Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 54 of 210
Found at i:16482346 original size:14 final size:14
Alignment explanation
Indices: 16482327--16482354 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16482317 ACAATTTATT
16482327 AATATATATTAATA
1 AATATATATTAATA
16482341 AATATATATTAATA
1 AATATATATTAATA
16482355 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:16482479 original size:20 final size:20
Alignment explanation
Indices: 16482454--16482493 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16482444 AATATTTTTC
*
16482454 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
16482474 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
16482494 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:16482500 original size:14 final size:14
Alignment explanation
Indices: 16482477--16482516 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16482467 ACAGAAAAGT
*
16482477 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
16482491 AAATCATTTTACGG
1 AAAACATTTTACAG
16482505 AAAACATTTTAC
1 AAAACATTTTAC
16482517 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:16505774 original size:2 final size:2
Alignment explanation
Indices: 16505761--16505791 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16505751 AATTATAAAA
*
16505761 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16505792 CATGTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16506927 original size:35 final size:35
Alignment explanation
Indices: 16506881--16506951 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
16506871 ATTTTTGTTT
16506881 ATAAAAAAAAGAAGATGATG-AAAAAAATAAATAA
1 ATAAAAAAAAGAAGATGATGAAAAAAAATAAATAA
*
16506915 ATAAATAAAAAGATGATGATGAAAAAAAATAAATAA
1 ATAAA-AAAAAGAAGATGATGAAAAAAAATAAATAA
16506951 A
1 A
16506952 AAGCTGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 5 0.15
35 14 0.41
36 15 0.44
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (35 bp):
ATAAAAAAAAGAAGATGATGAAAAAAAATAAATAA
Found at i:16507952 original size:44 final size:43
Alignment explanation
Indices: 16507813--16507970 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 43
16507803 CTCGAATCAA
* * * ***
16507813 CTCCACTATAACTTCAGGGAGATAGGATTAGTAGCTTCAGTATG
1 CTCCACTACAACTTCAGGGAGATAAGATTA-TTGCTTCAACCTG
* * *
16507857 CTCCACTACAAGTTTAGGGAGATAAGAATTGTAT-CTTCAACCTG
1 CTCCACTACAACTTCAGGGAGATAAG-ATTAT-TGCTTCAACCTG
** *
16507901 CTCCACTGTAACTTCAGGGAGATAAGACTTATTGTTTCAACCTG
1 CTCCACTACAACTTCAGGGAGATAAGA-TTATTGCTTCAACCTG
* * *
16507945 CTCCACTGCGACTGCAGGGAGATAAG
1 CTCCACTACAACTTCAGGGAGATAAG
16507971 GTTCGATTTG
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.02
44 87 0.95
45 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
CTCCACTACAACTTCAGGGAGATAAGATTATTGCTTCAACCTG
Found at i:16508148 original size:41 final size:42
Alignment explanation
Indices: 16508103--16508214 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 42
16508093 GATCCGCTCC
* * *
16508103 ACTGCAACTTTAGGGAGATAAGACTTATC-GTGATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGACTTATCTGTAATCTACTCT
* *
16508144 ACTGCAACTTCAGAGAGATAAGATCTGTTATCTTTAATCTATTCT
1 ACTGCAACTTCAGAGAGATAAGA-C--TTATCTGTAATCTACTCT
* *
16508189 ACTGCAACCTCAGTGAGATAAGACTT
1 ACTGCAACTTCAGAGAGATAAGACTT
16508215 GTAGATTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
41 21 0.35
42 3 0.05
44 6 0.10
45 30 0.50
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (42 bp):
ACTGCAACTTCAGAGAGATAAGACTTATCTGTAATCTACTCT
Found at i:16508311 original size:44 final size:45
Alignment explanation
Indices: 16508243--16508499 Score: 147
Period size: 44 Copynumber: 5.7 Consensus size: 45
16508233 GATGCGATCT
* * * *
16508243 GCTCTACTGCAAC-TTCGGAGAGATAAGATCTATCATTTTAATCC
1 GCTCCACTGCAACTTTAGGAGAGATAAGATCTATAATTTCAATCC
* * * *
16508287 GCTTCACTGCAACTTTAGGA-AGATAGGA-CTAGTAACTTCAATCT
1 GCTCCACTGCAACTTTAGGAGAGATAAGATCTA-TAATTTCAATCC
*
16508331 GCTCCACTGCAACTTTA-GAGAGATAAGATCTATAATTTATAGCCTTAATCT
1 GCTCCACTGCAACTTTAGGAGAGATAAGATCTATAA-TT-T---C--AATCC
* * * * * * *
16508382 GTTCCACTGCAACTTCAGGA-AAATAAGATTTGCT-ATCTTCAGTCT
1 GCTCCACTGCAACTTTAGGAGAGATAAGATCT-ATAAT-TTCAATCC
* * *
16508427 GCTCTACTGTAACTTCAGG-GAGATAAGA-CTCATAATTTCAA-CC
1 GCTCCACTGCAACTTTAGGAGAGATAAGATCT-ATAATTTCAATCC
* *
16508470 TGCCCCACTGCAACTTTAGG-GAGATGAGAT
1 -GCTCCACTGCAACTTTAGGAGAGATAAGAT
16508500 TTGATATGAT
Statistics
Matches: 164, Mismatches: 31, Indels: 35
0.71 0.13 0.15
Matches are distributed among these distances:
43 6 0.04
44 81 0.49
45 38 0.23
46 1 0.01
47 1 0.01
49 1 0.01
50 2 0.01
51 31 0.19
52 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (45 bp):
GCTCCACTGCAACTTTAGGAGAGATAAGATCTATAATTTCAATCC
Found at i:16508535 original size:85 final size:85
Alignment explanation
Indices: 16508424--16508720 Score: 247
Period size: 85 Copynumber: 3.4 Consensus size: 85
16508414 CTATCTTCAG
** * *
16508424 TCTGCTCTACTGTAACTTCAGGGAGATAAGACTCATAATTTCAACCTGCCCCACTGCAACTTTAG
1 TCTGCTCTACTACAACTTCAGAGAGATAAGACTCATAATTTCAACCTGCCCCACTGCAACTTCAG
16508489 GGAGATGAGATTTGATATGA
66 GGAGATGAGATTTGATATGA
* * * * * ***
16508509 TCTACTCTACTATAACTTCAGAGAGATAGGA-TCGGTATTTTATAGCTTCAATCTGTTTCACTGC
1 TCTGCTCTACTACAACTTCAGAGAGATAAGACTC---A---TA-A-TTTCAACCTGCCCCACTGC
* * * * *
16508573 AACTTCAGGGAAATAAGATTCGCTATCTTTA
58 AACTTCAGGGAGATGAGATTTG--AT-ATGA
* * * * * *
16508604 GTCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGTAATTTCAACCTGCCCCATTACAACTTCA
1 -TCTGCTCTACTACAACTTCAGAGAGATAAGACTCATAATTTCAACCTGCCCCACTGCAACTTCA
16508669 GGGAGATGA-AGTTTGATATGA
65 GGGAGATGAGA-TTTGATATGA
*
16508690 TCTGCTCTACTACAACTTCAAAGAGATAAGA
1 TCTGCTCTACTACAACTTCAGAGAGATAAGA
16508721 TCGGTAATTT
Statistics
Matches: 160, Mismatches: 38, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
84 2 0.01
85 54 0.34
86 2 0.01
87 3 0.02
88 1 0.01
89 29 0.18
90 3 0.02
91 3 0.02
92 32 0.20
94 2 0.01
95 2 0.01
96 25 0.16
97 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (85 bp):
TCTGCTCTACTACAACTTCAGAGAGATAAGACTCATAATTTCAACCTGCCCCACTGCAACTTCAG
GGAGATGAGATTTGATATGA
Found at i:16508577 original size:181 final size:180
Alignment explanation
Indices: 16508340--16508818 Score: 674
Period size: 181 Copynumber: 2.6 Consensus size: 180
16508330 TGCTCCACTG
* ** *
16508340 CAACTTTAGAGAGATAAGATCTATAATTTATAGCCTT-AATCTGTTCCACTGCAACTTCAGGAAA
1 CAACTTCAGAGAGATAAGATCGGTAATTTATAG-CTTCAATCTGTTCCACTGCAACTTCAGGGAA
*
16508404 ATAAGATTTGCTATCTTCAGTCTGCTCTACTGTAACTTCAGGGAGATAAGACTCATAATTTCAAC
65 ATAAGATTTGCTATCTT-AGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTCATAATTTCAAC
* *
16508469 CTGCCCCACTGCAACTTTAGGGAGATG-AGATTTGATATGATCTACTCTACTA
129 CTGCCCCACTACAACTTCAGGGAGATGAAG-TTTGATATGATCTACTCTACTA
* * * *
16508521 TAACTTCAGAGAGATAGGATCGGTATTTTATAGCTTCAATCTGTTTCACTGCAACTTCAGGGAAA
1 CAACTTCAGAGAGATAAGATCGGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
* * * *
16508586 TAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGTGAGATAAGACTCGTAATTTCAACC
66 TAAGATTTGCTATC-TTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTCATAATTTCAACC
* *
16508651 TGCCCCATTACAACTTCAGGGAGATGAAGTTTGATATGATCTGCTCTACTA
130 TGCCCCACTACAACTTCAGGGAGATGAAGTTTGATATGATCTACTCTACTA
* *
16508702 CAACTTCAAAGAGATAAGATCGGTAATTTATATCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
1 CAACTTCAGAGAGATAAGATCGGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
* * *
16508767 TAAGGTTTGATAAGATCTATAGTCTACTCCACTGTAACTTCAGGGAGATAAG
66 TAAGATTTGCT---ATCT-TAGTCTGCTCCACTGTAACTTCAGGGAGATAAG
16508819 GCTGGTGCTT
Statistics
Matches: 262, Mismatches: 29, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
180 3 0.01
181 221 0.84
182 4 0.02
183 1 0.00
184 33 0.13
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (180 bp):
CAACTTCAGAGAGATAAGATCGGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
TAAGATTTGCTATCTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTCATAATTTCAACCT
GCCCCACTACAACTTCAGGGAGATGAAGTTTGATATGATCTACTCTACTA
Found at i:16510545 original size:52 final size:52
Alignment explanation
Indices: 16510430--16510545 Score: 125
Period size: 52 Copynumber: 2.3 Consensus size: 52
16510420 TTCTTTTTAT
16510430 TCTTT-TTCCTTTTTTTTGACTCAAAGCGCCATTTGCAGGTTTTCACCTTAG
1 TCTTTCTTCCTTTTTTTTGACTCAAAGCGCCATTTGCAGGTTTTCACCTTAG
* * ** *
16510481 TCTTTCTT--TTTTTTTTAGAACTCAATGCGCCCTTTGCTTGTTTTTACCTT-G
1 TCTTTCTTCCTTTTTTTT-G-ACTCAAAGCGCCATTTGCAGGTTTTCACCTTAG
*
16510532 -GTTTCTTCCTTTTT
1 TCTTTCTTCCTTTTT
16510546 AGGTAAAATC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
50 14 0.26
51 7 0.13
52 33 0.61
ACGTcount: A:0.12, C:0.22, G:0.12, T:0.53
Consensus pattern (52 bp):
TCTTTCTTCCTTTTTTTTGACTCAAAGCGCCATTTGCAGGTTTTCACCTTAG
Found at i:16526055 original size:28 final size:29
Alignment explanation
Indices: 16526023--16526088 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
16526013 GCCCTTGATT
16526023 TAAAAATTATATAA-AAAATTAAA-ATCAA
1 TAAAAATTATA-AATAAAATTAAATATCAA
* ** *
16526051 TAAAAACTATAAATATTATTAAATATTAA
1 TAAAAATTATAAATAAAATTAAATATCAA
16526080 TAAAAATTA
1 TAAAAATTA
16526089 GAAAAAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.06
28 17 0.55
29 12 0.39
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (29 bp):
TAAAAATTATAAATAAAATTAAATATCAA
Found at i:16526112 original size:9 final size:9
Alignment explanation
Indices: 16526023--16526131 Score: 67
Period size: 10 Copynumber: 11.6 Consensus size: 9
16526013 GCCCTTGATT
16526023 TAAAAATTA
1 TAAAAATTA
*
16526032 TATAAAA-AA
1 TA-AAAATTA
* *
16526041 TTAAAATCAA
1 TAAAAAT-TA
*
16526051 TAAAAACTA
1 TAAAAATTA
*
16526060 TAAATATTA
1 TAAAAATTA
*
16526069 TTAAATATTAA
1 -TAAAAATT-A
16526080 TAAAAATTA
1 TAAAAATTA
* *
16526089 GAAAAAATAA
1 -TAAAAATTA
*
16526099 GAAAAATTA
1 TAAAAATTA
*
16526108 TAAAAATTG
1 TAAAAATTA
16526117 TAAAAAATTA
1 T-AAAAATTA
16526127 TAAAA
1 TAAAA
16526132 TTTTATAAAG
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
8 4 0.05
9 32 0.41
10 41 0.53
11 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:16526131 original size:28 final size:28
Alignment explanation
Indices: 16526065--16526163 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 28
16526055 AACTATAAAT
*
16526065 ATTATTAAATATTAATAAAAATTAG-AAAAA
1 ATTA-TAAAAATT-ATAAAAATT-GTAAAAA
* *
16526095 ATAAGAAAAATTATAAAAATTGTAAAAA
1 ATTATAAAAATTATAAAAATTGTAAAAA
* *
16526123 ATTAT-AAAATTTTATAAAGTTGTAAGAAA
1 ATTATAAAAATTATA-AAAATTGTAA-AAA
*
16526152 TTTATACAAAAT
1 ATTATA-AAAAT
16526164 GTAAAGAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
27 9 0.16
28 26 0.46
29 13 0.23
30 3 0.05
31 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (28 bp):
ATTATAAAAATTATAAAAATTGTAAAAA
Found at i:16526157 original size:48 final size:48
Alignment explanation
Indices: 16526096--16526188 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 48
16526086 TTAGAAAAAA
16526096 TAAGAAAAATTATA-AAAATTGTAAA-AAATTATAAAATTTTATAAAGTTG
1 TAAGAAAAATTATACAAAA-TGTAAAGAAA-TAT-AAATTTTATAAAGTTG
* *
16526145 TAAG-AAATTTATACAAAATGTAAAGAAATATAAATTTTGTAAAG
1 TAAGAAAAATTATACAAAATGTAAAGAAATATAAATTTTATAAAG
16526189 AAAATTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
47 12 0.30
48 17 0.43
49 11 0.28
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (48 bp):
TAAGAAAAATTATACAAAATGTAAAGAAATATAAATTTTATAAAGTTG
Found at i:16526403 original size:9 final size:9
Alignment explanation
Indices: 16526382--16526444 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
16526372 TTTTGATCCA
16526382 TTTTATAATT
1 TTTTATAA-T
*
16526392 TTTTATGAT
1 TTTTATAAT
16526401 TTTTATAAT
1 TTTTATAAT
*
16526410 ATTTTAAAAT
1 -TTTTATAAT
*
16526420 TTTTAT-TT
1 TTTTATAAT
*
16526428 TTTTACAAT
1 TTTTATAAT
16526437 TTTTATAA
1 TTTTATAA
16526445 AAAAAATCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
8 6 0.14
9 22 0.51
10 15 0.35
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:16526404 original size:19 final size:19
Alignment explanation
Indices: 16526382--16526444 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
16526372 TTTTGATCCA
**
16526382 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTAAAAT
*
16526401 TTTTATAATATTTTAAAAT
1 TTTTATAATTTTTTAAAAT
*
16526420 TTTTAT--TTTTTTACAAT
1 TTTTATAATTTTTTAAAAT
16526437 TTTTATAA
1 TTTTATAA
16526445 AAAAAATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 15 0.41
19 22 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTAAAAT
Found at i:16526868 original size:27 final size:26
Alignment explanation
Indices: 16526837--16526901 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
16526827 GGGAATTAGA
*
16526837 GAAAAGGAAAAGAGAAAGGAAGGAATG
1 GAAAAGGAAAAGA-AAAGGAAGGAAAG
* *
16526864 GAAAAAGAGAAAGAAAGGGAAGGAAAG
1 GAAAAGGA-AAAGAAAAGGAAGGAAAG
*
16526891 AAAAAGGAAAA
1 GAAAAGGAAAA
16526902 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.09
27 24 0.75
28 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.02
Consensus pattern (26 bp):
GAAAAGGAAAAGAAAAGGAAGGAAAG
Found at i:16526871 original size:22 final size:22
Alignment explanation
Indices: 16526840--16526889 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
16526830 AATTAGAGAA
*
16526840 AAGG-AAAAGAGAAAGGAA-GG
1 AAGGAAAAAGAGAAAGAAAGGG
16526860 AATGGAAAAAGAGAAAGAAAGGG
1 AA-GGAAAAAGAGAAAGAAAGGG
16526883 AAGGAAA
1 AAGGAAA
16526890 GAAAAAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 2 0.08
22 18 0.69
23 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (22 bp):
AAGGAAAAAGAGAAAGAAAGGG
Found at i:16527501 original size:21 final size:21
Alignment explanation
Indices: 16527477--16527541 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
16527467 TAATATATTT
16527477 TAATTTTTGATAAAAATAAAA
1 TAATTTTTGATAAAAATAAAA
* **
16527498 TAATTTTAG-T-TTAATAAAA
1 TAATTTTTGATAAAAATAAAA
*
16527517 TTAATTTTTAATAAAAATAAAA
1 -TAATTTTTGATAAAAATAAAA
16527539 TAA
1 TAA
16527542 AATAAATTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 7 0.21
20 8 0.24
21 12 0.35
22 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TAATTTTTGATAAAAATAAAA
Found at i:16535025 original size:42 final size:43
Alignment explanation
Indices: 16534870--16535106 Score: 261
Period size: 43 Copynumber: 5.6 Consensus size: 43
16534860 TATAGACAAT
* * * * *
16534870 GTCGCTATAGAACATGACCTTTAGCGGCGCTTTTATAATAAAC
1 GTCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAAC
*
16534913 GTCGCTAAAGAACATGACCTTTAACGACA-TTTTATCAACAAAC
1 GTCGCTAAAGAACATGACCTTTAGCGACACTTTTATC-ACAAAC
16534956 G-CTGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAAC
1 GTC-GCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAAC
* ** * * *
16534999 GCCGCTAAA-AACATGATATTTAGCGACACTTTTAACCCAAAA
1 GTCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAAC
* ***
16535041 GTTGCT-AA-AA-ATGACCTTTAGCGGTGCTTTTATCACAAAC
1 GTCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAAC
*
16535081 GTCGCTAAAGAGCATGACCTTTAGCG
1 GTCGCTAAAGAACATGACCTTTAGCG
16535107 GCGTTTATGT
Statistics
Matches: 163, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
40 27 0.17
41 6 0.04
42 40 0.25
43 82 0.50
44 8 0.05
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GTCGCTAAAGAACATGACCTTTAGCGACACTTTTATCACAAAC
Found at i:16537390 original size:1 final size:1
Alignment explanation
Indices: 16537384--16537413 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
16537374 TATAAAATTC
16537384 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16537414 CCCTATCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16540000 original size:22 final size:23
Alignment explanation
Indices: 16539951--16540000 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
16539941 TCTTTCATAT
*
16539951 AAATTTTAAATAAATATTTTTAA
1 AAATTTTAAATAAATATTTTAAA
*
16539974 AAATTTTAAGT-AATA-TTTAAA
1 AAATTTTAAATAAATATTTTAAA
16539995 AGAATT
1 A-AATT
16540001 ATATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
AAATTTTAAATAAATATTTTAAA
Found at i:16540044 original size:19 final size:19
Alignment explanation
Indices: 16540014--16540062 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
16540004 TAAAATTATA
16540014 ATTTTTAGTTTTTGTATTTC
1 ATTTTTA-TTTTTGTATTTC
*
16540034 ATTTTTATTTTTGTATTTT
1 ATTTTTATTTTTGTATTTC
16540053 ATTTTTATTT
1 ATTTTTATTT
16540063 GTTATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:16540422 original size:21 final size:21
Alignment explanation
Indices: 16540376--16540443 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
16540366 CCATAAATCA
* *
16540376 TAAAACATAAACCCTAAACCCC
1 TAAATCATAAACCCT-AACCCT
*
16540398 TAAATCTTAAACCCTAACCCT
1 TAAATCATAAACCCTAACCCT
* * *
16540419 TAAATCATAATCCATAAACCT
1 TAAATCATAAACCCTAACCCT
16540440 TAAA
1 TAAA
16540444 ATAGTAACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 26 0.67
22 13 0.33
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATCATAAACCCTAACCCT
Found at i:16540993 original size:40 final size:39
Alignment explanation
Indices: 16540897--16540998 Score: 152
Period size: 38 Copynumber: 2.6 Consensus size: 39
16540887 TTTTGTGGCG
* * *
16540897 TTTTTCAAAAAGCGCCGCTAGTACTCGATTTATAGCGGC
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
*
16540936 -TTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGC
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
16540974 ATTTTTCAAAAAGCGCCGCTAATGC
1 -TTTTTCAAAAAGCGCCGCTAATGC
16540999 CACTAAAACT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
38 34 0.61
40 22 0.39
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
Found at i:16543435 original size:32 final size:32
Alignment explanation
Indices: 16543394--16543462 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
16543384 CAATAGTATA
*
16543394 ATTT-AACATATAATTTTCGTTTGAAATGATG
1 ATTTAAACATATAATTTTCATTTGAAATGATG
16543425 ATTTAAACATATAATTTTCATTTGAAATGATG
1 ATTTAAACATATAATTTTCATTTGAAATGATG
16543457 ATTTAA
1 ATTTAA
16543463 CATGCCATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 4 0.11
32 32 0.89
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (32 bp):
ATTTAAACATATAATTTTCATTTGAAATGATG
Found at i:16544539 original size:7 final size:7
Alignment explanation
Indices: 16544529--16544572 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
16544519 TTCCATTTAG
16544529 TTTTATT
1 TTTTATT
16544536 TTTTATT
1 TTTTATT
16544543 TTTTATT
1 TTTTATT
16544550 TTTTATT
1 TTTTATT
16544557 TTATT-TAT
1 TT-TTAT-T
16544565 TTTTATT
1 TTTTATT
16544572 T
1 T
16544573 ATACTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 28 0.82
8 6 0.18
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:16544580 original size:22 final size:23
Alignment explanation
Indices: 16544537--16544584 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
16544527 AGTTTTATTT
*
16544537 TTTATTTTTTATTTTTTATTTTA
1 TTTATTTTTTATTTTATATTTTA
16544560 TTTA-TTTTTA-TTTATACTTTTA
1 TTTATTTTTTATTTTATA-TTTTA
16544582 TTT
1 TTT
16544585 TTATTGTCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTATTTTTTATTTTATATTTTA
Found at i:16544587 original size:14 final size:13
Alignment explanation
Indices: 16544524--16544588 Score: 51
Period size: 14 Copynumber: 4.8 Consensus size: 13
16544514 ACTGATTCCA
* *
16544524 TTTAGTTTTATTT
1 TTTATTTTTATAT
*
16544537 TTTATTTTTTATTT
1 TTTA-TTTTTATAT
*
16544551 TTTATTTTATTTAT
1 TTTATTTT-TATAT
*
16544565 TTT-TATTTATACT
1 TTTATTTTTATA-T
16544578 TTTATTTTTAT
1 TTTATTTTTAT
16544589 TGTCAGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.07
13 15 0.36
14 24 0.57
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTATTTTTATAT
Found at i:16544607 original size:6 final size:6
Alignment explanation
Indices: 16544524--16544589 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
16544514 ACTGATTCCA
*
16544524 TTTAGT TTTATTT TTTATTT TTTATT TTT-TAT TTTA-- TTTATT TTTATT
1 TTTATT TTTA-TT TTTA-TT TTTATT TTTAT-T TTTATT TTTATT TTTATT
* *
16544572 TATACT TTTATT TTTATT
1 TTTATT TTTATT TTTATT
16544590 GTCAGATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.08
5 1 0.02
6 33 0.66
7 12 0.24
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:16545567 original size:9 final size:9
Alignment explanation
Indices: 16545549--16545578 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16545539 CTTTATTCTC
16545549 AAAA-AAAA
1 AAAAGAAAA
16545557 AAAAGAAAA
1 AAAAGAAAA
16545566 AAAAGAAAA
1 AAAAGAAAA
16545575 AAAA
1 AAAA
16545579 AGAGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:16545567 original size:10 final size:10
Alignment explanation
Indices: 16545552--16545581 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16545542 TATTCTCAAA
16545552 AAAAAAAAAG
1 AAAAAAAAAG
16545562 -AAAAAAAAG
1 AAAAAAAAAG
16545571 AAAAAAAAAG
1 AAAAAAAAAG
16545581 A
1 A
16545582 GATTGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:16549443 original size:14 final size:14
Alignment explanation
Indices: 16549420--16549451 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16549410 TGTCGTTTTC
*
16549420 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
16549434 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
16549448 TTAG
1 TTAG
16549452 AACAATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:16554631 original size:27 final size:27
Alignment explanation
Indices: 16554601--16554654 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16554591 CAATTATGTA
16554601 TACTTATTTCGTGCTTTAATATTTTAG
1 TACTTATTTCGTGCTTTAATATTTTAG
16554628 TACTTATTTCGTGCTTTAATATTTTAG
1 TACTTATTTCGTGCTTTAATATTTTAG
16554655 GGATATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (27 bp):
TACTTATTTCGTGCTTTAATATTTTAG
Found at i:16557751 original size:14 final size:14
Alignment explanation
Indices: 16557732--16557758 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16557722 TCAAACAAAA
16557732 TAACAATTAAATTG
1 TAACAATTAAATTG
16557746 TAACAATTAAATT
1 TAACAATTAAATT
16557759 AAAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (14 bp):
TAACAATTAAATTG
Found at i:16557776 original size:20 final size:20
Alignment explanation
Indices: 16557751--16557791 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16557741 AATTGTAACA
*
16557751 ATTAAATTAAAAACAAAAAT
1 ATTAAAATAAAAACAAAAAT
*
16557771 ATTAAAATAAAAATAAAAAT
1 ATTAAAATAAAAACAAAAAT
16557791 A
1 A
16557792 AAAATGGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
ATTAAAATAAAAACAAAAAT
Found at i:16557783 original size:6 final size:6
Alignment explanation
Indices: 16557758--16557796 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
16557748 ACAATTAAAT
*
16557758 TAAAAA CAAAAA TATTAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA TAAAAA T
16557797 GGCTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:16568873 original size:3 final size:3
Alignment explanation
Indices: 16568865--16568906 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
16568855 GTGTATTGCA
16568865 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16568907 TGTAGTAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16573298 original size:13 final size:13
Alignment explanation
Indices: 16573280--16573358 Score: 61
Period size: 13 Copynumber: 6.0 Consensus size: 13
16573270 CATATATATC
16573280 CATATAAACATTT
1 CATATAAACATTT
* * *
16573293 CATATACATAATT
1 CATATAAACATTT
16573306 CATAT-AACTATTT
1 CATATAAAC-ATTT
* *
16573319 CCATATAACCAATT
1 -CATATAAACATTT
*
16573333 CATATAATCATTT
1 CATATAAACATTT
* *
16573346 TATATAATCATTT
1 CATATAAACATTT
16573359 TCCATATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
12 1 0.02
13 41 0.79
14 8 0.15
15 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:16573345 original size:27 final size:25
Alignment explanation
Indices: 16573280--16573351 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 25
16573270 CATATATATC
*
16573280 CATATAAACATTTCATATACATAATT
1 CATAT-AACATTTCATATACACAATT
16573306 CATATAACTATTTCCATATA-ACCAATT
1 CATATAAC-ATTT-CATATACA-CAATT
*
16573333 CATATAATCATTTTATATA
1 CATATAA-CATTTCATATA
16573352 ATCATTTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 3 0.08
26 15 0.38
27 21 0.52
28 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (25 bp):
CATATAACATTTCATATACACAATT
Found at i:16573359 original size:13 final size:13
Alignment explanation
Indices: 16573334--16573400 Score: 73
Period size: 13 Copynumber: 5.0 Consensus size: 13
16573324 TAACCAATTC
16573334 ATATAATCATTTT
1 ATATAATCATTTT
16573347 ATATAATCATTTT
1 ATATAATCATTTT
* *
16573360 CCATATAATTGA-TTC
1 --ATATAA-TCATTTT
16573375 ATATAATCATTTT
1 ATATAATCATTTT
*
16573388 ATATATTCATTTT
1 ATATAATCATTTT
16573401 CCACTCGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
12 2 0.04
13 33 0.73
15 8 0.18
16 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.52
Consensus pattern (13 bp):
ATATAATCATTTT
Found at i:16573366 original size:28 final size:27
Alignment explanation
Indices: 16573331--16573400 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
16573321 ATATAACCAA
16573331 TTCATATAATCATTTTATATAATCATT
1 TTCATATAATCATTTTATATAATCATT
* *
16573358 TTCCATATAATTGA-TTCATATAATCATT
1 TT-CATATAA-TCATTTTATATAATCATT
*
16573386 TT-ATATATTCATTTT
1 TTCATATAATCATTTT
16573401 CCACTCGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
25 2 0.06
26 7 0.20
27 2 0.06
28 22 0.63
29 2 0.06
ACGTcount: A:0.34, C:0.11, G:0.01, T:0.53
Consensus pattern (27 bp):
TTCATATAATCATTTTATATAATCATT
Found at i:16573375 original size:41 final size:41
Alignment explanation
Indices: 16573278--16573403 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
16573268 TACATATATA
* * * *
16573278 TCCATATAAACATTTCATATACAT-AATTCATATAA-C-TATT
1 TCCATATAACCAATTCATATA-ATCATTTTATATAATCAT-TT
16573318 TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
1 TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
*** *
16573359 TCCATATAATTGATTCATATAATCATTTTATATATTCATTT
1 TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
16573400 TCCA
1 TCCA
16573404 CTCGATTAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 28 0.37
41 44 0.59
42 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.44
Consensus pattern (41 bp):
TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
Found at i:16580754 original size:40 final size:39
Alignment explanation
Indices: 16580707--16580830 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
16580697 GCGTTTGGAT
16580707 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTA
1 AAAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTTA
* * * * * *
16580747 AAAAAACGCCACTAAAGATTGAGTATTAGCGACGCTTTTT
1 AAAAAACGCCGCTAAA-AATAAGCATTAGCGGCGCTTTTA
** * * * *
16580787 GGAAAACACCGCTAAAAATTAGCATTAGCGGCGTTTTTC
1 AAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTA
16580826 AAAAA
1 AAAAA
16580831 GTGCCGCAAA
Statistics
Matches: 65, Mismatches: 18, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
39 20 0.31
40 43 0.66
41 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTA
Found at i:16580967 original size:40 final size:40
Alignment explanation
Indices: 16580875--16581051 Score: 237
Period size: 40 Copynumber: 4.3 Consensus size: 40
16580865 TTTTTAAATT
* *
16580875 TCAGGACTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCAGG-CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
16580916 GCAGGGTTTTAGTGGCATTTTTTAAAAAGCGCCGCTAATGC
1 TCA-GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
16580957 TCAGGCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
16580997 TCAGGCTTCAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
16581037 TCAGGGTTTTAGCGG
1 TCA-GGCTTTAGCGG
16581052 TGCTTTTTAA
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 73 0.60
41 46 0.38
42 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (40 bp):
TCAGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:16581048 original size:81 final size:81
Alignment explanation
Indices: 16580875--16581059 Score: 246
Period size: 81 Copynumber: 2.3 Consensus size: 81
16580865 TTTTTAAATT
* * * * * * *
16580875 TCAGGACTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCGCAGGGTTTTAGTGGCATTTTTTA
1 TCAGG-CTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCGCAGGGCTTCAGCGGCATTTTTGA
16580940 AAAAGCGCCGCTAATGC
65 AAAAGCGCCGCTAATGC
* *
16580957 TCAGGCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCA-GGCTTCAGCGGCGTTTTTGAA
1 TCAGGCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCGCAGGGCTTCAGCGGCATTTTTGAA
16581021 AAAGCGCCGCTAATGC
66 AAAGCGCCGCTAATGC
*
16581037 TCAGGGTTTTAGCGGTGCTTTTT
1 TCA-GGCTTTAGCGGTG-TTTTT
16581060 AAGGATCGGG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
80 35 0.38
81 46 0.51
82 10 0.11
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (81 bp):
TCAGGCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCGCAGGGCTTCAGCGGCATTTTTGAA
AAAGCGCCGCTAATGC
Found at i:16581160 original size:110 final size:109
Alignment explanation
Indices: 16580963--16581161 Score: 267
Period size: 110 Copynumber: 1.8 Consensus size: 109
16580953 ATGCTCAGGC
** * *
16580963 TTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTTCAGCGGCGTTTTTGAAAAAGCGC
1 TTTAGCGGCATTTCTGAAAAAGCGCCGCTAATACTCAGGCTTCAGCGGCGTTTTTGAAAAAGCGC
**
16581028 CGCTAATGCTCAGGGTTTTAGCGGTGCTTTTTAAGGATCGGGTA
66 CGCTAATGCTCAGGGTAATAGCGGTGCTTTTTAAGGATCGGGTA
* * *
16581072 TTTAGCGGCATTTCTGAGAAAGCGCCGCTAATACTCGGGGCTTTAGCGGCGTTTTT-AAAGAAGC
1 TTTAGCGGCATTTCTGAAAAAGCGCCGCTAATACTC-AGGCTTCAGCGGCGTTTTTGAAA-AAGC
*
16581136 GCTGCTAATGCTCA-GGTCAATAGCGG
64 GCCGCTAATGCTCAGGGT-AATAGCGG
16581162 CATTTTTGCT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
109 37 0.48
110 40 0.52
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (109 bp):
TTTAGCGGCATTTCTGAAAAAGCGCCGCTAATACTCAGGCTTCAGCGGCGTTTTTGAAAAAGCGC
CGCTAATGCTCAGGGTAATAGCGGTGCTTTTTAAGGATCGGGTA
Found at i:16585282 original size:43 final size:43
Alignment explanation
Indices: 16585219--16585389 Score: 243
Period size: 43 Copynumber: 4.0 Consensus size: 43
16585209 AAGGTTATGC
* **
16585219 TTGTGAGAAAATCGTTGCTAAAGGTCATGGTCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
*
16585262 TTGTGAGAAAAGCGCCGCTAAAGGCCATGGTCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
* * *
16585305 TTGTGGGAAAAGTGCCGCTAAAGGTCTTGGTCTTTAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
* * * *
16585348 TTGTGGGAAAAGCACCGCTAAAGGTCTTGTTCTTTAGCGGCG
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCG
16585390 CTTCTCGAAG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGT
Found at i:16587328 original size:27 final size:25
Alignment explanation
Indices: 16587290--16587358 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 25
16587280 CGTTCCGACC
*
16587290 CACAACTCGTGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCAGGCCCA--TT
** *
16587317 CACAGCTCGTGTGAGCATTCTCATT
1 CACAGCTCGTGTGAGCAGGCCCATT
*
16587342 CACAGCTTGTGTGAGCA
1 CACAGCTCGTGTGAGCA
16587359 TACATGTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 18 0.49
27 19 0.51
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCAGGCCCATT
Found at i:16593311 original size:31 final size:30
Alignment explanation
Indices: 16593262--16593329 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
16593252 TTTTTAAATG
*
16593262 TGTATA-ATTGAATCAAAATAAAAGTTTCA
1 TGTATATATTGAACCAAAATAAAAGTTTCA
**
16593291 TGTATATATATGAACCAAAATTCAAGTTTCA
1 TGTATATAT-TGAACCAAAATAAAAGTTTCA
*
16593322 TGTGTATA
1 TGTATATA
16593330 ATTAAAGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 6 0.18
30 2 0.06
31 25 0.76
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.37
Consensus pattern (30 bp):
TGTATATATTGAACCAAAATAAAAGTTTCA
Found at i:16595558 original size:30 final size:30
Alignment explanation
Indices: 16595524--16595596 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
16595514 TGGTTAATAC
* *
16595524 ATCCCTTTTCGT-GATTCGATAACTAAAGTT
1 ATCCCTTTTCATAG-TTCGATAACTAAAGCT
*
16595554 ATCCCTTTTCATAGTTCGATAGCTAAAGCT
1 ATCCCTTTTCATAGTTCGATAACTAAAGCT
16595584 ATCCCTTTTCATA
1 ATCCCTTTTCATA
16595597 ATTTGATGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAACTAAAGCT
Found at i:16595618 original size:30 final size:30
Alignment explanation
Indices: 16595584--16595685 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
16595574 AGCTAAAGCT
16595584 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** *
16595614 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
16595644 ATCCCTTTTCATAATTTGATAGTCG-AACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
16595673 TATCCCTTTTCAT
1 -ATCCCTTTTCAT
16595686 TCGTCGATGA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 3 0.05
30 60 0.95
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:16595622 original size:60 final size:60
Alignment explanation
Indices: 16595553--16595685 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
16595543 TAACTAAAGT
* * *
16595553 TATCCCTTTTCATAGTTCGATAG-C-TAAAGCTATCCCTTTTCATAATTTGATGGTCGTCACC
1 TATCCCTTTTCATAGTTCGATAGTCGT-AA-CCATCCCTTTTCATAATTTGATAGTCG-AACC
* * *
16595614 -ATCCCTTTTCATTGTTCGATGGTCGTCACCATCCCTTTTCATAATTTGATAGTCGAACC
1 TATCCCTTTTCATAGTTCGATAGTCGTAACCATCCCTTTTCATAATTTGATAGTCGAACC
16595673 TATCCCTTTTCAT
1 TATCCCTTTTCAT
16595686 TCGTCGATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 57 0.90
61 2 0.03
62 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (60 bp):
TATCCCTTTTCATAGTTCGATAGTCGTAACCATCCCTTTTCATAATTTGATAGTCGAACC
Found at i:16595686 original size:60 final size:60
Alignment explanation
Indices: 16595584--16595700 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 60
16595574 AGCTAAAGCT
* * *
16595584 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATT-GTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGTCGTAACCATCCCTTTTCATTCG-TCGATGATCGTCACC
16595644 ATCCCTTTTCATAATTTGATAGTCG-AACCTATCCCTTTTCATTCGTCGATGATCGTC
1 ATCCCTTTTCATAATTTGATAGTCGTAACC-ATCCCTTTTCATTCGTCGATGATCGTC
16595701 GTTACGTCGT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 3 0.06
60 48 0.92
61 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTGATAGTCGTAACCATCCCTTTTCATTCGTCGATGATCGTCACC
Found at i:16598196 original size:21 final size:21
Alignment explanation
Indices: 16598170--16598210 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16598160 ACTTTTTCTT
16598170 TAATTAACTA-ACCAAAAATTG
1 TAATT-ACTAGACCAAAAATTG
16598191 TAATTACTAGACCAAAAATT
1 TAATTACTAGACCAAAAATT
16598211 AATTTGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (21 bp):
TAATTACTAGACCAAAAATTG
Found at i:16602186 original size:50 final size:48
Alignment explanation
Indices: 16602116--16602302 Score: 169
Period size: 50 Copynumber: 3.7 Consensus size: 48
16602106 TATCATTCGA
*
16602116 TACACGTAGTTGCCTTCACATAGTACTACACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCC-TCACATAGTACTACACACGTGA-CAAACTTTCCGG
* * * * *
16602166 TTCACGTAGTAGCCTGCACATAGTACTACACATGTGACTAACGCCTTCTGG
1 TACACGTAGTAGCCT-CACATAGTACTACACACGTGAC-AA-ACTTTCCGG
* * * * * *
16602217 TACACATAGTAGCCTAACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTCACATAGTACTACACACGTGA-CA--AACTTTCCGG
*
16602267 TACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 TACACGTAGTAGCCT-CACATAGTACTACACACGTG
16602303 TTTATAGGCA
Statistics
Matches: 112, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 2 0.02
50 70 0.62
51 39 0.35
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (48 bp):
TACACGTAGTAGCCTCACATAGTACTACACACGTGACAAACTTTCCGG
Found at i:16604157 original size:18 final size:18
Alignment explanation
Indices: 16604134--16604171 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16604124 AAAAATCACT
16604134 TAATAA-AATACTTTTAAA
1 TAATAAGAATA-TTTTAAA
16604152 TAATAAGTAATATTTTAAA
1 TAATAAG-AATATTTTAAA
16604171 T
1 T
16604172 TTATAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TAATAAGAATATTTTAAA
Found at i:16607633 original size:41 final size:41
Alignment explanation
Indices: 16607572--16607650 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
16607562 ACAGACTTTA
* * *
16607572 AGCCTGCTAGACTTATAGTCTGAATTGTTTCACCAGCATTT
1 AGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCATTT
16607613 AGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCA
1 AGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCA
16607651 ATAAGTTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATGGTTTCACCAGCATTT
Found at i:16608380 original size:2 final size:2
Alignment explanation
Indices: 16608373--16608420 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
16608363 TTTGATACTC
* *
16608373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16608415 AT AT AT
1 AT AT AT
16608421 TCATTCGAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:16625876 original size:15 final size:14
Alignment explanation
Indices: 16625845--16625873 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16625835 ATTAGTGAAA
16625845 TATTAAAAATAAAT
1 TATTAAAAATAAAT
16625859 TATTAAAAATAAAT
1 TATTAAAAATAAAT
16625873 T
1 T
16625874 TATATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTAAAAATAAAT
Found at i:16634005 original size:19 final size:18
Alignment explanation
Indices: 16633972--16634007 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16633962 GTTAATAATT
16633972 TGAAAGTTTTAACTCGGA
1 TGAAAGTTTTAACTCGGA
*
16633990 TGAAATTTTGTAACTCGG
1 TGAAAGTTT-TAACTCGG
16634008 TTTAATACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (18 bp):
TGAAAGTTTTAACTCGGA
Found at i:16640067 original size:28 final size:29
Alignment explanation
Indices: 16640036--16640100 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
16640026 TTACTATTTC
* * *
16640036 TATATTTATACACGCATTTC-TTATATAG
1 TATATATATACACACATTTCTTTATATAA
* *
16640064 TATATATATATACATATTTCTTTATATAA
1 TATATATATACACACATTTCTTTATATAA
16640093 TATATATA
1 TATATATA
16640101 ACTTTTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (29 bp):
TATATATATACACACATTTCTTTATATAA
Found at i:16640216 original size:31 final size:31
Alignment explanation
Indices: 16640179--16640237 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
16640169 CTTCATATTT
16640179 TATATATACT-TATACATTTTAT-TTTTTAAAA
1 TATATAT-CTATATA-ATTTTATCTTTTTAAAA
16640210 TATATATCTATATAATTTTATCTTTTTA
1 TATATATCTATATAATTTTATCTTTTTA
16640238 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (31 bp):
TATATATCTATATAATTTTATCTTTTTAAAA
Found at i:16641934 original size:13 final size:13
Alignment explanation
Indices: 16641916--16641941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16641906 AAAGAGATTT
16641916 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
16641929 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
16641942 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:16642011 original size:19 final size:19
Alignment explanation
Indices: 16641971--16642012 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16641961 GTCTCTTGTC
* *
16641971 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
16641990 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
16642009 GCAT
1 GCAT
16642013 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:16644916 original size:8 final size:7
Alignment explanation
Indices: 16644881--16644915 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
16644871 AAAAGTGATG
16644881 TGAAAAA
1 TGAAAAA
16644888 TGAAAAGA
1 TGAAAA-A
16644896 TG-AAAA
1 TGAAAAA
16644902 TGAAAAA
1 TGAAAAA
16644909 TGAAAAA
1 TGAAAAA
16644916 AGTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 3 0.12
7 20 0.77
8 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:16645306 original size:13 final size:13
Alignment explanation
Indices: 16645288--16645312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16645278 TAAATCAATT
16645288 TCTTTGTTATCCA
1 TCTTTGTTATCCA
16645301 TCTTTGTTATCC
1 TCTTTGTTATCC
16645313 TCGACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:16646322 original size:89 final size:89
Alignment explanation
Indices: 16646171--16646796 Score: 1060
Period size: 89 Copynumber: 7.0 Consensus size: 89
16646161 AGTAAGCTAG
16646171 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT-ACTAGATCTTGTCT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC-AGATCTTGTCT
16646235 TCCCATACTGGTGGCGAAGTAGATC
65 TCCCATACTGGTGGCGAAGTAGATC
* * *
16646260 GAAGAAAACAGATCTTGTCTTCATATACTGACGTGAAGTAGATCAAAGATACCAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
*
16646325 CCCATACTGGTGGCGAAGTAGATT
66 CCCATACTGGTGGCGAAGTAGATC
*
16646349 GAAGAAAATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
16646414 CCCATACTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* *
16646438 GAAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATAACAAATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
16646503 CCCATACTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* *
16646527 GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AAGCAGGTCTTGTCT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA-CAGATCTTGTCT
16646591 TCCCATACTGGTGGCGAAGTAGATC
65 TCCCATACTGGTGGCGAAGTAGATC
* * *
16646616 GAAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGACAACAAATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
16646681 CCCATACTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGTAGATC
* * * *
16646705 GAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAACAGATCTTGTCTT
1 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
16646770 CCCATA-TCGGTGGCGAAGTAGATC
66 CCCATACT-GGTGGCGAAGTAGATC
16646794 GAA
1 GAA
16646797 AATACAAGTC
Statistics
Matches: 508, Mismatches: 25, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
88 3 0.01
89 502 0.99
90 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
CCCATACTGGTGGCGAAGTAGATC
Found at i:16657976 original size:33 final size:33
Alignment explanation
Indices: 16657939--16658002 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
16657929 CTTGTACTTA
16657939 AATAAATGTATTTAAAGTAGATGTATCTAGTTT
1 AATAAATGTATTTAAAGTAGATGTATCTAGTTT
*
16657972 AATAAATGTATTTAGAGTAGATGTATCTAGT
1 AATAAATGTATTTAAAGTAGATGTATCTAGT
16658003 AGTCATGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (33 bp):
AATAAATGTATTTAAAGTAGATGTATCTAGTTT
Found at i:16663915 original size:33 final size:33
Alignment explanation
Indices: 16663843--16663939 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 33
16663833 GAACTTGAGC
*
16663843 CAGGAGGAGTGGAGTACTACGGTGGATAC-GAGT
1 CAGGAGGAGTGGAGTACTGCGGTGGATACTG-GT
* *
16663876 CGGGAGGAGTGGAGTAATGCGGTGGATACTGG-
1 CAGGAGGAGTGGAGTACTGCGGTGGATACTGGT
**
16663908 CTAGGAGGAGTGTTGTACTGCGGTGG-TACTGG
1 C-AGGAGGAGTGGAGTACTGCGGTGGATACTGG
16663940 ACTGAAGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
32 7 0.13
33 47 0.85
34 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.45, T:0.22
Consensus pattern (33 bp):
CAGGAGGAGTGGAGTACTGCGGTGGATACTGGT
Found at i:16665503 original size:50 final size:50
Alignment explanation
Indices: 16665449--16665580 Score: 212
Period size: 49 Copynumber: 2.6 Consensus size: 50
16665439 AATAATAATA
*
16665449 ACATGCCAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACAT
1 ACATGCCAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACAC
*
16665499 ACATGACAAATAAATTACAT-AAAAAATAAATCTAATAAACCTAAAACAC
1 ACATGCCAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACAC
* *
16665548 ACATGACAAAATAAATTACATAAAAAAAAAAAT
1 ACATG-CCAAATAAATTACATAAAAAAATAAAT
16665581 AAAACATTCT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 33 0.44
50 32 0.43
51 10 0.13
ACGTcount: A:0.63, C:0.14, G:0.02, T:0.20
Consensus pattern (50 bp):
ACATGCCAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACAC
Found at i:16665524 original size:49 final size:49
Alignment explanation
Indices: 16665449--16665574 Score: 216
Period size: 50 Copynumber: 2.5 Consensus size: 49
16665439 AATAATAATA
* *
16665449 ACATGCCAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACAT
1 ACATGACAAATAAATTACAT-AAAAAATAAATCTAATAAACCTAAAACAC
16665499 ACATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
1 ACATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
16665548 ACATGACAAAATAAATTACATAAAAAA
1 ACATGAC-AAATAAATTACATAAAAAA
16665575 AAAAATAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
49 35 0.48
50 38 0.52
ACGTcount: A:0.62, C:0.15, G:0.02, T:0.21
Consensus pattern (49 bp):
ACATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
Found at i:16665536 original size:16 final size:17
Alignment explanation
Indices: 16665456--16665537 Score: 66
Period size: 16 Copynumber: 5.0 Consensus size: 17
16665446 ATAACATGCC
16665456 AAATAAAT-TACATAAAA
1 AAATAAATCTACAT-AAA
16665473 AAATAAATCTA-AT-AA
1 AAATAAATCTACATAAA
** * * *
16665488 ACCTAAAACATACATGAC
1 AAATAAATC-TACATAAA
16665506 AAATAAAT-TACATAAA
1 AAATAAATCTACATAAA
16665522 AAATAAATCTA-ATAAA
1 AAATAAATCTACATAAA
16665538 CCTAAAACAC
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
15 8 0.16
16 21 0.41
17 14 0.27
18 8 0.16
ACGTcount: A:0.65, C:0.11, G:0.01, T:0.23
Consensus pattern (17 bp):
AAATAAATCTACATAAA
Found at i:16665906 original size:31 final size:34
Alignment explanation
Indices: 16665839--16665924 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 34
16665829 AAATCCTTCT
* *
16665839 AACCCTAAATACAACCTCTTAATTAATTTTTTTCA
1 AACCCTAAACACAACCTCTTAATT-ATTTTTCTCA
16665874 AACCCTAAACACAACC-C-TAATT-TTTTTCTCA
1 AACCCTAAACACAACCTCTTAATTATTTTTCTCA
*
16665905 AATCCC-AAACACAACTTCTT
1 AA-CCCTAAACACAACCTCTT
16665925 CTCATTCCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
31 19 0.42
32 4 0.09
33 6 0.13
34 1 0.02
35 15 0.33
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (34 bp):
AACCCTAAACACAACCTCTTAATTATTTTTCTCA
Found at i:16666288 original size:11 final size:11
Alignment explanation
Indices: 16666273--16666305 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16666263 CACCTCAATG
16666273 TCAGCGGGTCGA
1 TCAGCGGGTC-A
16666285 -CAGCGGGTCA
1 TCAGCGGGTCA
16666295 TCAGCGGGTCA
1 TCAGCGGGTCA
16666306 GGTTTTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 19 0.95
ACGTcount: A:0.18, C:0.27, G:0.39, T:0.15
Consensus pattern (11 bp):
TCAGCGGGTCA
Found at i:16683243 original size:33 final size:33
Alignment explanation
Indices: 16683206--16683270 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
16683196 TATAAGAGTC
16683206 TAGCCTACAATGGAATACAATCTAAACCATACA
1 TAGCCTACAATGGAATACAATCTAAACCATACA
*
16683239 TAGCCTACAATGGAATACAATCTGAACCATAC
1 TAGCCTACAATGGAATACAATCTAAACCATAC
16683271 CCCAATGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.22
Consensus pattern (33 bp):
TAGCCTACAATGGAATACAATCTAAACCATACA
Found at i:16692935 original size:41 final size:41
Alignment explanation
Indices: 16692811--16692944 Score: 130
Period size: 40 Copynumber: 3.3 Consensus size: 41
16692801 ACTATGTTTA
* ** * * *
16692811 GCACTTAATGTGCGATTC-GAGATAGCTTCGTCTATTTCTG
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATATG
* * * *
16692851 GCACTTAGTGT--GTGATTGGGAATAGCTTTGGCTATATATG
1 GCACTTAGTGTGCGAGACTGAG-ATAGCTTCGGCTATATATG
* *
16692891 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATATG
16692932 GCACTTAGTGTGC
1 GCACTTAGTGTGC
16692945 AGGATTATAA
Statistics
Matches: 74, Mismatches: 16, Indels: 7
0.76 0.16 0.07
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 36 0.49
41 29 0.39
42 6 0.08
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATATG
Found at i:16693975 original size:50 final size:50
Alignment explanation
Indices: 16693869--16694111 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 50
16693859 GGGAATGAGA
* *
16693869 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-TA--AGAGG
* * *
16693925 TCACATGTAAGACCACGTCTGGGACATGGCGTTGGCACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
* * * *
16693975 TCTCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
*** * * * **
16694025 TCCCCCATAAGACCATGTCTAGGACATGGCA-TGGACACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATAAGAGG
* *
16694075 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16694112 GTTCAGGAAA
Statistics
Matches: 161, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.02
50 115 0.71
51 3 0.02
52 2 0.01
53 4 0.02
55 1 0.01
56 33 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
Found at i:16698785 original size:14 final size:14
Alignment explanation
Indices: 16698766--16698800 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16698756 GATATCACAG
16698766 TTGTATATATATAT
1 TTGTATATATATAT
*
16698780 TTGTATATGTATAT
1 TTGTATATATATAT
*
16698794 GTGTATA
1 TTGTATA
16698801 ATTAACATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (14 bp):
TTGTATATATATAT
Found at i:16707801 original size:41 final size:41
Alignment explanation
Indices: 16707756--16708004 Score: 293
Period size: 41 Copynumber: 6.1 Consensus size: 41
16707746 AGAAAAGTAT
* * * *
16707756 ATTCAGGGGTATCGTAGTACTAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTATCGAAGTACAAACAGGGGCACATAAGTGCA
16707797 ATTCAGGGGTA-CTGAAGTACAAACAGGGGCACATAAGTGCA
1 ATTCAGGGGTATC-GAAGTACAAACAGGGGCACATAAGTGCA
** * * *
16707838 ATTCAAAGGTACCGAAGTACAAAAAGGGGCACGTAAGTGCA
1 ATTCAGGGGTATCGAAGTACAAACAGGGGCACATAAGTGCA
* * * * *
16707879 ATTTAGGGGTACCAAAGTACAAATAGGGGCACATAAGTGTA
1 ATTCAGGGGTATCGAAGTACAAACAGGGGCACATAAGTGCA
* * * ** *
16707920 ATTCAAGGGTATCAAAGTACAAACAGGGGTATGTAAGTGTA
1 ATTCAGGGGTATCGAAGTACAAACAGGGGCACATAAGTGCA
*
16707961 ATTCAGGGGTATCGAAGTACAAACAAGGGCACATAAGTGCA
1 ATTCAGGGGTATCGAAGTACAAACAGGGGCACATAAGTGCA
16708002 ATT
1 ATT
16708005 GATCAATTTT
Statistics
Matches: 177, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 175 0.99
42 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (41 bp):
ATTCAGGGGTATCGAAGTACAAACAGGGGCACATAAGTGCA
Found at i:16707834 original size:20 final size:20
Alignment explanation
Indices: 16707771--16707916 Score: 53
Period size: 20 Copynumber: 7.2 Consensus size: 20
16707761 GGGGTATCGT
* *
16707771 AGTACTAACAGGGGCACGTA
1 AGTACAAACAGGGGCACATA
* * * *
16707791 TGTGCAATTCAGGGGTAC-TGA
1 AGTACAA-ACAGGGGCACAT-A
16707812 AGTACAAACAGGGGCACATA
1 AGTACAAACAGGGGCACATA
* * ** * **
16707832 AGTGCAATTCAAAGGTACCGA
1 AGTACAA-ACAGGGGCACATA
* *
16707853 AGTACAAAAAGGGGCACGTA
1 AGTACAAACAGGGGCACATA
* ** *
16707873 AGTGCAATTTAGGGGTACCA-A
1 AGTACAA-ACAGGGGCA-CATA
*
16707894 AGTACAAATAGGGGCACATA
1 AGTACAAACAGGGGCACATA
16707914 AGT
1 AGT
16707917 GTAATTCAAG
Statistics
Matches: 87, Mismatches: 32, Indels: 14
0.65 0.24 0.11
Matches are distributed among these distances:
19 2 0.02
20 43 0.49
21 41 0.47
22 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (20 bp):
AGTACAAACAGGGGCACATA
Found at i:16707937 original size:21 final size:21
Alignment explanation
Indices: 16707913--16707978 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
16707903 AGGGGCACAT
*
16707913 AAGTGTAATTCAAGGGTATCA
1 AAGTGTAATTCAGGGGTATCA
** * **
16707934 AAGTACAA-ACAGGGGTATGT
1 AAGTGTAATTCAGGGGTATCA
*
16707954 AAGTGTAATTCAGGGGTATCG
1 AAGTGTAATTCAGGGGTATCA
16707975 AAGT
1 AAGT
16707979 ACAAACAAGG
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (21 bp):
AAGTGTAATTCAGGGGTATCA
Found at i:16707989 original size:21 final size:20
Alignment explanation
Indices: 16707926--16707985 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
16707916 TGTAATTCAA
*
16707926 GGGTATCAAAGTACAAACAG
1 GGGTATCGAAGTACAAACAG
** *
16707946 GGGTAT-GTAAGTGTAATTCAG
1 GGGTATCG-AAGTACAA-ACAG
16707967 GGGTATCGAAGTACAAACA
1 GGGTATCGAAGTACAAACA
16707986 AGGGCACATA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 14 0.47
21 15 0.50
22 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (20 bp):
GGGTATCGAAGTACAAACAG
Found at i:16712312 original size:20 final size:20
Alignment explanation
Indices: 16712274--16712311 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16712264 CCTTAAAGTA
16712274 AAAATGAATGTCAAATTTTG
1 AAAATGAATGTCAAATTTTG
*
16712294 AAAATGTATGTC-AATTTT
1 AAAATGAATGTCAAATTTT
16712312 TATTTTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (20 bp):
AAAATGAATGTCAAATTTTG
Found at i:16715161 original size:25 final size:25
Alignment explanation
Indices: 16715125--16715202 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
16715115 TATATCCAAT
*
16715125 TTCATATAACATAATTCATACTATA
1 TTCATATCACATAATTCATACTATA
16715150 TTCATATCACAT-A-TCATA-TATCAA
1 TTCATATCACATAATTCATACTAT--A
* *
16715174 TT-ATATCACACTATTTTATACTATA
1 TTCATATCACA-TAATTCATACTATA
16715199 TTCA
1 TTCA
16715203 GTTCAGTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
22 3 0.07
23 13 0.30
24 5 0.12
25 14 0.33
26 5 0.12
27 3 0.07
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (25 bp):
TTCATATCACATAATTCATACTATA
Found at i:16716516 original size:11 final size:11
Alignment explanation
Indices: 16716497--16716538 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
16716487 AACAAATATG
*
16716497 AATAAATGTTA
1 AATATATGTTA
16716508 AATATATGTGTA
1 AATATATGT-TA
*
16716520 TATA-ATGTTA
1 AATATATGTTA
16716530 AATATATGT
1 AATATATGT
16716539 GTATATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 5 0.19
11 16 0.62
12 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (11 bp):
AATATATGTTA
Found at i:16716527 original size:22 final size:22
Alignment explanation
Indices: 16716501--16716552 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
16716491 AATATGAATA
16716501 AATGTTAAATATATGTGTATAT
1 AATGTTAAATATATGTGTATAT
16716523 AATGTTAAATATATGTGTATAT
1 AATGTTAAATATATGTGTATAT
*
16716545 AATTTTAA
1 AATGTTAA
16716553 GAGTACTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (22 bp):
AATGTTAAATATATGTGTATAT
Found at i:16722740 original size:3 final size:3
Alignment explanation
Indices: 16722734--16722799 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
16722724 TGTCCAACAA
16722734 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
16722782 CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT
16722800 TTATTGCCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:16725600 original size:20 final size:19
Alignment explanation
Indices: 16725575--16725635 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
16725565 TTTTATTTAT
16725575 ACTAAATTCACCAATATTAA
1 ACTAAATTC-CCAATATTAA
* * *
16725595 ACTAAATT-TC-AT-TCAT
1 ACTAAATTCCCAATATTAA
16725611 ACTAAATTCGCCAATATTAA
1 ACTAAATTC-CCAATATTAA
16725631 ACTAA
1 ACTAA
16725636 CATGTAGCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 10 0.32
17 2 0.06
18 2 0.06
19 2 0.06
20 15 0.48
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (19 bp):
ACTAAATTCCCAATATTAA
Found at i:16725613 original size:36 final size:36
Alignment explanation
Indices: 16725562--16725635 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
16725552 CATCCAAATC
* *
16725562 AAATTTTATTTATACTAAATTCACCAATATTAAACT
1 AAATTTCATTCATACTAAATTCACCAATATTAAACT
*
16725598 AAATTTCATTCATACTAAATTCGCCAATATTAAACT
1 AAATTTCATTCATACTAAATTCACCAATATTAAACT
16725634 AA
1 AA
16725636 CATGTAGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (36 bp):
AAATTTCATTCATACTAAATTCACCAATATTAAACT
Found at i:16725741 original size:6 final size:6
Alignment explanation
Indices: 16725730--16725766 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
16725720 TCAACCACAA
16725730 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT A
16725767 TATAAATGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:16726955 original size:17 final size:17
Alignment explanation
Indices: 16726933--16726982 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
16726923 TAGTCATAAG
*
16726933 CTTTCTCTTTTTCTTTT
1 CTTTCTTTTTTTCTTTT
16726950 CTTTCTTTATTTTC-TTT
1 CTTTCTTT-TTTTCTTTT
16726967 CTTTCTTTTCTTTCTT
1 CTTTCTTTT-TTTCTT
16726983 AATGTTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.03
17 22 0.76
18 6 0.21
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTCTTTTTTTCTTTT
Found at i:16726962 original size:13 final size:13
Alignment explanation
Indices: 16726946--16726982 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
16726936 TCTCTTTTTC
16726946 TTTTCTTTCTTTA
1 TTTTCTTTCTTTA
*
16726959 TTTTCTTTCTTTC
1 TTTTCTTTCTTTA
16726972 TTTTCTTTCTT
1 TTTTCTTTCTT
16726983 AATGTTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTTTCTTTA
Found at i:16727023 original size:16 final size:16
Alignment explanation
Indices: 16727004--16727044 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
16726994 GTATTGGTTC
*
16727004 TATTATTTATTACTAT
1 TATTATTTATCACTAT
* *
16727020 TATTTTTTATCATTAT
1 TATTATTTATCACTAT
16727036 TATTATTTA
1 TATTATTTA
16727045 AGTTAACATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATTTATCACTAT
Found at i:16728541 original size:43 final size:43
Alignment explanation
Indices: 16728494--16728599 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
16728484 CTGGCAATGC
* **
16728494 AGTGCATCATCAGATAAATCC-AAGTGAATATACTA-GCACACAT
1 AGTGCATCATCAGACAAA-CCGAAGCAAATATAC-AGGCACACAT
* * *
16728537 AGTGCATCATCGGACGAACCGAAGCAAATATACAGGCACATAT
1 AGTGCATCATCAGACAAACCGAAGCAAATATACAGGCACACAT
16728580 AGTGCATCATCTA-ACAAACC
1 AGTGCATCATC-AGACAAACC
16728600 AAAGTATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.06
43 49 0.94
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (43 bp):
AGTGCATCATCAGACAAACCGAAGCAAATATACAGGCACACAT
Found at i:16750448 original size:31 final size:31
Alignment explanation
Indices: 16750389--16750448 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
16750379 TAACCTAATA
* *
16750389 ACTTAAATAAAAACTTTTGAGTAGTTCAGTG
1 ACTTAAATAAAAACTTTTGAATAATTCAGTG
*
16750420 ACTTAAATGAAAA-TTTTGAAATAATTCAG
1 ACTTAAATAAAAACTTTTG-AATAATTCAG
16750449 CGAGCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTGAATAATTCAGTG
Found at i:16751462 original size:43 final size:43
Alignment explanation
Indices: 16751415--16751520 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
16751405 CTGGCAACGC
* **
16751415 AGTGCATCATCAGATAAATCC-AAGTGAATATACTA-GCACACAT
1 AGTGCATCATCAGACAAA-CCGAAGCAAATATAC-AGGCACACAT
* * *
16751458 AGTGCATCATCGGACGAACCGAAGCAAATATACAGGCACATAT
1 AGTGCATCATCAGACAAACCGAAGCAAATATACAGGCACACAT
16751501 AGTGCATCATCTA-ACAAACC
1 AGTGCATCATC-AGACAAACC
16751521 AAAGTATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.06
43 49 0.94
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (43 bp):
AGTGCATCATCAGACAAACCGAAGCAAATATACAGGCACACAT
Found at i:16756776 original size:28 final size:28
Alignment explanation
Indices: 16756736--16756789 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
16756726 TCGGATAAAA
*
16756736 CCGAAAAAATTCGGTTAACCGACCGATT
1 CCGAAAAAATTCGATTAACCGACCGATT
16756764 CCGAAAAAATTCGATTAACCGACCGA
1 CCGAAAAAATTCGATTAACCGACCGA
16756790 ATTAGGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.19
Consensus pattern (28 bp):
CCGAAAAAATTCGATTAACCGACCGATT
Found at i:16757145 original size:9 final size:8
Alignment explanation
Indices: 16757125--16757173 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 8
16757115 GTAGTGATTC
16757125 AATTCGGTT
1 AATTCGG-T
16757134 AATTCTGGT
1 AATTC-GGT
16757143 AATTCGGTT
1 AATTCGG-T
16757152 AATTCGGGT
1 AATTC-GGT
16757161 AATTCGGTT
1 AATTCGG-T
16757170 AATT
1 AATT
16757174 TTTGATCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.11
9 28 0.78
10 4 0.11
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.43
Consensus pattern (8 bp):
AATTCGGT
Found at i:16757148 original size:18 final size:18
Alignment explanation
Indices: 16757125--16757173 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
16757115 GTAGTGATTC
*
16757125 AATTCGGTTAATTCTGGT
1 AATTCGGTTAATTCGGGT
16757143 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
16757161 AATTCGGTTAATT
1 AATTCGGTTAATT
16757174 TTTGATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:16763162 original size:53 final size:53
Alignment explanation
Indices: 16763082--16763195 Score: 210
Period size: 53 Copynumber: 2.2 Consensus size: 53
16763072 TACCACCGCA
* *
16763082 CTTGTTTTTCAGAGTCTATTTTGATTTTTCTCTCTATCATCTCTTCATGGCAT
1 CTTGTTTTTCAGAGCCTATTTTGATTTTTCTCTCCATCATCTCTTCATGGCAT
16763135 CTTGTTTTTCAGAGCCTATTTTGATTTTTCTCTCCATCATCTCTTCATGGCAT
1 CTTGTTTTTCAGAGCCTATTTTGATTTTTCTCTCCATCATCTCTTCATGGCAT
16763188 CTTGTTTT
1 CTTGTTTT
16763196 GCTAGATTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.14, C:0.22, G:0.11, T:0.53
Consensus pattern (53 bp):
CTTGTTTTTCAGAGCCTATTTTGATTTTTCTCTCCATCATCTCTTCATGGCAT
Found at i:16765046 original size:21 final size:21
Alignment explanation
Indices: 16765020--16765075 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
16765010 AACAGCGGTG
*
16765020 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
16765041 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
**
16765062 GTAGTGAGATTAGA
1 GCGGTGAGATTAGA
16765076 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:16765297 original size:22 final size:22
Alignment explanation
Indices: 16765227--16765301 Score: 55
Period size: 22 Copynumber: 3.3 Consensus size: 22
16765217 ATATGTGAAT
* *
16765227 TTATAAATTAATTTAATAAAATA
1 TTATAAA-TATTTTAATAAATTA
**
16765250 TTA-AAATAAATCTTCTAATATTTTA
1 TTATAAAT--AT-TT-TAATAAATTA
16765275 TTATAAATATTTTAATAAATTA
1 TTATAAATATTTTAATAAATTA
16765297 -TATAA
1 TTATAA
16765302 TCAATTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
21 6 0.15
22 11 0.27
23 6 0.15
24 4 0.10
25 10 0.24
26 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATAAATATTTTAATAAATTA
Found at i:16779748 original size:27 final size:27
Alignment explanation
Indices: 16779710--16779770 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
16779700 AGAATTTGAG
16779710 AGCCAAGTTGGGAGTTTGCAGCATGCA
1 AGCCAAGTTGGGAGTTTGCAGCATGCA
16779737 AGCCAAGTTGGGAGTTTGCAGCATGCA
1 AGCCAAGTTGGGAGTTTGCAGCATGCA
16779764 AGCCAAG
1 AGCCAAG
16779771 GAGGAGTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (27 bp):
AGCCAAGTTGGGAGTTTGCAGCATGCA
Found at i:16783880 original size:22 final size:22
Alignment explanation
Indices: 16783855--16783900 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16783845 CACAAAAAAA
* *
16783855 AAAAAAATCAAGTATCAAATTG
1 AAAAAAATCAAGTACCAAAGTG
* *
16783877 AAAAAACTCATGTACCAAAGTG
1 AAAAAAATCAAGTACCAAAGTG
16783899 AA
1 AA
16783901 CATTGAGACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.20
Consensus pattern (22 bp):
AAAAAAATCAAGTACCAAAGTG
Found at i:16784009 original size:81 final size:82
Alignment explanation
Indices: 16783920--16784074 Score: 240
Period size: 82 Copynumber: 1.9 Consensus size: 82
16783910 CAAACTTAGG
* * *
16783920 TACCAAATTGGGA-GAAAAAAATGTAGGTATCAAATGACATCAACAATATACATAGTTGATCAAG
1 TACCAAATTGGGACCAAAAAAACGTAGGTACCAAATGACATCAACAATATACATAGTTGATCAAG
16783984 CATGATGCATTTCGAAA
66 CATGATGCATTTCGAAA
* * * *
16784001 TACCAAATTGGGACCAAAATAGCGTAGGTACCAAATGACATCAATAATATACATAGTTGTTCAAG
1 TACCAAATTGGGACCAAAAAAACGTAGGTACCAAATGACATCAACAATATACATAGTTGATCAAG
16784066 CATGATGCA
66 CATGATGCA
16784075 GTCCAAAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
81 13 0.20
82 53 0.80
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (82 bp):
TACCAAATTGGGACCAAAAAAACGTAGGTACCAAATGACATCAACAATATACATAGTTGATCAAG
CATGATGCATTTCGAAA
Found at i:16786641 original size:50 final size:50
Alignment explanation
Indices: 16786566--16786666 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
16786556 CAGACCAAGC
*
16786566 TGCACAAGTAGAATCCGTATAGAACTACTCTTCTTCTATTTGACATTGAT
1 TGCACAAGTAGAATCCGTATAGAACTACTCTCCTTCTATTTGACATTGAT
16786616 TGCACAAGTAGAATCCGTATAGAACTACTCTCCTTCTATTTGACATTGAT
1 TGCACAAGTAGAATCCGTATAGAACTACTCTCCTTCTATTTGACATTGAT
16786666 T
1 T
16786667 AGAATAAGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (50 bp):
TGCACAAGTAGAATCCGTATAGAACTACTCTCCTTCTATTTGACATTGAT
Found at i:16787929 original size:20 final size:21
Alignment explanation
Indices: 16787904--16787954 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
16787894 CCAACTTTGG
**
16787904 TATCGATACCCAT-ATACGAA
1 TATCGATACCCATGATAAAAA
*
16787924 TATCGATACTCATGATAAAAA
1 TATCGATACCCATGATAAAAA
16787945 TATCGATACC
1 TATCGATACC
16787955 TGCTTATTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (21 bp):
TATCGATACCCATGATAAAAA
Found at i:16790704 original size:25 final size:25
Alignment explanation
Indices: 16790675--16790722 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16790665 ATTTATTACT
16790675 TACAAATTTCTTTACACATCCAGTG
1 TACAAATTTCTTTACACATCCAGTG
16790700 TACAAATTTCTTTACACATCCAG
1 TACAAATTTCTTTACACATCCAG
16790723 CATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.35
Consensus pattern (25 bp):
TACAAATTTCTTTACACATCCAGTG
Found at i:16790747 original size:42 final size:44
Alignment explanation
Indices: 16790700--16790794 Score: 149
Period size: 42 Copynumber: 2.2 Consensus size: 44
16790690 ACATCCAGTG
*
16790700 TACAAATTTCTTTACACATCCAGCAT-A-TATAAATTTATTACT
1 TACAAATTTCTTTACACATCCAGCATAAGTAAAAATTTATTACT
**
16790742 TACAAATTTCTTTACACATCCAGTGTAAGTAAAAATTTATTACT
1 TACAAATTTCTTTACACATCCAGCATAAGTAAAAATTTATTACT
16790786 TACAAATTT
1 TACAAATTT
16790795 ATTACTTACA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 24 0.50
43 1 0.02
44 23 0.48
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (44 bp):
TACAAATTTCTTTACACATCCAGCATAAGTAAAAATTTATTACT
Found at i:16790794 original size:15 final size:15
Alignment explanation
Indices: 16790774--16790809 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
16790764 GTGTAAGTAA
16790774 AAATTTATTACTTAC
1 AAATTTATTACTTAC
16790789 AAATTTATTACTTAC
1 AAATTTATTACTTAC
16790804 AAATTT
1 AAATTT
16790810 CTTTACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTATTACTTAC
Found at i:16791041 original size:16 final size:16
Alignment explanation
Indices: 16790999--16791054 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
16790989 TTTTACTAAT
16790999 ATTATAA-TTTTCATC
1 ATTATAATTTTTCATC
16791014 ATTATAATTTTTTCATC
1 ATTATAA-TTTTTCATC
16791031 ATTATAATTTTTCATC
1 ATTATAATTTTTCATC
*
16791047 AATATAAT
1 ATTATAAT
16791055 ATCAAGGCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
15 7 0.18
16 16 0.42
17 15 0.39
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATAATTTTTCATC
Found at i:16793891 original size:17 final size:17
Alignment explanation
Indices: 16793869--16794005 Score: 69
Period size: 17 Copynumber: 7.4 Consensus size: 17
16793859 AATTCAAGAC
16793869 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* *
16793886 TTATGTAGTGTTAATTCAAGA
1 TTATGTAATGTT--TT-TA-A
16793907 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
16793925 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
16793944 CTTATGTAATAG-TTTTAA
1 -TTATGTAAT-GTTTTTAA
* * *
16793962 TTATGTAGTGATTTAAATAT
1 TTATGTAATG-TTT--TTAA
*
16793982 TTATGTAATGCTTTTAA
1 TTATGTAATGTTTTTAA
16793999 TTATGTA
1 TTATGTA
16794006 GTGATTTAAT
Statistics
Matches: 88, Mismatches: 19, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
16 1 0.01
17 37 0.42
18 7 0.08
19 8 0.09
20 22 0.25
21 2 0.02
22 11 0.12
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:16793912 original size:22 final size:22
Alignment explanation
Indices: 16793855--16793919 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
16793845 GTCAATTATG
16793855 TGTTAATTCAAGACTTATGTAA
1 TGTTAATTCAAGACTTATGTAA
* *
16793877 TGTT--TT-TA-A-TTATGTAG
1 TGTTAATTCAAGACTTATGTAA
16793894 TGTTAATTCAAGACTTATGTAA
1 TGTTAATTCAAGACTTATGTAA
16793916 TGTT
1 TGTT
16793920 TTTAATTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 11 0.32
18 1 0.03
19 3 0.09
20 3 0.09
21 1 0.03
22 15 0.44
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (22 bp):
TGTTAATTCAAGACTTATGTAA
Found at i:16793987 original size:20 final size:19
Alignment explanation
Indices: 16793922--16794015 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 19
16793912 GTAATGTTTT
*
16793922 TAATTATGTAGTGATTCAA
1 TAATTATGTAGTGATTTAA
*
16793941 -AGACTTATGTAAT-AGTTT--
1 TA-A-TTATGTAGTGA-TTTAA
16793959 TAATTATGTAGTGATTTAAA
1 TAATTATGTAGTGATTT-AA
* * *
16793979 TATTTATGTAATGCTTT--
1 TAATTATGTAGTGATTTAA
16793996 TAATTATGTAGTGATTTAA
1 TAATTATGTAGTGATTTAA
16794015 T
1 T
16794016 TCGGGTAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 20
0.66 0.11 0.24
Matches are distributed among these distances:
17 25 0.45
18 3 0.05
19 4 0.07
20 24 0.43
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (19 bp):
TAATTATGTAGTGATTTAA
Found at i:16794012 original size:37 final size:37
Alignment explanation
Indices: 16793864--16794014 Score: 214
Period size: 37 Copynumber: 4.0 Consensus size: 37
16793854 GTGTTAATTC
* *
16793864 AAGACTTATGTAATGTTTTTAATTATGTAGTGTTAATTC
1 AAGACTTATGTAATGTTTTTAATTATGTAGTG--ATTTA
*
16793903 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
16793940 AAGACTTATGTAATAG-TTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAAT-GTTTTTAATTATGTAGTGATTTA
* * *
16793977 AATATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
16794014 A
1 A
16794015 TTCGGGTAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.01
37 70 0.67
38 1 0.01
39 32 0.31
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:16794041 original size:9 final size:9
Alignment explanation
Indices: 16794012--16794110 Score: 135
Period size: 9 Copynumber: 10.6 Consensus size: 9
16794002 TGTAGTGATT
16794012 TAATTCGGG
1 TAATTCGGG
*
16794021 TAATTTTTGGG
1 TAA--TTCGGG
16794032 TAATTCGGG
1 TAATTCGGG
*
16794041 TAATTTGGG
1 TAATTCGGG
16794050 TAATTTTCGGG
1 TAA--TTCGGG
16794061 TAATTCGGG
1 TAATTCGGG
16794070 TAATTCGGG
1 TAATTCGGG
*
16794079 TAAGTCGGG
1 TAATTCGGG
16794088 TAATTCGGG
1 TAATTCGGG
16794097 TAATTCGGG
1 TAATTCGGG
16794106 TAATT
1 TAATT
16794111 TTTAACCAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
9 64 0.80
11 16 0.20
ACGTcount: A:0.22, C:0.08, G:0.31, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:16794054 original size:29 final size:29
Alignment explanation
Indices: 16794012--16794112 Score: 161
Period size: 29 Copynumber: 3.6 Consensus size: 29
16794002 TGTAGTGATT
*
16794012 TAATTCGGGTAATTTTTGGGTAATTCGGG
1 TAATTCGGGTAATTTTCGGGTAATTCGGG
*
16794041 TAATTTGGGTAATTTTCGGGTAATTCGGG
1 TAATTCGGGTAATTTTCGGGTAATTCGGG
*
16794070 TAATTCGGGTAA--GTCGGGTAATTCGGG
1 TAATTCGGGTAATTTTCGGGTAATTCGGG
16794097 TAATTCGGGTAATTTT
1 TAATTCGGGTAATTTT
16794113 TAACCAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 26 0.40
29 39 0.60
ACGTcount: A:0.22, C:0.08, G:0.31, T:0.40
Consensus pattern (29 bp):
TAATTCGGGTAATTTTCGGGTAATTCGGG
Found at i:16795944 original size:40 final size:40
Alignment explanation
Indices: 16795889--16796006 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
16795879 GCGTTTGGAA
*
16795889 CAAAAGCGCCACTAAAAATCGAGAATTAGCGGCGTTTTTGC
1 CAAAAGCGCCGCTAAAAATCGAGAATTAGCGGCGTTTTT-C
* * * * *
16795930 C-GAAGCGCCGCTAAAGATCGAGCATCAGCGGCGTATTTC
1 CAAAAGCGCCGCTAAAAATCGAGAATTAGCGGCGTTTTTC
*
16795969 CAAAAGCGCCGCTAAAAA-C-AGGAATTAGCGGTGTTTTT
1 CAAAAGCGCCGCTAAAAATCGA-GAATTAGCGGCGTTTTT
16796007 TATAAAGCGC
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.02
39 16 0.25
40 45 0.71
41 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (40 bp):
CAAAAGCGCCGCTAAAAATCGAGAATTAGCGGCGTTTTTC
Done.