAAACACCTCAATGTC
** * *
104984872 A-TGTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AGC
63 ACT-TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAAC
* *
104984932 AGAAATTGAAAATACCTCAACGAGTCTTGAGGT
127 AGAAATGGAAAACACCTC-A-GAGTCTTGAGGT
** * *
104984965 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGATAAATTGAAAATACCTCAATGTGACT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAAATTGAAAACACCTCAATGTCACT
* *
104985030 TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATAG
66 TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA-TAAAACAGAAATTG-AAACAG
*
104985095 AAATGGAAAACACCTCAGTGTCTTGAGGT
129 AAATGGAAAACACCTCAGAGTCTTGAGGT
104985124 TCAACTCACCTCTCGCAATATGAGTT
1 TCAACTCACCTCTCGCAATATGAGTT
104985150 TTTTTGAAAC
Statistics
Matches: 162, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 67 0.41
156 7 0.04
157 1 0.01
159 49 0.30
160 1 0.01
161 17 0.10
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (157 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAATAAATTGAAAACACCTCAATGTCACT
TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGAA
ATGGAAAACACCTCAGAGTCTTGAGGT
Found at i:104985375 original size:74 final size:73
Alignment explanation
Indices: 104985208--104985479 Score: 358
Period size: 74 Copynumber: 3.7 Consensus size: 73
104985198 AGGACCTCGA
* * *
104985208 CGTGTCC-GAGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA--AAAAATTGAA
104985272 AATACCTCAG
64 AATACCTCAG
* *
104985282 CGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAAATAGAATT-AA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAA-A-AATTGAA
*
104985346 AATATCTCAG
64 AATACCTCAG
104985356 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAATTGAA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAA-AAAAATTGAA
*
104985419 ATTACCTCAG
64 AATACCTCAG
* *
104985429 C--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAA
1 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA
104985480 CATAAATTAA
Statistics
Matches: 178, Mismatches: 11, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
71 36 0.20
72 11 0.06
73 19 0.11
74 67 0.38
75 45 0.25
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (73 bp):
CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAATTGAAAA
TACCTCAG
Found at i:104985461 original size:404 final size:408
Alignment explanation
Indices: 104984809--104985555 Score: 968
Period size: 404 Copynumber: 1.8 Consensus size: 408
104984799 TAAGCCAAGG
* *
104984809 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
**
104984874 GTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
66 GTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATT--G-AGAAATT
* * **
104984939 GAAAATACCTCAACGAGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
128 GAAAATACCTCAACGAGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACA
* * *
104985004 TAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
193 AAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
* * * *
104985069 TGAATTAAAACAGAAATT-GAAAATA-G-AAA-TGGAAAACACCTCA-GTGTCTTGAGGTTCAAC
258 T---TTAAAACAGAAATTAAAAAAAACGAAAACT-GAAAACACCTCACGTGTCCTGAGGCTCAAC
104985129 TCACCTCTCGCAATATGAGTTTTTTTGAAACACATAAATTAAAAAAAAGAAATTAAAATAGAATT
319 TCACCTCTCGCAATATGAGTTTTTTTGAAACACATAAATTAAAAAAAAGAAATTAAAATAGAATT
104985194 TGAAAGGACCTCGACGTGTCCGAGA
384 TGAAAGGACCTCGACGTGTCCGAGA
*
104985219 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT-AAAAAGCAAAAATTGAAAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAA-CAAAAATTGAAAACACCTCAGC
* ***
104985283 GTGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-TTGAA-A-AAA-T-AG-AA
64 ATGT---GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATTGAGAAA
* * *
104985342 TT-AAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAC
126 TTGAAAATACCTCAACGAGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--
* * * *
104985405 AAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
189 -AACAAAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA
* * *
104985468 TTTTTTTTGAAACATAAATTAAAAAAAACGAAAACTGAAAATACCTCAGCGTGTCCTGAGGCTCA
253 TTTTTTTTAAAACAGAAATTAAAAAAAACGAAAACTGAAAACACCTCA-CGTGTCCTGAGGCTCA
104985533 ACTCACCTCTCGCAATATGAGTT
317 ACTCACCTCTCGCAATATGAGTT
104985556 GAAATTAAAA
Statistics
Matches: 293, Mismatches: 30, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
401 12 0.04
402 5 0.02
403 7 0.02
404 103 0.35
405 6 0.02
406 55 0.19
410 37 0.13
411 29 0.10
412 1 0.00
413 2 0.01
414 36 0.12
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (408 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACATAAATTGAGAAATTGAA
AATACCTCAACGAGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAA
ATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTT
AAAACAGAAATTAAAAAAAACGAAAACTGAAAACACCTCACGTGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTTTTTTGAAACACATAAATTAAAAAAAAGAAATTAAAATAGAATTTGAAAGG
ACCTCGACGTGTCCGAGA
Found at i:104985652 original size:161 final size:159
Alignment explanation
Indices: 104985344--104985640 Score: 404
Period size: 161 Copynumber: 1.9 Consensus size: 159
104985334 AAATAGAATT
* ** *
104985344 AAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC
1 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAAC
* * ** * * *
104985409 AAAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
66 AAAAATTGAAAATACCTCAGCATCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TATT
*
104985474 TTGAAACATAAATTAAAAAAAACGAAAACTG
129 TTGAAAAATAAATTAAAAAAAACGAAAACTG
104985505 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACA
1 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-A
*
104985568 CAAAAATTGAAAATACCTCAGCATACCCCGAGGCTCAACTCACCTCTTGCAATATGAGCT-A-AT
65 CAAAAATTGAAAATACCTCAGCAT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATAT
104985631 TTTGAAAAAT
128 TTTGAAAAAT
104985641 TAGAAATTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
158 10 0.08
159 3 0.03
160 25 0.21
161 53 0.44
162 29 0.24
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (159 bp):
AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAAC
AAAAATTGAAAATACCTCAGCATCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATATTTT
GAAAAATAAATTAAAAAAAACGAAAACTG
Found at i:104985813 original size:78 final size:74
Alignment explanation
Indices: 104985656--104985980 Score: 466
Period size: 78 Copynumber: 4.4 Consensus size: 74
104985646 ATTAAAAGGT
* * *
104985656 TCAACCCACCTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
104985718 TCCTGAGGC
66 TCCTGAGGC
* * *
104985727 ACAACTCACCTCTCGCAATATGAATTGATTTTTTTTTTTGAAAACAGAAATTGAAATTACCTCAG
1 TCAACTCACCTCTAGCAATATGAGTTGA----TTTTTTTGAAAACAGAAATTGAAATTACCTCAG
104985792 CGTGTCCTGAGGC
62 CGTGTCCTGAGGC
*
104985805 TCAACTCACCTCTAGCAATATGAGTTGA---TTTTGAAAA-ACAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
104985866 TCCTGAGGC
66 TCCTGAGGC
** * *
104985875 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
104985940 TCCTGAGGC
66 TCCTGAGGC
104985949 TCAACTCACCTCTAGCAATATGAGTTGATTTT
1 TCAACTCACCTCTAGCAATATGAGTTGATTTT
104985981 GAAAAACAAA
Statistics
Matches: 227, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
70 57 0.25
71 34 0.15
73 8 0.04
74 61 0.27
78 67 0.30
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (74 bp):
TCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAGGC
Found at i:104985876 original size:70 final size:70
Alignment explanation
Indices: 104985762--104985990 Score: 359
Period size: 70 Copynumber: 3.2 Consensus size: 70
104985752 TGATTTTTTT
*
104985762 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTTTGAAAA-ACAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
104985827 AGTTGA
65 AGTTGA
** *
104985833 TTTTGAAAAACAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTTTGAAAAACAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
104985898 GTTGA
66 GTTGA
* *
104985903 TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAAT
1 ---TTTTGA-AAAACAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAAT
104985968 ATGAGTTGA
62 ATGAGTTGA
104985977 TTTTGAAAAACAAA
1 TTTTGAAAAACAAA
104985991 AATTAAAAGG
Statistics
Matches: 143, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
70 63 0.44
71 15 0.10
73 6 0.04
74 59 0.41
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (70 bp):
TTTTGAAAAACAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
GTTGA
Found at i:104985964 original size:144 final size:145
Alignment explanation
Indices: 104985656--104985990 Score: 546
Period size: 144 Copynumber: 2.3 Consensus size: 145
104985646 ATTAAAAGGT
* * * *
104985656 TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCC
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-ACAAATTGAAATTACCTCAGCGTGTCC
104985721 TGAGGCACAACTCACCTCTCGCAATATGAATTGATTTTTTTTTTTGAAAACAGAAATTGAAATTA
65 TGAGGCACAACTCACCTCTCGCAATATGAATTGA---TTTTTTTTGAAAACAGAAATTGAAATTA
104985786 CCTCAGCGTGTCCTGAGGC
127 CCTCAGCGTGTCCTGAGGC
104985805 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAATTGAAATTACCTCAGCGTGTCCT
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAATTGAAATTACCTCAGCGTGTCCT
* ** * *
104985870 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTGACAACAGAAATTGAAATTACCTC
66 GAGGCACAACTCACCTCTCGCAATATGAATTGATTTTTTTTGAAAACAGAAATTGAAATTACCTC
104985934 AGCGTGTCCTGAGGC
131 AGCGTGTCCTGAGGC
104985949 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAA
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAA
104985991 AATTAAAAGG
Statistics
Matches: 177, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
144 87 0.49
148 55 0.31
149 35 0.20
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (145 bp):
TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAATTGAAATTACCTCAGCGTGTCCT
GAGGCACAACTCACCTCTCGCAATATGAATTGATTTTTTTTGAAAACAGAAATTGAAATTACCTC
AGCGTGTCCTGAGGC
Found at i:104986144 original size:68 final size:70
Alignment explanation
Indices: 104985998--104986170 Score: 210
Period size: 68 Copynumber: 2.5 Consensus size: 70
104985988 AAAAATTAAA
* * * **
104985998 AGGCTTAACTCACTTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
104986062 CCCCG
66 CCCCG
** *
104986067 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
* **
104986130 TCTTG
66 CCCCG
104986135 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
104986171 CCTTCGAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
67 1 0.01
68 55 0.60
69 28 0.31
70 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:104995870 original size:21 final size:22
Alignment explanation
Indices: 104995846--104995895 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
104995836 TTTGTTTTTG
104995846 AATTATTTTAATTTA-ATATTT
1 AATTATTTTAATTTATATATTT
*
104995867 AATTATTTTAATTTATTTATTT
1 AATTATTTTAATTTATATATTT
*
104995889 ATTTATT
1 AATTATT
104995896 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
AATTATTTTAATTTATATATTT
Found at i:104999237 original size:21 final size:22
Alignment explanation
Indices: 104999208--104999254 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
104999198 CAGAAGGAGT
*
104999208 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
104999230 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
104999251 GAGT
1 GAGT
104999255 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:105003938 original size:86 final size:88
Alignment explanation
Indices: 105003812--105003977 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 88
105003802 AACATCTATT
* * *
105003812 GAAAATACCTCGGCGTATGGCCTGAGGCTCCATTCACCTCTAGCAATATGAATTGATTTTTG-AA
1 GAAAATACCTCAGCG-ATGGCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAA
105003876 AACA-TAAATTGAAAAACAGAAATG
65 AACAGT-AATTGAAAAACAGAAATG
* * * * * *
105003900 GAAAATACCTCAGC-ATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGTTTTTGCCAA
1 GAAAATACCTCAGCGATGGCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAA
105003964 ACAGTAATTGAAAA
66 ACAGTAATTGAAAA
105003978 TACCTCAGCG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
86 39 0.58
87 14 0.21
88 14 0.21
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (88 bp):
GAAAATACCTCAGCGATGGCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTTTGCAAA
ACAGTAATTGAAAAACAGAAATG
Found at i:105004208 original size:74 final size:71
Alignment explanation
Indices: 105004080--105004926 Score: 1130
Period size: 74 Copynumber: 11.8 Consensus size: 71
105004070 ACATGAGCCA
* ** * *
105004080 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAAATACCTCAG
* *
105004145 CGTGCCCCG
63 CGTGTCCTG
*
105004154 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG--AAAACAGAAATTGAAAATACCTCAG
105004219 CGTGTCCTG
63 CGTGTCCTG
105004228 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-AAAAC----A--G---A-AATTGAAA
*
105004293 ATACCTCAACGTGT-CTG
54 ATACCTCAGCGTGTCCTG
*
105004310 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCA-AGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
105004374 GT-CTG
66 GTCCTG
*
105004379 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAA-AGAAATTGAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
105004442 GT-CTG
66 GTCCTG
*
105004447 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCA-TGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
*
105004511 GTCTTG
66 GTCCTG
*
105004517 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAAATACCTCAGCG
105004581 TGT-CTG
65 TGTCCTG
105004587 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACA-AAATTG-AAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
105004650 GTCCTG
66 GTCCTG
*
105004656 AGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTTTG-AAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAAATACCTCAG
105004718 CGTGTCCTG
63 CGTGTCCTG
* * *
105004727 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACCAAAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-CAGAAATTGAAAATACCTCAGCG
105004792 TGTCCTG
65 TGTCCTG
** * *
105004799 AGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTTTGACAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAAATACCTCAG
105004864 CGTGTCCTG
63 CGTGTCCTG
* *
105004873 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAGAAATTGAAAA
105004927 GGCTTAACTC
Statistics
Matches: 708, Mismatches: 32, Indels: 69
0.88 0.04 0.09
Matches are distributed among these distances:
67 37 0.05
68 62 0.09
69 82 0.12
70 146 0.21
71 52 0.07
72 74 0.10
73 23 0.03
74 155 0.22
75 8 0.01
76 1 0.00
77 1 0.00
79 1 0.00
80 5 0.01
81 5 0.01
82 36 0.05
83 20 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
GTCCTG
Found at i:105004340 original size:82 final size:75
Alignment explanation
Indices: 105003890--105004916 Score: 860
Period size: 74 Copynumber: 14.0 Consensus size: 75
105003880 TAAATTGAAA
* * * * *
105003890 AACAGAAATGGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGT
1 AACAG-AATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT-GA
*
105003955 TTTTG----CCA-
63 TTTTGAAAAACAG
* * * *
105003963 AACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT
1 AACAG-AATTGAAAATACCTCAACGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
105004028 TTAGAAAACAGACATAAA
64 TTTG-AAA-A-AC---AG
* * * ** *
105004046 AACAGAAATTGAAAGTGA-CTCAACACATGAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTT
1 AACAG-AATTGAAAAT-ACCTC-A-ACGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
****
105004110 GATTTTTTTGAA-AG
61 GATTTTGAAAAACAG
* ** * *
105004124 --TAGAATTTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAA-TTGAAAATACCTCAACGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
105004187 TTTTG--AAA-A-
63 TTTTGAAAAACAG
* *
105004196 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAG-AATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
105004261 TTTTGAAAAACATAAATTG
63 TTTTGAAAAAC----A--G
105004280 AACAGAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AACAGAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
105004345 TG-AAAACAG
66 TGAAAAACAG
105004354 ---A-AATTGAAAATACCTCAA-GTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AACAGAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
105004414 TG--AAA-AG
66 TGAAAAACAG
105004421 ---A-AATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AACAGAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
105004482 TG-AAAACAG
66 TGAAAAACAG
*
105004491 ---A-AATTGAAAATACCTC-ATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAATTGAAAATACCTCAACGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
105004551 TTTG--AAACAG
64 TTTGAAAAACAG
* *
105004561 ---A-AATTGAAATTACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AACAGAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
105004622 TG-AAAAC--
66 TGAAAAACAG
*
105004629 -A-A-AATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCA--TCTCGCAATATGAGTTGATT
1 AACAGAATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
***
105004688 TTTTTGAAACAG
64 TTTGAAAAACAG
* * *
105004700 ---A-AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
1 AACAGAATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
105004761 TTG-AAAAC-C
65 TTGAAAAACAG
* * **
105004770 AA-A-AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGT
1 AACAGAATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
*
105004833 TTTTTG-ACAACAG
63 -TTTTGAAAAACAG
* * *
105004846 ---A-AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
1 AACAGAATTGAAAATACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
105004907 TTGAAAAACA
65 TTGAAAAACA
105004917 AAAATTAAAA
Statistics
Matches: 835, Mismatches: 64, Indels: 111
0.83 0.06 0.11
Matches are distributed among these distances:
67 38 0.05
68 66 0.08
69 83 0.10
70 134 0.16
71 51 0.06
72 70 0.08
73 74 0.09
74 152 0.18
75 18 0.02
76 16 0.02
78 1 0.00
79 1 0.00
80 5 0.01
81 6 0.01
82 37 0.04
83 38 0.05
84 7 0.01
85 38 0.05
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (75 bp):
AACAGAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TGAAAAACAG
Found at i:105004391 original size:69 final size:70
Alignment explanation
Indices: 105004280--105004926 Score: 949
Period size: 70 Copynumber: 9.2 Consensus size: 70
105004270 ACATAAATTG
*
105004280 AACAG-AATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
105004344 TTGAA
66 TTGAA
*
105004349 AACAGAAATTGAAAATACCTCA-AGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
105004413 TTG-A
66 TTGAA
*
105004417 AA-AGAAATTGAAAATACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
105004481 TTGAA
66 TTGAA
*
105004486 AACAGAAATTGAAAATACCTCA-TGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
105004550 TTTTG-A
64 TTTTGAA
*
105004556 AACAGAAATTGAAATTACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
105004621 TTGAA
66 TTGAA
105004626 AACA-AAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCA--TCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
105004687 TTTTTTG-A
64 --TTTTGAA
* *
105004695 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
105004760 TTTGAA
65 TTTGAA
* * **
105004766 AACCAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
105004831 GTTTTTTGAC
64 ---TTTTGAA
* *
105004841 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
105004906 TTTGAAA
65 TTTG-AA
*
105004913 AACAAAAATT-AAAA
1 AACAGAAATTGAAAA
105004927 GGCTTAACTC
Statistics
Matches: 536, Mismatches: 20, Indels: 42
0.90 0.03 0.07
Matches are distributed among these distances:
67 37 0.07
68 62 0.12
69 88 0.16
70 146 0.27
71 52 0.10
72 68 0.13
73 17 0.03
74 58 0.11
75 8 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (70 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTGAA
Found at i:105005045 original size:69 final size:71
Alignment explanation
Indices: 105004926--105005099 Score: 205
Period size: 69 Copynumber: 2.5 Consensus size: 71
105004916 AAAAATTAAA
* * * **
105004926 AGGCTTAACTCACTTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
105004989 GCCCCG
66 GCCCCG
** *
105004995 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAA-A-AAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
* **
105005058 GTCTTG
66 GCCCCG
105005064 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
105005100 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
68 1 0.01
69 82 0.90
70 3 0.03
71 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:105005092 original size:191 final size:198
Alignment explanation
Indices: 105004727--105005099 Score: 508
Period size: 191 Copynumber: 1.9 Consensus size: 198
105004717 GCGTGTCCTG
* * * * *
105004727 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACCAAAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCACCTCTAGCAATATGAGTTCAATTTGAAAACCAAAAACTAAAAATACCTCAGCG
* * * * *
105004792 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAGTTTTTTGACAACAGAAATTGAAATT
66 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAGTTTTTT-ACAACAGAAATTAAAAAT
*
105004857 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAAT
130 ACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAAT
105004922 TAAA
195 TAAA
* * * * *
105004926 AGGCTTAACTCACTTCTCGCAATATGAG-TCAATTT-AAAA-CATAAACTAAAAATACCTCGGCG
1 AGGCTCAACTCACCTCTAGCAATATGAGTTCAATTTGAAAACCAAAAACTAAAAATACCTCAGCG
*
105004988 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTT-TAA-A-AAATTAAAAATA
66 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAGTTTTTTACAACAGAAATTAAAAATA
* * *
105005049 CCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
131 CCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
105005100 CCTTGGAAAG
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
191 57 0.37
192 1 0.01
193 2 0.01
195 6 0.04
196 54 0.35
197 4 0.03
198 5 0.03
199 25 0.16
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (198 bp):
AGGCTCAACTCACCTCTAGCAATATGAGTTCAATTTGAAAACCAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAGTTTTTTACAACAGAAATTAAAAATA
CCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT
AAA
Found at i:105017441 original size:36 final size:36
Alignment explanation
Indices: 105017364--105017454 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
105017354 GAATAATGAT
*
105017364 AATAATACTATAAT-AATTAAAATACGAAGAAGTATA
1 AATAATA-TATAATAAATTAAAATACGAAGAAGTAAA
* * *
105017400 TATAATATAATAATAAATTAAAATAC-AATAATTAAA
1 AATAATAT-ATAATAAATTAAAATACGAAGAAGTAAA
105017436 AATAATATTATATATAAAT
1 AATAATA-TATA-ATAAAT
105017455 ATATACAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
35 1 0.02
36 27 0.59
37 18 0.39
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (36 bp):
AATAATATATAATAAATTAAAATACGAAGAAGTAAA
Found at i:105020281 original size:31 final size:32
Alignment explanation
Indices: 105020239--105020308 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
105020229 TCAATATATT
*
105020239 ATATTAT-GTAATTTATAATCCATAAAAT-TAA
1 ATATTATAGTAATATATAAT-CATAAAATGTAA
*
105020270 AT-TTATAGTAATATATAATTATAAAATGTAA
1 ATATTATAGTAATATATAATCATAAAATGTAA
105020301 ATATTATA
1 ATATTATA
105020309 AAAAAATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 11 0.32
31 18 0.53
32 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (32 bp):
ATATTATAGTAATATATAATCATAAAATGTAA
Found at i:105020362 original size:18 final size:17
Alignment explanation
Indices: 105020327--105020384 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
105020317 AGTTGCCTAT
*
105020327 ATAAAAAATTTTAATAA
1 ATAAAAAATTATAATAA
*
105020344 ATAAAAAATATATATTAA
1 ATAAAAAAT-TATAATAA
** *
105020362 ATATTAAATTAAAATAA
1 ATAAAAAATTATAATAA
105020379 TATAAA
1 -ATAAA
105020385 TATTTTTTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAAAAATTATAATAA
Found at i:105020375 original size:25 final size:22
Alignment explanation
Indices: 105020341--105020388 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
105020331 AAAATTTTAA
105020341 TAAATAAAAAATATATATTAAATAT
1 TAAAT-AAAAATA-ATA-TAAATAT
*
105020366 TAAATTAAAATAATATAAATAT
1 TAAATAAAAATAATATAAATAT
105020388 T
1 T
105020389 TTTTAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 6 0.27
25 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATAAAAATAATATAAATAT
Found at i:105028321 original size:26 final size:26
Alignment explanation
Indices: 105028292--105028393 Score: 159
Period size: 26 Copynumber: 3.9 Consensus size: 26
105028282 TGGTACAAAT
105028292 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* ***
105028318 TGATAATGGATTAGGTAAGCATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105028344 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105028370 TGATAATGGTTTAGGTAAATGTTC
1 TGATAATGGGTTAGGTAAATGTTC
105028394 TAAGATGGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105033241 original size:18 final size:20
Alignment explanation
Indices: 105033206--105033246 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
105033196 TTAAAAGATA
105033206 AAAAAAAAATTAATAACTAT
1 AAAAAAAAATTAATAACTAT
*
105033226 AAAATAAAATT-A-AACTAT
1 AAAAAAAAATTAATAACTAT
105033244 AAA
1 AAA
105033247 CTTTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAAAATTAATAACTAT
Found at i:105033275 original size:56 final size:56
Alignment explanation
Indices: 105033203--105033323 Score: 190
Period size: 56 Copynumber: 2.2 Consensus size: 56
105033193 ATCTTAAAAG
* *
105033203 ATAAAAAAAAAATTAATAACTATAAAATAAAATTA-AACTATAAACTTTAAAACACA
1 ATAAAAACAAAATTAATAACTACAAAATAAAATTACAA-TATAAACTTTAAAACACA
* *
105033259 ATAAAAACAAAGTTAATAACTACAAAATAAAATTACAATCTAAACTTTAAAACACA
1 ATAAAAACAAAATTAATAACTACAAAATAAAATTACAATATAAACTTTAAAACACA
105033315 ATAAAAACA
1 ATAAAAACA
105033324 GTTGTAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 58 0.97
57 2 0.03
ACGTcount: A:0.64, C:0.12, G:0.01, T:0.23
Consensus pattern (56 bp):
ATAAAAACAAAATTAATAACTACAAAATAAAATTACAATATAAACTTTAAAACACA
Found at i:105035092 original size:21 final size:21
Alignment explanation
Indices: 105035068--105035117 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
105035058 GGGTCACATG
105035068 CCCGTGTGATCAAGGAACACA
1 CCCGTGTGATCAAGGAACACA
*
105035089 CCCGTGTGATCAAGGAACACG
1 CCCGTGTGATCAAGGAACACA
105035110 CCCGTGTG
1 CCCGTGTG
105035118 GTCCTGAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (21 bp):
CCCGTGTGATCAAGGAACACA
Found at i:105036962 original size:24 final size:25
Alignment explanation
Indices: 105036935--105036990 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
105036925 CCATGTCTGA
105036935 TTCATTATTATATGAAGTAA-TTTC
1 TTCATTATTATATGAAGTAATTTTC
105036959 TTCATTATTATATGAAGTAATTTTC
1 TTCATTATTATATGAAGTAATTTTC
105036984 TTCATTA
1 TTCATTA
105036991 AAGGGAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 20 0.65
25 11 0.35
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (25 bp):
TTCATTATTATATGAAGTAATTTTC
Found at i:105044320 original size:31 final size:32
Alignment explanation
Indices: 105044284--105044346 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
105044274 CCCTTTTTTT
* *
105044284 TAGTTAAATTTGGCCCTCAACCTTTT-AAAAA
1 TAGTTAAATTTGACCATCAACCTTTTGAAAAA
105044315 TAGTTAAATTTGACCATCAACCTTTTGAAAAA
1 TAGTTAAATTTGACCATCAACCTTTTGAAAAA
105044347 GAGTCGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (32 bp):
TAGTTAAATTTGACCATCAACCTTTTGAAAAA
Found at i:105044464 original size:16 final size:16
Alignment explanation
Indices: 105044445--105044475 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
105044435 TTTTTGAAAA
105044445 TTTTATTTTTAAATAG
1 TTTTATTTTTAAATAG
105044461 TTTTATTTTTAAATA
1 TTTTATTTTTAAATA
105044476 CTATTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTATTTTTAAATAG
Found at i:105044482 original size:16 final size:16
Alignment explanation
Indices: 105044447--105044482 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
105044437 TTTGAAAATT
* *
105044447 TTATTTTTAAATAGTT
1 TTATTTTTAAATACTA
105044463 TTATTTTTAAATACTA
1 TTATTTTTAAATACTA
105044479 TTAT
1 TTAT
105044483 ATAAGCATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATTTTTAAATACTA
Found at i:105045455 original size:27 final size:25
Alignment explanation
Indices: 105045425--105045476 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
105045415 AAAAAATAAG
105045425 AAGACATATCT-AGAAGAGTAGAATGAC
1 AAGACATA-CTGAGAAGAG--GAATGAC
105045452 AAGACATACTGAGAAGAGGAATGAC
1 AAGACATACTGAGAAGAGGAATGAC
105045477 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.29
26 2 0.08
27 15 0.62
ACGTcount: A:0.48, C:0.12, G:0.25, T:0.15
Consensus pattern (25 bp):
AAGACATACTGAGAAGAGGAATGAC
Found at i:105048155 original size:31 final size:32
Alignment explanation
Indices: 105048102--105048161 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
105048092 TTTTTTTGAG
* * *
105048102 TTAAATTTGGCCCTCAACCTTTT-AAAAATAA
1 TTAAATTTGACCATCAAACTTTTGAAAAATAA
*
105048133 TTAAATTTGACCATTAAACTTTTGAAAAA
1 TTAAATTTGACCATCAAACTTTTGAAAAA
105048162 GAGTTGGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (32 bp):
TTAAATTTGACCATCAAACTTTTGAAAAATAA
Found at i:105048280 original size:16 final size:16
Alignment explanation
Indices: 105048261--105048298 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
105048251 TTTTTGAAAT
105048261 TTTTATTCTTAAATAC
1 TTTTATTCTTAAATAC
*
105048277 TTTTATTTTTAAATAC
1 TTTTATTCTTAAATAC
*
105048293 TATTAT
1 TTTTAT
105048299 ATAAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTCTTAAATAC
Found at i:105048416 original size:28 final size:28
Alignment explanation
Indices: 105048385--105048446 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
105048375 ATTAAAAAAT
* *
105048385 AATTTAATTTTTAAAAAAT-TAATAGTCA
1 AATTTAA-GTTTAAAAAATATAAGAGTCA
*
105048413 AATTT-AGTTTAAAAAATATAAGGGTCA
1 AATTTAAGTTTAAAAAATATAAGAGTCA
105048440 AATTTAA
1 AATTTAA
105048447 CCATTCAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 13 0.45
28 6 0.21
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (28 bp):
AATTTAAGTTTAAAAAATATAAGAGTCA
Found at i:105048428 original size:26 final size:27
Alignment explanation
Indices: 105048394--105048445 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
105048384 TAATTTAATT
*
105048394 TTTAAAAAAT-TAATAGTCAAATTTAG
1 TTTAAAAAATATAAGAGTCAAATTTAG
*
105048420 TTTAAAAAATATAAGGGTCAAATTTA
1 TTTAAAAAATATAAGAGTCAAATTTA
105048446 ACCATTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATATAAGAGTCAAATTTAG
Found at i:105049374 original size:27 final size:25
Alignment explanation
Indices: 105049335--105049384 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
105049325 AAAAAACGAC
105049335 GACATATCTAGAAGAGTAGAATGACAA
1 GACATATCTAGAAGAG--GAATGACAA
105049362 GACATA-CTGAGAAGAGGAATGAC
1 GACATATCT-AGAAGAGGAATGAC
105049385 TTGAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.46, C:0.12, G:0.26, T:0.16
Consensus pattern (25 bp):
GACATATCTAGAAGAGGAATGACAA
Found at i:105049427 original size:19 final size:19
Alignment explanation
Indices: 105049403--105049439 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
105049393 AAATAGCCGA
105049403 AGATTAGTCTTTT-ATTTTT
1 AGATTAGT-TTTTCATTTTT
105049422 AGATTAGTTTTTCATTTT
1 AGATTAGTTTTTCATTTT
105049440 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (19 bp):
AGATTAGTTTTTCATTTTT
Found at i:105052874 original size:10 final size:11
Alignment explanation
Indices: 105052859--105052887 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
105052849 GTGCTCTGTG
105052859 AAAATAAAAT-
1 AAAATAAAATA
105052869 AAAATAAAATA
1 AAAATAAAATA
105052880 AAAATAAA
1 AAAATAAA
105052888 CACATAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:105054720 original size:23 final size:23
Alignment explanation
Indices: 105054694--105054738 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
105054684 TGGGTATGTG
*
105054694 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
105054717 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
105054739 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:105056433 original size:125 final size:125
Alignment explanation
Indices: 105056249--105056564 Score: 404
Period size: 125 Copynumber: 2.5 Consensus size: 125
105056239 GCCAAACGGT
* ** * * *
105056249 AAATCAAAACCCAGCACGATTGGGCATAATTTATCGAATTTCCAAATATGAAATATTGCCTAATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATACGAAATATTGCCTAATT
* *
105056314 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTG-TATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATAGATGAAATTTCAAAAGGATATTCAGTTA-TTTAGTCGAATGAA
* * * * *
105056374 AAA-CTGAAACCTAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCAT
1 AAATC-GAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATACGAAATATTGCCTAAT
* *
105056438 TTTAATTTAAGAAAACATAGATGAAATTTCAAAAGGATATTCAGTTATTTGGTTGAATGAA
65 TTTAATTTAAGAAAACATAGATGAAATTTCAAAAGGATATTCAGTTATTTAGTCGAATGAA
* * * * * *
105056499 AAATCGAAACCCAGCACGGTAGGGTACGATTTCTCGAAC-TCCAAATACTAAATATTTCCTTATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATACGAAATATTGCCTAATT
105056563 TT
66 TT
105056565 GAGAGGTTTT
Statistics
Matches: 163, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
124 24 0.15
125 136 0.83
126 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATACGAAATATTGCCTAATT
TTAATTTAAGAAAACATAGATGAAATTTCAAAAGGATATTCAGTTATTTAGTCGAATGAA
Found at i:105056963 original size:15 final size:14
Alignment explanation
Indices: 105056905--105056976 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 14
105056895 ATATTAGTAT
*
105056905 ATAAATAGAAAT--
1 ATAAATAAAAATAG
105056917 ATAAATATAATAATAG
1 ATAAATA-AA-AATAG
* *
105056933 CAGAAATATAAATAG
1 -ATAAATAAAAATAG
105056948 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
105056963 ATAAATAATAATAG
1 ATAAATAAAAATAG
105056977 TATTAGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
12 7 0.15
13 1 0.02
14 15 0.31
15 18 0.38
16 1 0.02
17 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:105058407 original size:42 final size:42
Alignment explanation
Indices: 105058360--105058492 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
105058350 ATCTGCTCCA
**
105058360 CTACTGTTTAGGGATAAGATCTGTATTTTCTAGCCTATTACC
1 CTACTGTTTAGGGATAAGATCTGTATCATCTAGCCTATTACC
* * * ** * * **
105058402 CTACTGCTTAGGAGGTTAAGGCTCACTATCATCGA-TCTGCT-CC
1 CTACTGTTTA-G-GGATAA-GATCTGTATCATCTAGCCTATTACC
*
105058445 ACTACTGTTTAGGGATAAGATCTGTATCCTCTAGCCTATTACC
1 -CTACTGTTTAGGGATAAGATCTGTATCATCTAGCCTATTACC
105058488 CTACT
1 CTACT
105058493 ACTTAGGGGG
Statistics
Matches: 64, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
41 10 0.16
42 22 0.34
43 6 0.09
44 17 0.27
45 9 0.14
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (42 bp):
CTACTGTTTAGGGATAAGATCTGTATCATCTAGCCTATTACC
Found at i:105058419 original size:86 final size:86
Alignment explanation
Indices: 105058198--105059030 Score: 1089
Period size: 86 Copynumber: 9.6 Consensus size: 86
105058188 GATACATAGA
* * * * *
105058198 GATAAGATCTGTAATTTTC-AGCTTGTTACCCTATTGCTTAGGGGGTTAAGGCTTACCGTCTTCG
1 GATAAGATCTGT-ATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCG
* * *
105058262 ATCTGCTCCGCTATTGATTAGG
65 ATCTGCTCCACTACTGTTTAGG
* * * *
105058284 AAGATAAGATCTATAATTTTC-AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCCT
1 --GATAAGATCTGT-ATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTT
105058348 CGATCTGCTCCACTACTGTTTAGG
63 CGATCTGCTCCACTACTGTTTAGG
* * * * *
105058372 GATAAGATCTGTATTTTCTAGCCTATTACCCTACTGCTTAGGAGGTTAAGGCTCACTATCATCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
105058437 TCTGCTCCACTACTGTTTAGG
66 TCTGCTCCACTACTGTTTAGG
* * * **
105058458 GATAAGATCTGTATCCTCTAGCCTATTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
* * *
105058523 TCTGCTCAACTACTATTTATG
66 TCTGCTCCACTACTGTTTAGG
* * *
105058544 GATAAGATCTGTGTTCTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCAA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
*
105058609 TCTGCTCTACTACTGTTTAAGG
66 TCTGCTCCACTACTGTTT-AGG
* *
105058631 G-TAAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCACTGTCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
*
105058695 TCTGCTTCACTACTGTTTAGG
66 TCTGCTCCACTACTGTTTAGG
* * * * *
105058716 GGTAAGATCTGTATTCTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCATTGCCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
* *
105058781 TCTACTCCACTACTATTTAAGG
66 TCTGCTCCACTACTGTTT-AGG
* * * *
105058803 ATATAAGATCTGTAATTTTC-AGCCTGTTAGCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTC
1 -GATAAGATCTGT-ATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTC
*
105058867 GATCTGCTCCACTACTGTTTAAG
64 GATCTGCTCCACTACTGTTTAGG
* * * *
105058890 GATAAGATCTGTGTTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGCCTAACCGTCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
* *
105058955 TTTGCTCTACTACTGTTTAGG
66 TCTGCTCCACTACTGTTTAGG
* * *
105058976 GATACGATCTGTATTTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
105059031 TGAATTCACC
Statistics
Matches: 662, Mismatches: 76, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
85 14 0.02
86 492 0.74
87 8 0.01
88 143 0.22
89 5 0.01
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (86 bp):
GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
TCTGCTCCACTACTGTTTAGG
Found at i:105058665 original size:42 final size:42
Alignment explanation
Indices: 105058532--105058759 Score: 121
Period size: 42 Copynumber: 5.3 Consensus size: 42
105058522 ATCTGCTCAA
* * * *
105058532 CTACTATTTATGGATAAGATCTGTGTTCTCCAGCCTGTTACC
1 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
* * * * **
105058574 CTACTGCTTAGGGGGTTAAG-GCT-CACTGTCTTCAATCTGCTCTA--
1 CTACTGTTTA-GGGG-TAAGATCTGTA-T-TCTCCAGCCTG-T-TACC
*
105058618 CTACTGTTTAAGGGTAAGATCTGTATTCTCCAGCCTGTTACC
1 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
* * * * * *
105058660 CTACTGCTTAGGGGTTTAAG-GCT-CACTGTCTTC-GATCTGCTT-CA
1 CTACTGTTTAGGGG--TAAGATCTGTA-T-TCTCCAG-CCTG-TTACC
*
105058704 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTATTACC
1 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
*
105058746 CTACTGCTTAGGGG
1 CTACTGTTTAGGGG
105058760 GTTAAGGCTC
Statistics
Matches: 134, Mismatches: 32, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
40 2 0.01
41 3 0.02
42 57 0.43
43 19 0.14
44 48 0.36
45 3 0.02
46 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (42 bp):
CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
Found at i:105059202 original size:64 final size:64
Alignment explanation
Indices: 105059101--105059225 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
105059091 TGTATCTATG
* *
105059101 CTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATC
1 CTTATGCCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTGATC
*
105059165 CTTATGTCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
1 CTTATGCCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
105059226 TTATTATATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTGATC
Found at i:105065192 original size:125 final size:125
Alignment explanation
Indices: 105065058--105065320 Score: 341
Period size: 125 Copynumber: 2.1 Consensus size: 125
105065048 GCCAAACGGT
* * * * * ****
105065058 AAATCGAAACCTAGCACGATTGGGCACAATTTATCGAATTTCTAAATGTGAAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACAATCTATCAAACTTCCAAACACAAAATATTGCCTCATT
*
105065123 TTAATTTAAGAAAACATGGATGGAATTTCAAAAGGATATTCTATATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTAGTCGAATGAA
* * * *
105065183 AAATTGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACAATCTATCAAACTTCCAAACACAAAATATTGCCTCATT
* * *
105065248 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATT-TAGT-TATTTGGTTGAACGAA
66 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTA-TAT-TTTAGTCGAATGAA
105065308 AAATCGAAACCCA
1 AAATCGAAACCCA
105065321 ATACAGTAGG
Statistics
Matches: 118, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
124 3 0.03
125 115 0.97
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACAATCTATCAAACTTCCAAACACAAAATATTGCCTCATT
TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTAGTCGAATGAA
Found at i:105065333 original size:125 final size:124
Alignment explanation
Indices: 105065108--105065373 Score: 349
Period size: 125 Copynumber: 2.1 Consensus size: 124
105065098 TCTAAATGTG
*
105065108 AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGGAATTTCAAAAGGATATTCTATATTTTA
1 AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTA
* * * *
105065173 GTCGAATGAAAAATTGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACA
66 GTCGAACGAAAAATCGAAACCCAACACGATAGGGCACGATCTCTCAAAC-TCCAAACACA
*
105065233 AAATATTGCCTCGTTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATT-TAGT-TATT
1 AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTA-TAT-TT
* * * * * *
105065296 TGGTTGAACGAAAAATCGAAACCCAATAC-AGTAGGGCACGATTTCTCGAACTCCAAACACT
64 TAGTCGAACGAAAAATCGAAACCCAACACGA-TAGGGCACGATCTCTCAAACTCCAAACACA
* *
105065357 AAATATTTCCTTATTTT
1 AAATATTGCCTCATTTT
105065374 GAGAGGTATT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
124 27 0.22
125 96 0.78
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (124 bp):
AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTA
GTCGAACGAAAAATCGAAACCCAACACGATAGGGCACGATCTCTCAAACTCCAAACACA
Found at i:105065719 original size:29 final size:29
Alignment explanation
Indices: 105065676--105065778 Score: 88
Period size: 29 Copynumber: 3.6 Consensus size: 29
105065666 ATATATAAGA
* *
105065676 AAATAATAATGAAAATAATATTAGTATAT
1 AAATAAAAATAAAAATAATATTAGTATAT
* *
105065705 AAATAAAAATAAAAATAAAAATA-TA-AT
1 AAATAAAAATAAAAATAATATTAGTATAT
* *
105065732 AAATAAAAAT-ATAATAAT-TGTAGAAATAT
1 AAATAAAAATAAAAATAATAT-TAG-TATAT
105065761 AAATAGATAAATAAAAAT
1 AAATA-A-AAATAAAAAT
105065779 TAGATAAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
26 8 0.14
27 12 0.21
28 3 0.05
29 26 0.45
30 1 0.02
31 4 0.07
32 4 0.07
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (29 bp):
AAATAAAAATAAAAATAATATTAGTATAT
Found at i:105065737 original size:15 final size:15
Alignment explanation
Indices: 105065703--105065748 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
105065693 ATATTAGTAT
105065703 ATAAAT-AAAA-ATA
1 ATAAATAAAAATATA
105065716 A-AAATAAAAATATA
1 ATAAATAAAAATATA
105065730 ATAAATAAAAATATA
1 ATAAATAAAAATATA
105065745 ATAA
1 ATAA
105065749 TTGTAGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 4 0.13
15 17 0.57
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAATAAAAATATA
Found at i:105065745 original size:12 final size:12
Alignment explanation
Indices: 105065701--105065745 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
105065691 TAATATTAGT
105065701 ATATAAATAAAA
1 ATATAAATAAAA
*
105065713 ATAAAAATAAAAA
1 ATATAAAT-AAAA
105065726 TATAATAAATAAAA
1 -AT-ATAAATAAAA
105065740 ATATAA
1 ATATAA
105065746 TAATTGTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 11 0.39
13 6 0.21
14 6 0.21
15 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATATAAATAAAA
Found at i:105065784 original size:15 final size:14
Alignment explanation
Indices: 105065703--105065795 Score: 65
Period size: 15 Copynumber: 7.0 Consensus size: 14
105065693 ATATTAGTAT
105065703 ATAAATAAAAATA-
1 ATAAATAAAAATAG
*
105065716 A-AAATAAAAATATA
1 ATAAATAAAAATA-G
105065730 ATAAATAAAAAT--
1 ATAAATAAAAATAG
***
105065742 AT-AATAATTGTAG
1 ATAAATAAAAATAG
*
105065755 --AAATATAAATAG
1 ATAAATAAAAATAG
105065767 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
105065782 ATAAATAATAATAG
1 ATAAATAAAAATAG
105065796 TATTAGATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
11 6 0.10
12 20 0.32
13 1 0.02
14 12 0.19
15 23 0.37
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:105065815 original size:52 final size:52
Alignment explanation
Indices: 105065705--105065835 Score: 123
Period size: 52 Copynumber: 2.6 Consensus size: 52
105065695 ATTAGTATAT
* * *
105065705 AAATAAAAATA-A-AAATAAAAATATAATAAATAAAAATATAATAATTGTAG
1 AAATATAAATAGATAAATAAAAATATAATAAATAAAAATATAATAATTGAAC
* *
105065755 AAATATAAATAGATAAATAAAAAT-TAGATAAATAATAATAGTATTAGATT-AAC
1 AAATATAAATAGATAAATAAAAATATA-ATAAATAAAAATA-TAATA-ATTGAAC
* *
105065808 AAA-ATAAAT--ATAAATAGAAACATAATAA
1 AAATATAAATAGATAAATAAAAATATAATAA
105065836 TGATAGCAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
50 24 0.35
51 5 0.07
52 28 0.41
53 8 0.12
54 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (52 bp):
AAATATAAATAGATAAATAAAAATATAATAAATAAAAATATAATAATTGAAC
Found at i:105066365 original size:5 final size:5
Alignment explanation
Indices: 105066357--105066383 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
105066347 CTAATTTAAT
105066357 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
105066384 ATAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:105070031 original size:10 final size:11
Alignment explanation
Indices: 105070014--105070044 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
105070004 TACCAATTTG
105070014 TAAAAATAAAA
1 TAAAAATAAAA
105070025 T-AAAATAAAA
1 TAAAAATAAAA
105070035 TAAAAATAAA
1 TAAAAATAAA
105070045 CACACAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:105077728 original size:17 final size:17
Alignment explanation
Indices: 105077686--105077728 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
105077676 GTAAATGTGG
*
105077686 TTTATAAAATTTTTAAAA
1 TTTA-AAAATTTCTAAAA
* *
105077704 TTTTAAAATTTCTAATA
1 TTTAAAAATTTCTAAAA
105077721 TTTAAAAA
1 TTTAAAAA
105077729 AAATTAGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAAAATTTCTAAAA
Found at i:105081861 original size:19 final size:19
Alignment explanation
Indices: 105081837--105081893 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
105081827 ATTTAGTCTT
105081837 AATTTTTAAAAAATTATAA
1 AATTTTTAAAAAATTATAA
105081856 AATTTTT-AAAAATT-TAA
1 AATTTTTAAAAAATTATAA
**
105081873 AA-AGTTAAAAAATATATAA
1 AATTTTTAAAAAAT-TATAA
105081892 AA
1 AA
105081894 ACTTTAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 2 0.06
17 11 0.33
18 8 0.24
19 12 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AATTTTTAAAAAATTATAA
Found at i:105081884 original size:27 final size:28
Alignment explanation
Indices: 105081841--105081899 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
105081831 AGTCTTAATT
* * *
105081841 TTTAAAAAATTATAAAATTTTTAAAAA-
1 TTTAAAAAATTAAAAAATATATAAAAAC
*
105081868 TTTAAAAAGTTAAAAAATATATAAAAAC
1 TTTAAAAAATTAAAAAATATATAAAAAC
105081896 TTTA
1 TTTA
105081900 GCTTAAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
TTTAAAAAATTAAAAAATATATAAAAAC
Found at i:105083020 original size:18 final size:18
Alignment explanation
Indices: 105082993--105083085 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
105082983 TACGACCGTT
*
105082993 TACGGTACTATTCATGTA
1 TACGGTACTATTCACGTA
*
105083011 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
105083029 TATAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
105083047 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
105083065 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
105083083 TAC
1 TAC
105083086 AGTAGTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:105087836 original size:24 final size:24
Alignment explanation
Indices: 105087796--105087842 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
105087786 TAATGAAAAT
* *
105087796 TATTTTTATATTAATATTTATATG
1 TATTTTCATATTAATATATATATG
105087820 TATTTTCATA-TATATATATATAT
1 TATTTTCATATTA-ATATATATAT
105087843 TATCTCAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TATTTTCATATTAATATATATATG
Found at i:105091518 original size:21 final size:23
Alignment explanation
Indices: 105091488--105091532 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
105091478 ATCCTTTCAA
105091488 ATTAAAATAT-TTAAT-TATTTT
1 ATTAAAATATGTTAATATATTTT
* *
105091509 ATTAAGATATGTTTATATATTTT
1 ATTAAAATATGTTAATATATTTT
105091532 A
1 A
105091533 AGGAAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTAAAATATGTTAATATATTTT
Found at i:105091569 original size:23 final size:22
Alignment explanation
Indices: 105091488--105091576 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
105091478 ATCCTTTCAA
*
105091488 ATTAAAATAT-TTAATTATTTT
1 ATTAAAATATATTTATTATTTT
* *
105091509 ATTAAGATATGTTTATATATTTT
1 ATTAAAATATATTTAT-TATTTT
** * *
105091532 AAGGAAAAGAGATTTGATTATTTT
1 -ATTAAAATATATTT-ATTATTTT
105091556 ATTAAAATATATTTA-TATTTT
1 ATTAAAATATATTTATTATTTT
105091577 CAGAAGGTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
21 15 0.29
22 5 0.10
23 16 0.31
24 14 0.27
25 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (22 bp):
ATTAAAATATATTTATTATTTT
Found at i:105098252 original size:51 final size:51
Alignment explanation
Indices: 105098176--105098277 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
105098166 ACCTCTAAAA
*
105098176 AGGTTGTATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
1 AGGTTGCATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
*
105098227 AGGTTGCATGATTACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
1 AGGTTGCATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
105098278 GTAAGGCCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
AGGTTGCATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
Found at i:105099341 original size:60 final size:60
Alignment explanation
Indices: 105099269--105099405 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 60
105099259 CCCTTCATGA
* *
105099269 GTTTTCACCTTGGCATC-TA-CTTTT--TTTTTCTTATATTGAGTCTCAAAGGGCCCTTTGCGG
1 GTTTTCACCTTGGC-TCTTATCTTTTCATTTTT-TTAT-TAG-GTCTCAAAGCGCCCTTTGCGG
* *
105099329 GTTTTCATCTTGGCTCTTTATCTTTTCCATTTTTTTGTTAGGTCTCAAAGCGCCCTTTGCGG
1 GTTTTCACCTTGGCTC-TTATCTTTT-CATTTTTTTATTAGGTCTCAAAGCGCCCTTTGCGG
*
105099391 GTTTTCACTTTGGCT
1 GTTTTCACCTTGGCT
105099406 TCTTCCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
59 2 0.03
60 13 0.20
61 2 0.03
62 38 0.58
63 2 0.03
64 3 0.05
65 5 0.08
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.47
Consensus pattern (60 bp):
GTTTTCACCTTGGCTCTTATCTTTTCATTTTTTTATTAGGTCTCAAAGCGCCCTTTGCGG
Found at i:105100547 original size:22 final size:23
Alignment explanation
Indices: 105100510--105100564 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
105100500 TATTTAAATA
105100510 TTTTAATTGATATTTT-A-TATATT
1 TTTTAATT-ATATTTTAATTA-ATT
*
105100533 TTTTAATTATGTTTTAATTAATT
1 TTTTAATTATATTTTAATTAATT
105100556 TTTT-ATTAT
1 TTTTAATTAT
105100565 TTAAATTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 11 0.38
23 16 0.55
24 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTAATTATATTTTAATTAATT
Found at i:105100559 original size:12 final size:11
Alignment explanation
Indices: 105100510--105100566 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
105100500 TATTTAAATA
*
105100510 TTTTAATTGATA
1 TTTTAATT-ATT
105100522 TTTT-ATATATT
1 TTTTAAT-TATT
*
105100533 TTTTAATTATG
1 TTTTAATTATT
105100544 TTTTAATTAATT
1 TTTTAATT-ATT
105100556 TTTT-ATTATT
1 TTTTAATTATT
105100566 T
1 T
105100567 AAATTGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 4 0.10
11 22 0.56
12 13 0.33
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (11 bp):
TTTTAATTATT
Found at i:105100847 original size:22 final size:22
Alignment explanation
Indices: 105100822--105100864 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
105100812 AAATTTTGAT
*
105100822 TAAATGTGTAATTATTATGGTA
1 TAAATGTGTAAGTATTATGGTA
105100844 TAAATGTGTAAGTATTATGGT
1 TAAATGTGTAAGTATTATGGT
105100865 TGTAATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (22 bp):
TAAATGTGTAAGTATTATGGTA
Found at i:105103490 original size:40 final size:40
Alignment explanation
Indices: 105103435--105103525 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
105103425 TTGGCTCGGA
* *
105103435 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
105103475 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
105103515 TATAATAACCC
1 TATAATAACCC
105103526 ATTAGCATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:105107082 original size:32 final size:32
Alignment explanation
Indices: 105107045--105107109 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
105107035 AATGCTTACC
105107045 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
105107077 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
105107109 A
1 A
105107110 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:105108573 original size:34 final size:34
Alignment explanation
Indices: 105108535--105108725 Score: 161
Period size: 34 Copynumber: 5.6 Consensus size: 34
105108525 TGCAATATGG
*
105108535 TATGCCTATAACAGATCAATACAGTAGCAATTAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
* * * * *
105108569 TATGCTTATAATAGTTCGATATAGTAGCAAATAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
* * *
105108603 TATGCTTCTAGCAGATCAATAC-G-ATGACATTTAA
1 TATGCTTATAACAGATCAATACAGTA-G-CAATTAA
* * * *
105108637 TATGCTTATAATAGATTAATACAATAGCAAATAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
** ** * *
105108671 TATATTTATAATGGATCAATGCGGTAGCAATTAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
* *
105108705 TATGTTTATAACAAATCAATA
1 TATGCTTATAACAGATCAATA
105108726 TACAATAACA
Statistics
Matches: 119, Mismatches: 34, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
32 1 0.01
33 2 0.02
34 114 0.96
35 1 0.01
36 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (34 bp):
TATGCTTATAACAGATCAATACAGTAGCAATTAA
Found at i:105108620 original size:68 final size:67
Alignment explanation
Indices: 105108541--105108715 Score: 183
Period size: 68 Copynumber: 2.6 Consensus size: 67
105108531 ATGGTATGCC
* * *
105108541 TATAACAGATCAATACAGTAGCAATTAATATGCTTATAATAG-TTCGATATAGTAGCAAATAATA
1 TATAACAGATCAATAC-GTAGCAATTAATATGCTTATAATAGATT-AATACAATAGCAAATAATA
*
105108605 TGCT
64 TACT
* * *
105108609 TCTAGCAGATCAATACG-ATGACATTTAATATGCTTATAATAGATTAATACAATAGCAAATAATA
1 TATAACAGATCAATACGTA-G-CAATTAATATGCTTATAATAGATTAATACAATAGCAAATAATA
*
105108673 TATT
64 TACT
** * *
105108677 TATAATGGATCAATGCGGTAGCAATTAATATGTTTATAA
1 TATAACAGATCAATAC-GTAGCAATTAATATGCTTATAA
105108716 CAAATCAATA
Statistics
Matches: 87, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
66 1 0.01
67 2 0.02
68 79 0.91
69 4 0.05
70 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (67 bp):
TATAACAGATCAATACGTAGCAATTAATATGCTTATAATAGATTAATACAATAGCAAATAATATA
CT
Found at i:105114235 original size:3 final size:3
Alignment explanation
Indices: 105114227--105114258 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
105114217 GCCCTTTTCT
105114227 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
105114259 TATAAATAGA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:105116882 original size:18 final size:18
Alignment explanation
Indices: 105116861--105116898 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
105116851 CCAAAAGGAT
105116861 CTGTGAGTGTCGAAGCAC
1 CTGTGAGTGTCGAAGCAC
*
105116879 CTGTGAGTGTTGAAGCAC
1 CTGTGAGTGTCGAAGCAC
105116897 CT
1 CT
105116899 ACAGTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (18 bp):
CTGTGAGTGTCGAAGCAC
Found at i:105117086 original size:201 final size:200
Alignment explanation
Indices: 105116740--105117257 Score: 757
Period size: 201 Copynumber: 2.6 Consensus size: 200
105116730 GAGTGTTGAG
* *
105116740 GCACCTACGGTTAATGAAGTTGATGATGGTGGCTCAAGCGTTACCAGTGGTAAGTTGAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTA-CAGTGGTAAGTTGAGGAGAAG
* * * * *
105116805 GACGTGCTATGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATCTGTGAGTG
65 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATATGCGAGTG
* * * * * *
105116870 TCGAAGCACCTGTGAGTGTTGAAGCACCTACAGTTAATGAAGTTGGTAACAGTGGTTCGATGGTT
130 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
105116935 AATGAA
195 AATGAA
* *
105116941 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGTGTTACTAGTGGTAAGTTAAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTAC-AGTGGTAAGTTGAGGAGAAG
*
105117006 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGTCCAAAAGGATATGCGAGTG
65 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATATGCGAGTG
*
105117071 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACGGTGGTTCAACGGTT
130 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
105117136 AATGAA
195 AATGAA
* * * ** * * * *
105117142 GCACCTACGGTTAACGAAGTTGCTAACGATGGCTTGACCGTTAGCAGCGGGAAATTGAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTA-CAGTGGTAAGTTGAGGAGAAG
* *
105117207 GACATGCTACGAGTGCGGACAAAAGGGTCATATCTCTTCTGCTTGCCCAAA
65 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAA
105117258 TAAGAAATCT
Statistics
Matches: 284, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
200 1 0.00
201 282 0.99
202 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (200 bp):
GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTACAGTGGTAAGTTGAGGAGAAGG
ACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATATGCGAGTGT
CAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTTA
ATGAA
Found at i:105118137 original size:21 final size:21
Alignment explanation
Indices: 105118113--105118160 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
105118103 AATTTTAGTT
105118113 TTTTTATAGAAAAACCTAGAA
1 TTTTTATAGAAAAACCTAGAA
* * * *
105118134 -TTTTACAGGAAAAGCTTGAA
1 TTTTTATAGAAAAACCTAGAA
105118154 TTTTTAT
1 TTTTTAT
105118161 TGGAAATATA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTTTATAGAAAAACCTAGAA
Found at i:105119650 original size:17 final size:17
Alignment explanation
Indices: 105119628--105119661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105119618 ATCCACTAAT
*
105119628 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105119645 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105119662 AATCCACTAC
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:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105124289 original size:17 final size:17
Alignment explanation
Indices: 105124267--105124300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
105124257 ATCCACTAAT
*
105124267 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
105124284 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
105124301 AATCCACTAC
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:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:105126358 original size:44 final size:45
Alignment explanation
Indices: 105126305--105126407 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
105126295 TGTCTTTGAC
* * *
105126305 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
105126349 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
105126395 ATGAACTTACATG
1 ATGGACTTACATG
105126408 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:105126410 original size:46 final size:44
Alignment explanation
Indices: 105126324--105126412 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
105126314 CATGAATTAT
* *
105126324 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGAACTTACATGGCTCAA
*
105126368 TCCTGTCTCCAAAGCCATATTTCTAATATGAACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGAACTTACATGGCTCA
105126413 TTTCTGTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
46 22 0.55
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGAACTTACATGGCTCAA
Found at i:105130987 original size:15 final size:15
Alignment explanation
Indices: 105130967--105130996 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
105130957 TTCCGAAGAA
*
105130967 GGAAAGAGGCTAAAC
1 GGAAAGAAGCTAAAC
105130982 GGAAAGAAGCTAAAC
1 GGAAAGAAGCTAAAC
105130997 ATTTCAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.30, T:0.07
Consensus pattern (15 bp):
GGAAAGAAGCTAAAC
Found at i:105131762 original size:3 final size:3
Alignment explanation
Indices: 105131754--105131808 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
105131744 GCTTAATTGT
105131754 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105131802 TTA TTA T
1 TTA TTA T
105131809 AGAAATAGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:105132106 original size:36 final size:34
Alignment explanation
Indices: 105132066--105132196 Score: 93
Period size: 36 Copynumber: 3.6 Consensus size: 34
105132056 AATAGAAGTG
105132066 ATAATTATACATTTAAAAATAAATAGAATTTAAATT
1 ATAATTATA-ATTTAAAAATAAATA-AATTTAAATT
* * * * *
105132102 ATAATTTTTAA-TTAAAAAGTTGTAATATAATTGAAGTG
1 ATAA-TTATAATTTAAAAA--T-AAATA-AATTTAAATT
* *
105132140 ATAATTGTACATTTAAAAATAAATAAAATTATAATT
1 ATAATTATA-ATTTAAAAATAAATAAATTTA-AATT
*
105132176 ATAATTATTAATTAAAAAATA
1 ATAATTA-TAATTTAAAAATA
105132197 CATGTTGATT
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
35 11 0.15
36 27 0.37
37 12 0.16
38 16 0.22
39 7 0.10
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (34 bp):
ATAATTATAATTTAAAAATAAATAAATTTAAATT
Found at i:105132439 original size:9 final size:9
Alignment explanation
Indices: 105132425--105132465 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
105132415 TAATATTAGA
105132425 GTTAATTAT
1 GTTAATTAT
105132434 GTTAATTA-
1 GTTAATTAT
105132442 GTT-ATTAT
1 GTTAATTAT
* *
105132450 TTTAATAAT
1 GTTAATTAT
105132459 GTTAATT
1 GTTAATT
105132466 TTTATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
7 4 0.15
8 5 0.19
9 17 0.65
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (9 bp):
GTTAATTAT
Found at i:105132448 original size:16 final size:17
Alignment explanation
Indices: 105132424--105132465 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
105132414 TTAATATTAG
105132424 AGTTAATTATGTTAATT
1 AGTTAATTATGTTAATT
* *
105132441 AGTT-ATTATTTTAATA
1 AGTTAATTATGTTAATT
105132457 ATGTTAATT
1 A-GTTAATT
105132466 TTTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 7 0.33
18 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (17 bp):
AGTTAATTATGTTAATT
Done.