Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 66 of 187
Found at i:19567388 original size:35 final size:35
Alignment explanation
Indices: 19567332--19567418 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
19567322 TTATCTACTG
19567332 GTCCTTCAAGGCAACACCGTGTAAATGATATATAA
1 GTCCTTCAAGGCAACACCGTGTAAATGATATATAA
* * * *
19567367 GTCCTTCAGGGTAACATCGTGTAAATGGTATATAA
1 GTCCTTCAAGGCAACACCGTGTAAATGATATATAA
* * *
19567402 GTCATTTAGGGCAACAC
1 GTCCTTCAAGGCAACAC
19567419 ATGTAAACAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (35 bp):
GTCCTTCAAGGCAACACCGTGTAAATGATATATAA
Found at i:19582904 original size:25 final size:24
Alignment explanation
Indices: 19582874--19582922 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19582864 TTTTTTTTGA
*
19582874 AAATTTTATAATCTTTTAAAAATAT
1 AAATTTTAGAAT-TTTTAAAAATAT
* *
19582899 AAATTTTGGAATTTTTATAAATAT
1 AAATTTTAGAATTTTTAAAAATAT
19582923 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATTTTAGAATTTTTAAAAATAT
Found at i:19582952 original size:20 final size:20
Alignment explanation
Indices: 19582923--19582971 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
19582913 TTATAAATAT
*
19582923 TTTAAA-TTTT-AAATTTAAA
1 TTTAAATTTTTGAAAATT-AA
19582942 TTTAAATTTTTGAAAATTAA
1 TTTAAATTTTTGAAAATTAA
19582962 TTT-AATTTTT
1 TTTAAATTTTT
19582972 TTGTATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 13 0.48
20 9 0.33
21 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAATTTTTGAAAATTAA
Found at i:19585939 original size:28 final size:28
Alignment explanation
Indices: 19585908--19585964 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19585898 AATGTGTAAA
19585908 TCCTTAGGAAGTCATGCACATCTCCAAG
1 TCCTTAGGAAGTCATGCACATCTCCAAG
19585936 TCCTTAGGAAGTCATGCACATCTCCAAG
1 TCCTTAGGAAGTCATGCACATCTCCAAG
19585964 T
1 T
19585965 GTGTTTTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (28 bp):
TCCTTAGGAAGTCATGCACATCTCCAAG
Found at i:19591767 original size:14 final size:14
Alignment explanation
Indices: 19591748--19591818 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 14
19591738 GTTCAGATTC
19591748 AATAAAAAAATCAA
1 AATAAAAAAATCAA
*
19591762 AATAAAAAAATCGA
1 AATAAAAAAATCAA
*
19591776 AATCAAAAAAT-AA
1 AATAAAAAAATCAA
*
19591789 AAAAAATGATTGAAATCAA
1 AATAAA--A---AAATCAA
19591808 AATAAAAAAAT
1 AATAAAAAAAT
19591819 GATGAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.11
14 27 0.60
15 1 0.02
17 1 0.02
18 4 0.09
19 7 0.16
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:19591832 original size:23 final size:22
Alignment explanation
Indices: 19591755--19591838 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
19591745 TTCAATAAAA
* *
19591755 AAATCAAAATAAAAAAAT--CG
1 AAATAAAAATAAAAAAATGATG
19591775 AAATCAAAAAATAAAAAAAATGATTG
1 AAAT--AAAAAT-AAAAAAATGA-TG
*
19591801 AAATCAAAATAAAAAAATGATG
1 AAATAAAAATAAAAAAATGATG
*
19591823 AAATGAAAAAGAAAAA
1 AAAT-AAAAATAAAAA
19591839 GAAAAGAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
20 4 0.08
22 11 0.21
23 27 0.52
24 5 0.10
26 5 0.10
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.15
Consensus pattern (22 bp):
AAATAAAAATAAAAAAATGATG
Found at i:19591838 original size:22 final size:23
Alignment explanation
Indices: 19591755--19591831 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
19591745 TTCAATAAAA
*
19591755 AAATCAAAAT-AAAAAA--ATCG
1 AAATCAAAATAAAAAAATGATTG
19591775 AAATCAAAAAATAAAAAAAATGATTG
1 AAATC--AAAAT-AAAAAAATGATTG
19591801 AAATCAAAATAAAAAAATGA-TG
1 AAATCAAAATAAAAAAATGATTG
*
19591823 AAATGAAAA
1 AAATCAAAA
19591832 AGAAAAAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
20 5 0.10
22 15 0.31
23 10 0.20
24 11 0.22
26 8 0.16
ACGTcount: A:0.70, C:0.05, G:0.08, T:0.17
Consensus pattern (23 bp):
AAATCAAAATAAAAAAATGATTG
Found at i:19594004 original size:131 final size:131
Alignment explanation
Indices: 19593846--19594450 Score: 928
Period size: 131 Copynumber: 4.6 Consensus size: 131
19593836 CGACGACCCT
* * *
19593846 AGTCCTATCTCCCTGGTCAGCACTGGAATGGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
19593911 AGTGGAGCAAATCAAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAATCAGATTTAAGCCGC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
19593976 A
131 A
* *
19593977 AGTCCTATCTCCGTGGTCAACAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *** * * *
19594042 AGTGGAGCAGATTGAAGACGGCGAATCTTATCTTCCCTGGGAGTAGAGAACCAGATTTAAGTCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
19594107 A
131 A
* * *
19594108 AGTCCTATCTCCCTGGTCAACAGTAGAATAGGTTAGAAATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
19594173 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCCAGGAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
19594238 A
131 A
* * *
19594239 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTATAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
19594304 AGTGGAGTAGATCGAAGACGGCGAATCGTATCTTCCCCAAGAGTAGGG-AGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
19594368 TA
131 -A
*
19594370 A-TCCTATCTCCCTGGTCAGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAA-ATTACAGATCTTATCTCCCTAAGCAG
19594433 TAGTGGAGCAGATCGAAG
65 TAGTGGAGCAGATCGAAG
19594451 TCCCCAGCCT
Statistics
Matches: 433, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
129 3 0.01
130 88 0.20
131 342 0.79
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATTTAAGCCAC
A
Found at i:19594070 original size:44 final size:42
Alignment explanation
Indices: 19594022--19594450 Score: 147
Period size: 44 Copynumber: 9.9 Consensus size: 42
19594012 GAAATTACAG
*
19594022 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
1 ATCTTATCTCCCT-AGCAGTAGTGGAGCAGATTGAAGACGAC-A
* * * * * * *
19594066 ATCTTATCTTCCCTGGGAGTAGAGAACCAGATTTAAGTC-ACA
1 ATCTTATC-TCCCTAGCAGTAGTGGAGCAGATTGAAGACGACA
* * ** * ** * ***
19594108 AGTCCTATCTCCCTGGTCAACAGTAGAATAGGTTAGAA-ATTTCA
1 A-TCTTATCTCCCTAG-CAGTAGTGGAGCAGATT-GAAGACGACA
* *
19594152 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCT-AGCAGTAGTGGAGCAGATTGAAGACGAC-A
* * *
19594197 ATCTTATCTTTCCC-AGGAGTAG-GGAAGCAGATTTAAG-CCACA
1 ATCTTATC--TCCCTAGCAGTAGTGG-AGCAGATTGAAGACGACA
* * * ** * ** *
19594239 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGGAA-ATTATA
1 A-TCTTATCTCCCTAG-CAGTAGTGGAGCAGATT-GAAGACGACA
* * *
19594283 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA
1 -ATCTTATCTCCCT-AGCAGTAGTGGAGCAGATTGAAGACGAC-A
* * * *
19594328 ATCGTATCTTCCCCAAG-AGTAG-GGAGCAGATTTAAG-CCACTA
1 ATCTTATC-T-CCCTAGCAGTAGTGGAGCAGATTGAAGACGAC-A
* * * ** **
19594370 ATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTACA
1 ATCTTATCTCCCTAG-CAGTAGTGGAGCAGATTGAAGACGACA
*
19594413 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 -ATCTTATCTCCCT-AGCAGTAGTGGAGCAGATTGAAG
19594451 TCCCCAGCCT
Statistics
Matches: 272, Mismatches: 83, Indels: 60
0.66 0.20 0.14
Matches are distributed among these distances:
40 4 0.01
41 5 0.02
42 26 0.10
43 63 0.23
44 152 0.56
45 15 0.06
46 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (42 bp):
ATCTTATCTCCCTAGCAGTAGTGGAGCAGATTGAAGACGACA
Found at i:19594524 original size:90 final size:91
Alignment explanation
Indices: 19594407--19594585 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 91
19594397 TAGATTGAAG
** ** *
19594407 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTC-CCCAGCCTTGTCTCCCTG
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAAACGCCCAGCCTTGTCTCCCTA
19594471 AGCAGCAGTGGAGTAGGTTAAAAAAA
66 AGCAGCAGTGGAGTAGGTTAAAAAAA
* *
19594497 ATTACAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATAAAAAACGCTCAGCCTTGTCTCCCTA
1 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAAACGCCCAGCCTTGTCTCCCTA
***
19594562 AGCAGTTTTGGAGTAGGTTAAAAA
66 AGCAGCAGTGGAGTAGGTTAAAAA
19594586 TTACGAATCT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 41 0.53
91 37 0.47
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (91 bp):
ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAAAACGCCCAGCCTTGTCTCCCTA
AGCAGCAGTGGAGTAGGTTAAAAAAA
Found at i:19594562 original size:44 final size:43
Alignment explanation
Indices: 19594420--19594567 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 43
19594410 ACAGATCTTA
** ** *
19594420 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATAAAAAACCTCAGCCTTG
* * * * ** * *
19594463 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCA-GAT-AAAAAACCT-CAG-CCTTG
*
19594510 TCTTCCTAAGCAGTAGTGGAGCAGATAAAAAACGCTCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATAAAAAAC-CTCAGCCTTG
19594554 TCTCCCTAAGCAGT
1 TCTCCCTAAGCAGT
19594568 TTTGGAGTAG
Statistics
Matches: 77, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
43 20 0.26
44 18 0.23
45 11 0.14
46 6 0.08
47 22 0.29
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATAAAAAACCTCAGCCTTG
Found at i:19594585 original size:44 final size:45
Alignment explanation
Indices: 19594455--19594585 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 45
19594445 TCGAAGTCCC
* * *
19594455 CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAAAAATTA
1 CAGCCTTGTCTCCCTAAGCAGTAGTGGAGTAGGTT-AAAAAAACTA
* * * * * *
19594501 CAGATCTTATCTTCCTAAGCAGTAGTGGAGCA-GATAAAAAACGCT-
1 CAG-CCTTGTCTCCCTAAGCAGTAGTGGAGTAGGTTAAAAAA-ACTA
**
19594546 CAGCCTTGTCTCCCTAAGCAGTTTTGGAGTAGGTTAAAAA
1 CAGCCTTGTCTCCCTAAGCAGTAGTGGAGTAGGTTAAAAA
19594586 TTACGAATCT
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
44 22 0.33
45 16 0.24
46 6 0.09
47 22 0.33
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (45 bp):
CAGCCTTGTCTCCCTAAGCAGTAGTGGAGTAGGTTAAAAAAACTA
Found at i:19594730 original size:97 final size:97
Alignment explanation
Indices: 19594589--19595157 Score: 861
Period size: 97 Copynumber: 5.8 Consensus size: 97
19594579 TTAAAAATTA
* * * * *
19594589 CGAATCTTACTTCTCAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGACGAATCTTGCTTCCT
1 CGAATCTTATTTC-CTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCC
*
19594654 CGACATTGCAGTTAAAGATTAAAGCTAAAACAG
65 CGACATTGCAGTTAAAGATTAAAGCTACAACAG
* *
19594687 CGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCC
1 CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
* *
19594752 GACATTGCAGTTAAAGATTAAAGCCACAACGG
66 GACATTGCAGTTAAAGATTAAAGCTACAACAG
* *
19594784 CGAATCTTACTTCCCTGGCGGTGCAGTGGAACTA-ATTAAAGCCACAACGGCGAATCTTGCTTCC
1 CGAATCTTA-TTTCCTGGCAGTGCAGTGGAAC-AGATTAAAGCCACAACGGCGAATCTTGCTTCC
* *
19594848 TCGACATTGCAGTTAAAGATTAAAGCCACAACAG
64 CCGACATTGCAGTTAAAGATTAAAGCTACAACAG
* *
19594882 CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGTCACAACGACGAATCTTGCTTCCCC
1 CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
*
19594947 GACATTACAGTTAAAGATTAAAGCTACAACAG
66 GACATTGCAGTTAAAGATTAAAGCTACAACAG
19594979 CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
1 CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
*
19595044 GACATTGCAGTTAAAAATATTAAAGCTACAACAG
66 GACATTGCAGTT--AAAGATTAAAGCTACAACAG
* * * * * * *
19595078 CGAATATTATTTCTTGGCAATGCAGTGGAACAGATTAAAGCTACGACGGTGAATCTTGTTTCCCC
1 CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
19595143 GACATTGCAGTTAAA
66 GACATTGCAGTTAAA
19595158 CAGATTGAAG
Statistics
Matches: 432, Mismatches: 34, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
96 1 0.00
97 240 0.56
98 101 0.23
99 90 0.21
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (97 bp):
CGAATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCC
GACATTGCAGTTAAAGATTAAAGCTACAACAG
Found at i:19594921 original size:195 final size:196
Alignment explanation
Indices: 19594589--19595157 Score: 885
Period size: 195 Copynumber: 2.9 Consensus size: 196
19594579 TTAAAAATTA
* * *
19594589 CGAATCTTACTTCTCAGGCAGTGCAGTGGAA-TAGATTAAAGCCACAACGACGAATCTTGCTTCC
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAACTAGATTAAAGCCACAACGGCGAATCTTGCTTCC
* *
19594653 TCGACATTGCAGTTAAAGATTAAAGCTAAAACAGCGAATCTTATTTCCTGGAAGTGCAGTGGAAC
66 TCGACATTGCAGTTAAAGATTAAAGCTACAACAGCGAATCTTATTTCCTGGCAGTGCAGTGGAAC
* *
19594718 AGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAACG
131 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAACA
19594783 G
196 G
*
19594784 CGAATCTTACTTCCCTGGCGGTGCAGTGGAACTA-ATTAAAGCCACAACGGCGAATCTTGCTTCC
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAACTAGATTAAAGCCACAACGGCGAATCTTGCTTCC
*
19594848 TCGACATTGCAGTTAAAGATTAAAGCCACAACAGCGAATCTTATTTCCTGGCAGTGCAGTGGAAC
66 TCGACATTGCAGTTAAAGATTAAAGCTACAACAGCGAATCTTATTTCCTGGCAGTGCAGTGGAAC
* * * *
19594913 AGATTAAAGTCACAACGACGAATCTTGCTTCCCCGACATTACAGTTAAAGATTAAAGCTACAACA
131 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAACA
19594978 G
196 G
*
19594979 CGAATCTTA-TTTCCTGGCAGTGCAGTGGAAC-AGATTAAAGCCACAACGGCGAATCTTGCTTCC
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAACTAGATTAAAGCCACAACGGCGAATCTTGCTTCC
* * * * *
19595042 CCGACATTGCAGTTAAAAATATTAAAGCTACAACAGCGAATATTATTTCTTGGCAATGCAGTGGA
66 TCGACATTGCAGTT--AAAGATTAAAGCTACAACAGCGAATCTTATTTCCTGGCAGTGCAGTGGA
* * * *
19595107 ACAGATTAAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTAAA
129 ACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAA
19595158 CAGATTGAAG
Statistics
Matches: 342, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
193 1 0.00
194 63 0.18
195 188 0.55
196 90 0.26
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (196 bp):
CGAATCTTACTTCCCTGGCAGTGCAGTGGAACTAGATTAAAGCCACAACGGCGAATCTTGCTTCC
TCGACATTGCAGTTAAAGATTAAAGCTACAACAGCGAATCTTATTTCCTGGCAGTGCAGTGGAAC
AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAGATTAAAGCCACAACA
G
Found at i:19600980 original size:50 final size:49
Alignment explanation
Indices: 19600905--19601072 Score: 158
Period size: 50 Copynumber: 3.3 Consensus size: 49
19600895 TGTGATGTCA
* *
19600905 GGGAAGCAAGATTCGCGGTTGTGGCTTCAATCTATTCCACTGCACTGCTT
1 GGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTATTCCACTGCACTG-TT
* ** * * *
19600955 GGGAAGTAAGATTCGCTGTTGTGGCTTCAATCATTTTTAATTGCAATGTC
1 GGGAAGTAAGATTCGCTGTTGTGGCTTCAATC-TATTCCACTGCACTGTT
* * ** *
19601005 GGGAAAGCT-AGATTCACTGTTGTAGCTTCAATCTGCTCCACTACACTGTT
1 GGG-AAG-TAAGATTCGCTGTTGTGGCTTCAATCTATTCCACTGCACTGTT
*
19601055 AGGGAAGTAAAATTCGCT
1 -GGGAAGTAAGATTCGCT
19601073 ATTCTTAGTC
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
49 1 0.01
50 53 0.57
51 38 0.41
52 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (49 bp):
GGGAAGTAAGATTCGCTGTTGTGGCTTCAATCTATTCCACTGCACTGTT
Found at i:19601224 original size:36 final size:37
Alignment explanation
Indices: 19601127--19601233 Score: 90
Period size: 36 Copynumber: 2.8 Consensus size: 37
19601117 TTCTCAGTCT
*
19601127 GCTCCGCTGCAACCTCAGGGAGATAAGACCTGACGCGATCC
1 GCTCCGCTGCAACCTCAGGGAGATAAGA-TTGA--C-ATCC
* ** * * *
19601168 ACTCTACTGCAACTTTAGGGAGATAAGATTTA-ATCC
1 GCTCCGCTGCAACCTCAGGGAGATAAGATTGACATCC
* *
19601204 GCTCCGCTGCAACCTCAGGGAAATAGGATT
1 GCTCCGCTGCAACCTCAGGGAGATAAGATT
19601234 AATGGCTTCA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
36 27 0.52
40 2 0.04
41 23 0.44
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (37 bp):
GCTCCGCTGCAACCTCAGGGAGATAAGATTGACATCC
Found at i:19601301 original size:44 final size:42
Alignment explanation
Indices: 19601244--19601492 Score: 200
Period size: 44 Copynumber: 5.8 Consensus size: 42
19601234 AATGGCTTCA
* *
19601244 ATCTACTCTACTGCAACCTT-AGGGAGATAAGATCTACGATTTT
1 ATCTACTCCACTGCAA-CTTCAGAGAGATAAGATCTA-GATTTT
* * * * *
19601287 AGTCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGGTTCTTTT
1 A-TCTACTCCACTGCAACTTCAGAGAGATAAGATCT-AG--ATTTT
* * ***
19601332 GTCTTCTCCACTGCAACTTCAGAGAGATAAGA-CTAGATGCG
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTAGATTTT
* ***
19601373 ATCTACTCTACTGCAACTTCAGAGAGATAAGA-CTAGATGCG
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTAGATTTT
* *
19601414 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTT
1 ATCTACTCCACTGCAACTTCAGAGAGATAAGATCT-AGATTTT
*** *
19601457 AATCCGTTCCACTGCAACTTCAGGGAGATAAGATCT
1 -ATCTACTCCACTGCAACTTCAGAGAGATAAGATCT
19601493 GTAATTTTCA
Statistics
Matches: 171, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
41 71 0.42
42 2 0.01
43 10 0.06
44 84 0.49
45 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
ATCTACTCCACTGCAACTTCAGAGAGATAAGATCTAGATTTT
Found at i:19601397 original size:41 final size:41
Alignment explanation
Indices: 19601341--19601445 Score: 210
Period size: 41 Copynumber: 2.6 Consensus size: 41
19601331 TGTCTTCTCC
19601341 ACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCT
19601382 ACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCT
19601423 ACTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
19601446 TCTGTGATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (41 bp):
ACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCT
Found at i:19601524 original size:44 final size:44
Alignment explanation
Indices: 19601476--19601585 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 44
19601466 CACTGCAACT
19601476 TCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGC
1 TCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGC
* * ** * * * *
19601520 TCAGGGAGACAAG-GCTAGGGA-CTTCGATCTGCTCCACTACTGC
1 TCAGGGAGATAAGATCT-GTAATTTTCAACCTACTCCACTACTGC
*
19601563 TTAGGGAGATAAGATCTGTAATT
1 TCAGGGAGATAAGATCTGTAATT
19601586 CTTCGGTCTA
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
43 33 0.67
44 16 0.33
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
TCAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGC
Found at i:19601758 original size:44 final size:44
Alignment explanation
Indices: 19601705--19601829 Score: 162
Period size: 44 Copynumber: 2.8 Consensus size: 44
19601695 GGATTACTGG
* * *
19601705 CTTCAATCTGCTCCACTACTAG-TTACGGAGATAAGATCTACCAT
1 CTTCGATCTGCTCCACTACT-GCTTAAGGAAATAAGATCTACCAT
* * *
19601749 CTTCGATCTGCTCCACTATTGCTTAGGGAAATAAGATCTGCCAT
1 CTTCGATCTGCTCCACTACTGCTTAAGGAAATAAGATCTACCAT
* *
19601793 CTTCGATCTACTCCACTACTGCTTAAGGATATAAGAT
1 CTTCGATCTGCTCCACTACTGCTTAAGGAAATAAGAT
19601830 TTGTAATTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 1 0.01
44 70 0.99
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
CTTCGATCTGCTCCACTACTGCTTAAGGAAATAAGATCTACCAT
Found at i:19601956 original size:44 final size:44
Alignment explanation
Indices: 19601705--19602135 Score: 155
Period size: 44 Copynumber: 9.8 Consensus size: 44
19601695 GGATTACTGG
* * *
19601705 CTTCAATCTGCTCCACTACTAG-TTACGGAGATAAGA-TCTACCAT
1 CTTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATTC-GCCAT
* *
19601749 CTTCGATCTGCTCCACTATTGCTTAGGGAAATAAGA-TCTGCCAT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCAT
* * * * **
19601793 CTTCGATCTACTCCACTACTGCTTAAGGATATAAGATTTGTAAT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCAT
* * * * * * * * * ***
19601837 TTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGGTTTG-TGG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCAT
** *** *
19601880 CTTAAATCTGCTTCC-CTACT-CAGGGGGAAGATAAGATTCGCCGT
1 CTTCGATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTCGCCAT
* * * **
19601924 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAATATTTGTAAT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCAT
* * * * * * * * *
19601968 TTTCAACCTACTCCATTGCTGCTTAGGGAGATAAG-GTCTACAAT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCAT
* * ** * * * * * ***
19602012 CTTCAACCTATTCCCCTGCT-ATCTAGGGAGATAAGACTAG-TGG
1 CTTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATTCGCCAT
** * * * *
19602055 CTTAAATCTGCTTCC-TTACT-CCTAGAGAAGATAAGATTCGCCGT
1 CTTCGATCTGC-TCCACTACTGCTTAG-GGAGATAAGATTCGCCAT
19602099 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
19602136 CTGAAATCTT
Statistics
Matches: 284, Mismatches: 88, Indels: 30
0.71 0.22 0.07
Matches are distributed among these distances:
42 7 0.02
43 50 0.18
44 217 0.76
45 10 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (44 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCAT
Found at i:19601981 original size:175 final size:173
Alignment explanation
Indices: 19601748--19602338 Score: 763
Period size: 175 Copynumber: 3.4 Consensus size: 173
19601738 AGATCTACCA
* * ** * * * *
19601748 TCTTCGATCTGCTCCACTATTGCTTAGGGAAATAAGATCTGCCATCTTCGATCTACTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCT
* * * * ** * * * * ** *
19601813 GCTTAAGGATATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGGTTTGT
66 GCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCCCTGCTG-TCAGGGAGATAAGACTAGT
*
19601878 GGCTTAAATCTGCTTCCCTACTCAGGGGGAAGATAAGATTCGCCG
130 GGCTTAAATCTGCTTCCCTACTC-TGGGGAAGATAAGATTCGCCG
* * * *
19601923 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAATATTTGTAATTTTCAACCTACTCCATTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCT
*
19601988 GCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCCCTGCTATCTAGGGAGATAAGACTAGT
66 GCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCCCTGCTGTC-AGGGAGATAAGACTAGT
* * *
19602053 GGCTTAAATCTGCTTCCTTACTCCTAGAGAAGATAAGATTCGCCG
130 GGCTTAAATCTGCTTCCCTACT-CTGGGGAAGATAAGATTCGCCG
*
19602098 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTT-AACCTACTCCACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTTCAACCTACTCCACTGC
* *
19602162 TGCTCAGGGAGATAAGGTCTACAATCCTCAACCTATTCCCCTGCTGTCCAGGGAGATAAGACTAG
65 TGCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCCCTGCTGT-CAGGGAGATAAGACTAG
*
19602227 TGGCTTAAATCTGCTTCCCTACTTCTGGGGAAGATAAGATTCCCCG
129 TGGCTTAAATCTGCTTCCCTAC-TCTGGGGAAGATAAGATTCGCCG
* * *
19602273 TCTTCGATCTGTTCTACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCTAACCTATTCCACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AACCTACTCCACTGC
19602337 TG
65 TG
19602339 ACCAGGGAGA
Statistics
Matches: 363, Mismatches: 46, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
173 3 0.01
174 2 0.01
175 352 0.97
176 6 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (173 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCT
GCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCCCTGCTGTCAGGGAGATAAGACTAGTG
GCTTAAATCTGCTTCCCTACTCTGGGGAAGATAAGATTCGCCG
Found at i:19602026 original size:131 final size:130
Alignment explanation
Indices: 19601774--19602026 Score: 312
Period size: 131 Copynumber: 1.9 Consensus size: 130
19601764 CTATTGCTTA
*
19601774 GGGAAATAAGATCTGCCATCTTCGATCTACTCCACTACTGCTTAAGGATATAAGATTTGTAATTT
1 GGGAAATAAGATCTGCCATCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATTTGTAATTT
* **** * *
19601839 TCAACCTACTCCACTGCTGCTCAGGGAGATAGGGTTTGTGGCTTAAATCTGCTTCCCTACTCAGG
66 TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTACAAGCTTAAACCTGATTCCCTACTCAGG
* * * * *
19601904 GGGAAGATAAGAT-TCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAATATTTGTAAT
1 GGGAA-ATAAGATCT-GCCATCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATTTGTAAT
* * * *
19601968 TTTCAACCTACTCCATTGCTGCTTAGGGAGATAAGGTCTACAATCTTCAACCT-ATTCCC
64 TTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGT-TACAAGCTTAAACCTGATTCCC
19602027 CTGCTATCTA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
130 6 0.06
131 89 0.86
132 8 0.08
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (130 bp):
GGGAAATAAGATCTGCCATCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATTTGTAATTT
TCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTACAAGCTTAAACCTGATTCCCTACTCAGG
Found at i:19602195 original size:44 final size:44
Alignment explanation
Indices: 19602109--19602222 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
19602099 CTTCGATCTG
* * * *
19602109 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTTAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTGAAATCCTCAACCTA
*
19602153 CTCCACTGCTGCTCAGGGAGATAAGGTCT-ACAATCCTCAACCTA
1 CTCCACTGCTGCTCAGGGAGATAAGATCTGA-AATCCTCAACCTA
* *
19602197 TTCCCCTGCTG-TCCAGGGAGATAAGA
1 CTCCACTGCTGCT-CAGGGAGATAAGA
19602223 CTAGTGGCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.03
44 58 0.97
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
CTCCACTGCTGCTCAGGGAGATAAGATCTGAAATCCTCAACCTA
Found at i:19603025 original size:131 final size:131
Alignment explanation
Indices: 19602153--19603010 Score: 1331
Period size: 131 Copynumber: 6.5 Consensus size: 131
19602143 CTTTAACCTA
* * * ** * * *
19602153 CTCCACTGCTGCTCAGGGAGATAAGGTCTACAA-TCCTCAACCTATTCCCCTGCTGTCCAGGGAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCT-AACCTATTCCACTGCTGACCAGGGAG
* * * *
19602217 ATAAGACTAGTGGCTTAAATCTGCTTCCCTACTTCTGGGGAAGATAAGATTCCCCGTCTTCGATC
65 ATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATC
19602282 TG
130 TG
* *
19602284 TTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
**
19602349 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGTCGTCTTCGATCT
66 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATCT
19602414 G
131 G
* * * *
19602415 CTCCACTACTCCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACTGACTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
* *
19602480 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGAGAAGATAAGATTCACCGTCTTTGATCT
66 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATCT
19602545 G
131 G
* * *
19602546 CTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCTACTGCTGACTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
* *
19602611 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGTGGAAGATAAGATTCGCCGTCTTCGATCT
66 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATCT
19602676 G
131 G
*
19602677 CTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
* * * *
19602742 TAGGAATTGTGGCTTAAATCTGCTTCTCTACTTCTAGGGAAGATAAGATTCACCGTCTTCGATCT
66 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATCT
19602807 G
131 G
* * *
19602808 CTCCACTACTACTTAGGGAGATAAGATCTATAATTTCTAACCTATTCCACTGCTGACCAAGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
* * * *
19602873 TAGGACTTGTGGCTTAAATCTGATTCCCTAGTCTTGGGGAAGATAAGATTCACCGTCTTCGATTT
66 TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATCT
19602938 G
131 G
* *
19602939 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACTTATTCCACTGCTGACCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
19603004 TAGGACT
66 TAGGACT
19603011 AGGGTCGTCG
Statistics
Matches: 665, Mismatches: 61, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
131 662 1.00
132 3 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (131 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAGA
TAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCACCGTCTTCGATCT
G
Found at i:19614783 original size:24 final size:25
Alignment explanation
Indices: 19614751--19614797 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
19614741 ATTAATGTGA
19614751 AATTATTA-TATTTAATTTATTTTTC
1 AATTATTATTA-TTAATTTATTTTTC
*
19614776 AATT-TTATTATTAATTTCTTTT
1 AATTATTATTATTAATTTATTTT
19614798 CAAACAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
AATTATTATTATTAATTTATTTTTC
Found at i:19615300 original size:18 final size:19
Alignment explanation
Indices: 19615277--19615322 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
19615267 AACTAATTTC
*
19615277 TTATTTATATCTTCTAT-T
1 TTATTTATATCTTATATAT
*
19615295 TTATTT-TAATTTTATATAT
1 TTATTTAT-ATCTTATATAT
19615314 TTATTTATA
1 TTATTTATA
19615323 ATTAAATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.57
19 8 0.35
20 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTATATCTTATATAT
Found at i:19616183 original size:21 final size:21
Alignment explanation
Indices: 19616159--19616200 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19616149 AAAATCTCAA
*
19616159 TATTATC-ATTAAAATTGTAAG
1 TATTATCTATCAAAATT-TAAG
*
19616180 TATTTTCTATCAAAATTTAAG
1 TATTATCTATCAAAATTTAAG
19616201 AATTTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (21 bp):
TATTATCTATCAAAATTTAAG
Found at i:19618079 original size:26 final size:26
Alignment explanation
Indices: 19618043--19618094 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19618033 TTTGACGAAA
19618043 GAGTGTTTAATTAAAATAAAGGGACT
1 GAGTGTTTAATTAAAATAAAGGGACT
*
19618069 GAGTGTTTAATTAAAGTAAAGGGACT
1 GAGTGTTTAATTAAAATAAAGGGACT
19618095 AAATTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (26 bp):
GAGTGTTTAATTAAAATAAAGGGACT
Found at i:19620515 original size:34 final size:34
Alignment explanation
Indices: 19620319--19620515 Score: 164
Period size: 34 Copynumber: 5.7 Consensus size: 34
19620309 TATTTATTCG
* * *
19620319 TCGGTTTATCCAACTAGCGCTGGGCGCA-ACTTCTG
1 TCGGTTTATCCGACTAGCGCTGGGCACACA-TT-TT
* * * *
19620354 TCAGTTTATCTGACTAGTGCTGGGCACACATTTG
1 TCGGTTTATCCGACTAGCGCTGGGCACACATTTT
* * * *
19620388 TCGATTTATCTGACTAGTGCCGGGCACACATTTT
1 TCGGTTTATCCGACTAGCGCTGGGCACACATTTT
* **
19620422 TCGGTTTATCCGACTAGCGCTGGGCGCA-ACTTCCA
1 TCGGTTTATCCGACTAGCGCTGGGCACACA-TT-TT
* ** *
19620457 TCAGTTTATTTGACTAGTGCTGGGCACACATTTT
1 TCGGTTTATCCGACTAGCGCTGGGCACACATTTT
* *
19620491 TCGGTTTATCCGACAAGCGTTGGGC
1 TCGGTTTATCCGACTAGCGCTGGGC
19620516 GCAAACTCTT
Statistics
Matches: 129, Mismatches: 29, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
33 1 0.01
34 76 0.59
35 50 0.39
36 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (34 bp):
TCGGTTTATCCGACTAGCGCTGGGCACACATTTT
Found at i:19623134 original size:12 final size:12
Alignment explanation
Indices: 19623094--19623152 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
19623084 GGTTATATAT
19623094 TATTTTTA-TAA
1 TATTTTTATTAA
*
19623105 TATTATATATT-A
1 TATT-TTTATTAA
19623117 TGATTTTTATTAA
1 T-ATTTTTATTAA
19623130 TA-TTTTATTAA
1 TATTTTTATTAA
* *
19623141 TAATTATATTAA
1 TATTTTTATTAA
19623153 GAATGTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 15 0.38
12 19 0.47
13 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTTTTATTAA
Found at i:19623137 original size:11 final size:12
Alignment explanation
Indices: 19623121--19623164 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
19623111 ATATTATGAT
19623121 TTTTATTAAT-A
1 TTTTATTAATAA
19623132 TTTTATTAATAA
1 TTTTATTAATAA
* *
19623144 TTATATTAAGAA
1 TTTTATTAATAA
*
19623156 TGTTATTAA
1 TTTTATTAA
19623165 ATTATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (12 bp):
TTTTATTAATAA
Found at i:19623138 original size:23 final size:23
Alignment explanation
Indices: 19623086--19623139 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
19623076 ATAAAGTAGG
*
19623086 TTATATATTATTTTTATAATATTA
1 TTAT-TATGATTTTTATAATATTA
19623110 TATATTATGATTTTTATTAATATT-
1 T-TATTATGATTTTTA-TAATATTA
19623134 TTATTA
1 TTATTA
19623140 ATAATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 12 0.44
25 10 0.37
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTATGATTTTTATAATATTA
Found at i:19623162 original size:35 final size:35
Alignment explanation
Indices: 19623097--19623172 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
19623087 TATATATTAT
* * * *
19623097 TTTTATAATATTATATATTATGATTTTTATTAATA
1 TTTTATAATAATATATATTAAGAATGTTATTAATA
19623132 TTTTATTAATAAT-TATATTAAGAATGTTATTAA-A
1 TTTTA-TAATAATATATATTAAGAATGTTATTAATA
*
19623166 TTATATA
1 TTTTATA
19623173 TTATGTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 2 0.06
34 5 0.14
35 22 0.63
36 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTTATAATAATATATATTAAGAATGTTATTAATA
Found at i:19623265 original size:23 final size:23
Alignment explanation
Indices: 19623217--19623268 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
19623207 TTAAAATATG
* * *
19623217 ATTAAATTATTTTTATTATTTAT
1 ATTAAATTATTTTAATAATCTAT
19623240 ATTAAATTATATTTAATAATCT-T
1 ATTAAATTAT-TTTAATAATCTAT
19623263 ATTAAA
1 ATTAAA
19623269 ATTTAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTAAATTATTTTAATAATCTAT
Found at i:19624067 original size:20 final size:20
Alignment explanation
Indices: 19624042--19624081 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19624032 AATATTTTCC
*
19624042 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTATAGAAA
*
19624062 AGTAAAACATTTTCTAGAAA
1 AGTAAAACATTTTATAGAAA
19624082 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:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAACATTTTATAGAAA
Found at i:19624096 original size:34 final size:35
Alignment explanation
Indices: 19624030--19624096 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
19624020 CAAACACCAG
* *
19624030 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
19624065 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19624097 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19631289 original size:24 final size:24
Alignment explanation
Indices: 19631262--19631313 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
19631252 AATCTATGTC
*
19631262 AAATATATTATGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
19631286 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
19631310 AAAT
1 AAAT
19631314 CTTCTAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:19632905 original size:23 final size:23
Alignment explanation
Indices: 19632875--19632929 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
19632865 GATCTCATGT
*
19632875 TCTGTTCTTATGGAGTGATTCCA
1 TCTGTTCTTATGGAGCGATTCCA
19632898 TCTGTTCTTATGGAGCGATTCCA
1 TCTGTTCTTATGGAGCGATTCCA
*
19632921 TCTCTTCTT
1 TCTGTTCTT
19632930 GTATGGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (23 bp):
TCTGTTCTTATGGAGCGATTCCA
Found at i:19635618 original size:85 final size:85
Alignment explanation
Indices: 19635454--19635611 Score: 253
Period size: 85 Copynumber: 1.9 Consensus size: 85
19635444 AAAAAATCTG
* *
19635454 ATACCAATTTGTTAAAAACTAAACGTCGATAATGGCAATGTAGAAAGAACACAAAGAAAAAGAAA
1 ATACCAATTTGTTAAAAACTAAACATCGATAATGGAAATGTAGAAAGAACACAAAGAAAAAGAAA
19635519 GAAAAATAGAACACACTCTA
66 GAAAAATAGAACACACTCTA
* * ***
19635539 ATACCAATTTGTTAAAAACTAAACATTGATAATGGAAATGTAGAAAGATCGTGAAGAAAAAGAAA
1 ATACCAATTTGTTAAAAACTAAACATCGATAATGGAAATGTAGAAAGAACACAAAGAAAAAGAAA
19635604 GAAAAATA
66 GAAAAATA
19635612 AGACACAGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (85 bp):
ATACCAATTTGTTAAAAACTAAACATCGATAATGGAAATGTAGAAAGAACACAAAGAAAAAGAAA
GAAAAATAGAACACACTCTA
Found at i:19640085 original size:45 final size:45
Alignment explanation
Indices: 19640022--19640227 Score: 184
Period size: 45 Copynumber: 4.6 Consensus size: 45
19640012 GTTGTGTTGC
* * * * * *
19640022 CATAATGTCTTTTAACTATGGTCTTATTCTTTTGATTCATGATGT
1 CATAACGTCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGT
* * *
19640067 CATAGCGTCTTTCAACTATGTTCTTACTCGTTAGAATCGTGAT-T
1 CATAACGTCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGT
* * *
19640111 CCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGT
1 -CATAACGTCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGT
* * * * * *
19640157 CATAATGTCTTTCAGCTATGGTCTTACTTGTTTCTG-GT-ATGGTGT
1 CATAACGTCTTTCAACTATGGTCTTACTCG-TT-AGAATCATGATGT
**
19640202 CATAGTGTCTTTCAACTATGGTCTTA
1 CATAACGTCTTTCAACTATGGTCTTA
19640228 ATAATTTCCT
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 130 0.96
46 3 0.02
47 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.43
Consensus pattern (45 bp):
CATAACGTCTTTCAACTATGGTCTTACTCGTTAGAATCATGATGT
Found at i:19640136 original size:90 final size:90
Alignment explanation
Indices: 19640021--19640184 Score: 211
Period size: 90 Copynumber: 1.8 Consensus size: 90
19640011 TGTTGTGTTG
* * * ** * * *
19640021 CCATAATGTCTTTTAACTATGGTCTTATTCTTTTGATTCATGATGTCATAGCGTCTTTCAACTAT
1 CCATAACGTCTTTCAACTATGGTCTTACTCGATAGAATCATGATGTCATAACGTCTTTCAACTAT
*
19640086 GTTCTTACTCGTTAGAATCGTGATT
66 GGTCTTACTCGTTAGAATCGTGATT
* * * *
19640111 CCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGTCATAATGTCTTTCAGCTAT
1 CCATAACGTCTTTCAACTATGGTCTTACTCGATAGAATCATGATGTCATAACGTCTTTCAACTAT
19640176 GGTCTTACT
66 GGTCTTACT
19640185 TGTTTCTGGT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.42
Consensus pattern (90 bp):
CCATAACGTCTTTCAACTATGGTCTTACTCGATAGAATCATGATGTCATAACGTCTTTCAACTAT
GGTCTTACTCGTTAGAATCGTGATT
Found at i:19641431 original size:215 final size:215
Alignment explanation
Indices: 19641102--19641536 Score: 807
Period size: 215 Copynumber: 2.0 Consensus size: 215
19641092 TAAACAACCA
*
19641102 AAGGTCAATCTTCCTAATAAATCCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAA
1 AAGGTCAATCTTCCTAATAAACCCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAA
* **
19641167 TGAAAATTAACTTTTACGACTTTTGTAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAA
66 TGAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAA
19641232 AATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTA
131 AATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTA
19641297 TGAGTTCAGATTATAGAAAC
196 TGAGTTCAGATTATAGAAAC
*
19641317 AAGGTCAATCTTTCTAATAAACCCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAA
1 AAGGTCAATCTTCCTAATAAACCCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAA
19641382 TGAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAA
66 TGAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAA
19641447 AATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTA
131 AATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTA
* *
19641512 TGGGTTCAGTTTATAGAAAC
196 TGAGTTCAGATTATAGAAAC
19641532 AAGGT
1 AAGGT
19641537 ATTAAGACAT
Statistics
Matches: 213, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
215 213 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (215 bp):
AAGGTCAATCTTCCTAATAAACCCCCCCAATCCTATAATATTATTAATTTAACACCTTAAATAAA
TGAAAATTAACTTTTACGACCTTTACAAATTAGTCCTTTTCATTTAATTAATATTTAAACGTTAA
AATTTCTTAACCAAATTTTTAATATGATCCACATAACACTCAGTAAATATTTAATAAAATATGTA
TGAGTTCAGATTATAGAAAC
Found at i:19651574 original size:3 final size:3
Alignment explanation
Indices: 19651566--19651596 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19651556 TCAGCTAACT
19651566 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
19651597 AATATTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:19660181 original size:19 final size:18
Alignment explanation
Indices: 19660157--19660193 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19660147 TTTCTCAAGT
*
19660157 ATAATTGATAATTTTTTTA
1 ATAATTAAT-ATTTTTTTA
19660176 ATAATTAATATTTTTTTA
1 ATAATTAATATTTTTTTA
19660194 GAATTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATAATTAATATTTTTTTA
Found at i:19660572 original size:87 final size:87
Alignment explanation
Indices: 19660426--19660592 Score: 239
Period size: 87 Copynumber: 1.9 Consensus size: 87
19660416 TGTAAAAAGC
* * *
19660426 CCTCAAACTTTTTTAAAAAAGCAATTAAGCCCCTGCCTTTTTTTTGCACTTAATTGGGTACTTGA
1 CCTCAAACTTTTTAAAAAAAGCAATTAAGCCCCTGACTTTTTTTTGCACTCAATTGGGTACTTG-
*
19660491 AATT-TCAAAATGCATTAAAGAT
65 AATTGCCAAAATGCATTAAAGAT
* * *
19660513 CCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCT-ACTTTTTTTTTCACTCAATTGGGTATTTG
1 CCTCAAACTTTTT-AAAAAAAGCAATTAAGCCCCTGACTTTTTTTTGCACTCAATTGGGTACTTG
19660577 AATTGCCAAAATGCAT
65 AATTGCCAAAATGCAT
19660593 CAAAAAAGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
86 4 0.06
87 48 0.68
88 19 0.27
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (87 bp):
CCTCAAACTTTTTAAAAAAAGCAATTAAGCCCCTGACTTTTTTTTGCACTCAATTGGGTACTTGA
ATTGCCAAAATGCATTAAAGAT
Found at i:19660783 original size:20 final size:21
Alignment explanation
Indices: 19660742--19660796 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
19660732 ATAAAAGTTA
* *
19660742 TAAAATTATT-AAATTTTAAT
1 TAAAAATATTAAAAATTTAAT
19660762 TAAAAATATTAAAAATTT-AT
1 TAAAAATATTAAAAATTTAAT
19660782 TAAAAA-ATTAGAAAA
1 TAAAAATATTA-AAAA
19660797 ATATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.13
20 21 0.68
21 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAAATATTAAAAATTTAAT
Found at i:19661132 original size:10 final size:10
Alignment explanation
Indices: 19661119--19661244 Score: 83
Period size: 9 Copynumber: 13.4 Consensus size: 10
19661109 TTTTGATGCA
19661119 TTTTATAATTT
1 TTTTATAA-TT
*
19661130 TTTTATGA-T
1 TTTTATAATT
* **
19661139 ATTTATAAAA
1 TTTTATAATT
*
19661149 TTTTACAATT
1 TTTTATAATT
19661159 TTTT-T-ATGT
1 TTTTATAAT-T
*
19661168 TTTTAT-GTT
1 TTTTATAATT
* *
19661177 TTTTTTTATT
1 TTTTATAATT
19661187 TTTTATAA-T
1 TTTTATAATT
19661196 TTTTATAATT
1 TTTTATAATT
19661206 TTTTAT-ATT
1 TTTTATAATT
*
19661215 TTAT-TAA-T
1 TTTTATAATT
19661223 TTTTAT--TT
1 TTTTATAATT
19661231 TTTTATAATT
1 TTTTATAATT
19661241 TTTT
1 TTTT
19661245 TGCCACATTT
Statistics
Matches: 89, Mismatches: 16, Indels: 21
0.71 0.13 0.17
Matches are distributed among these distances:
8 14 0.16
9 35 0.39
10 33 0.37
11 7 0.08
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:19661132 original size:20 final size:20
Alignment explanation
Indices: 19661107--19661146 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19661097 GTTAAATATC
19661107 TTTTTTGATGCAT-TTTATAA
1 TTTTTTGATG-ATATTTATAA
*
19661127 TTTTTTTATGATATTTATAA
1 TTTTTTGATGATATTTATAA
19661147 AATTTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTTTGATGATATTTATAA
Found at i:19661152 original size:21 final size:21
Alignment explanation
Indices: 19661107--19661152 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
19661097 GTTAAATATC
19661107 TTTTTTGATGCATTTTAT-AA
1 TTTTTTGATGCATTTTATAAA
*
19661127 TTTTTTTATG-ATATTTATAAA
1 TTTTTTGATGCAT-TTTATAAA
*
19661148 ATTTT
1 TTTTT
19661153 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.64
21 6 0.27
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTTTGATGCATTTTATAAA
Found at i:19661198 original size:17 final size:17
Alignment explanation
Indices: 19661184--19661244 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 17
19661174 GTTTTTTTTT
19661184 ATTTTTTATAATTTTTATA
1 ATTTTTTAT--TTTTTATA
*
19661203 ATTTTTTATATTTTATTA
1 ATTTTTTATTTTTTA-TA
19661221 A-TTTTTATTTTTTTATA
1 ATTTTTTA-TTTTTTATA
19661238 ATTTTTT
1 ATTTTTT
19661245 TGCCACATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 14 0.38
18 14 0.38
19 9 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTATTTTTTATA
Found at i:19661244 original size:18 final size:19
Alignment explanation
Indices: 19661119--19661244 Score: 93
Period size: 19 Copynumber: 6.7 Consensus size: 19
19661109 TTTTGATGCA
19661119 TTTTATAATTTTTT-TATGAT
1 TTTTATAATTTTTTATAT--T
* ** *
19661139 ATTTATAAAATTTTACAATT
1 TTTTATAATTTTTTA-TATT
*
19661159 TTTT-T-ATGTTTTTATGTT
1 TTTTATAAT-TTTTTATATT
* * *
19661177 TTTTTTTATTTTTTATAAT
1 TTTTATAATTTTTTATATT
19661196 TTTTATAATTTTTTATATT
1 TTTTATAATTTTTTATATT
*
19661215 TTAT-TAA-TTTTTAT-TT
1 TTTTATAATTTTTTATATT
19661231 TTTTATAATTTTTT
1 TTTTATAATTTTTT
19661245 TGCCACATTT
Statistics
Matches: 83, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
16 5 0.06
17 10 0.12
18 15 0.18
19 34 0.41
20 17 0.20
22 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATAATTTTTTATATT
Found at i:19664631 original size:15 final size:14
Alignment explanation
Indices: 19664612--19664663 Score: 61
Period size: 15 Copynumber: 3.7 Consensus size: 14
19664602 AGTTTAGGTT
19664612 TTTTTTTTCTTTTC
1 TTTTTTTTCTTTTC
*
19664626 TCTTTTCTTCTTTTC
1 T-TTTTTTTCTTTTC
*
19664641 TTCTTTTTCTTTT-
1 TTTTTTTTCTTTTC
*
19664654 TTTTTATTCT
1 TTTTTTTTCT
19664664 AGTATTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 8 0.25
14 11 0.34
15 13 0.41
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTTTC
Found at i:19664637 original size:8 final size:8
Alignment explanation
Indices: 19664613--19664647 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
19664603 GTTTAGGTTT
*
19664613 TTTTTTTC
1 TTTTCTTC
19664621 TTTTC-TC
1 TTTTCTTC
19664628 TTTTCTTC
1 TTTTCTTC
19664636 TTTTCTTC
1 TTTTCTTC
19664644 TTTT
1 TTTT
19664648 TCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTC
Found at i:19667209 original size:6 final size:6
Alignment explanation
Indices: 19667198--19667227 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19667188 ATTTAATAAA
19667198 AATTTT AATTTT AATTTT AATTTT AGATTT
1 AATTTT AATTTT AATTTT AATTTT A-ATTT
19667228 AGATTTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:19667269 original size:9 final size:9
Alignment explanation
Indices: 19667257--19667302 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
19667247 TATTTTAAAG
19667257 TTTTT-TAT
1 TTTTTATAT
*
19667265 TTTTTATAA
1 TTTTTATAT
19667274 TTTTTATAT
1 TTTTTATAT
*
19667283 TTTTAATAT
1 TTTTTATAT
19667292 TTTTT-TAT
1 TTTTTATAT
19667300 TTT
1 TTT
19667303 CAAAGGATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 11 0.33
9 22 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTATAT
Found at i:19667274 original size:27 final size:26
Alignment explanation
Indices: 19667231--19667296 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
19667221 TAGATTTAGA
* *
19667231 TTTAGATTTTATATAATATTTTAAAGTT
1 TTTATATTTTTTATAAT-TTTTAAA-TT
*
19667259 TTT-TATTTTTTATAATTTTTATATT
1 TTTATATTTTTTATAATTTTTAAATT
19667284 TTTAATATTTTTT
1 TTT-ATATTTTTT
19667297 TATTTTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 5 0.15
26 6 0.18
27 19 0.58
28 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATATTTTTTATAATTTTTAAATT
Found at i:19671982 original size:229 final size:229
Alignment explanation
Indices: 19671581--19672495 Score: 1830
Period size: 229 Copynumber: 4.0 Consensus size: 229
19671571 TATCCTCGTA
19671581 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
1 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
19671646 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
66 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
19671711 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
131 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
19671776 GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
196 GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
19671810 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
1 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
19671875 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
66 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
19671940 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
131 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
19672005 GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
196 GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
19672039 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
1 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
19672104 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
66 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
19672169 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
131 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
19672234 GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
196 GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
19672268 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
1 AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
19672333 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
66 AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
19672398 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
131 CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
19672463 GCAGATCATTAAAAACTGGTTTCCATGTTTTCT
196 GCAGATCATTAAAAACTGGTTTCCATGTTTTCT
19672496 TGGAGAAAGA
Statistics
Matches: 686, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 686 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (229 bp):
AATAGCGCAATTGTAAACAAGTGCAGCAACAATGAAGGACAGCTTAAAGACAACAGTCAACATAA
AACTACTATATTAGTAAATATGAAGCTGAAAATGAGATGTCGAAATGCCTTCGAGATTAGTTAAC
CACTATCCTGATTAAGAATTTCGTGTAATTGGCCTTTTTTTGTCACTTCATTATTTGAAACTCGT
GCAGATCATTAAAAACTGGTTTCCATGTTTTCTC
Found at i:19683957 original size:14 final size:14
Alignment explanation
Indices: 19683938--19683967 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19683928 GTCATTTAGG
19683938 CCAACCAAACTGGC
1 CCAACCAAACTGGC
19683952 CCAACCAAACTGGC
1 CCAACCAAACTGGC
19683966 CC
1 CC
19683968 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:19689090 original size:14 final size:14
Alignment explanation
Indices: 19689071--19689102 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
19689061 AGGTCATTTA
19689071 GCCCAACCAAACTG
1 GCCCAACCAAACTG
19689085 GCCCAACCAAACTG
1 GCCCAACCAAACTG
19689099 GCCC
1 GCCC
19689103 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:19696114 original size:14 final size:14
Alignment explanation
Indices: 19696095--19696138 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
19696085 TTACTGTTAC
*
19696095 AATATGGCCATTGG
1 AATATGGCCGTTGG
* *
19696109 AATATGACCGTTGC
1 AATATGGCCGTTGG
19696123 AATATGGCCGTTGG
1 AATATGGCCGTTGG
19696137 AA
1 AA
19696139 CCTGATTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (14 bp):
AATATGGCCGTTGG
Found at i:19698273 original size:18 final size:17
Alignment explanation
Indices: 19698252--19698286 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19698242 TTATTATTAA
*
19698252 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19698270 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19698287 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19698407 original size:16 final size:16
Alignment explanation
Indices: 19698388--19698442 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
19698378 TTAATCATAT
*
19698388 TTAAATATAATTTTTA
1 TTAAATATAATTTTAA
19698404 TTAAATAT-ATTTTAA
1 TTAAATATAATTTTAA
*
19698419 TTAAAATATATAATTTAA
1 TT-AAATATA-ATTTTAA
*
19698437 TGAAAT
1 TTAAAT
19698443 TCTTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 8 0.24
16 14 0.42
17 4 0.12
18 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTTTAA
Found at i:19698423 original size:156 final size:157
Alignment explanation
Indices: 19698139--19698453 Score: 560
Period size: 156 Copynumber: 2.0 Consensus size: 157
19698129 TAGAATACCC
19698139 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
19698204 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
19698269 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
19698295 TTAGCATAAATTTGTTTTTGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
19698360 TTGTCAGTAATAAATAATTTAATCATATTTAAATATAATTTTTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
*
19698425 TATATAATTTAATGAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
19698452 TT
1 TT
19698454 CATATTCTTA
Statistics
Matches: 151, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 145 0.96
157 6 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (157 bp):
TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:19698571 original size:26 final size:27
Alignment explanation
Indices: 19698496--19698577 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
19698486 ATATGATACT
* *
19698496 ATAATTAATATTAAATATATTTTAATTA
1 ATAATTATTATTAAATATAATTTAA-TA
* *
19698524 A-AATATATGATTAAATACAATTTAA-A
1 ATAAT-TATTATTAAATATAATTTAATA
*
19698550 ATAATTATTATTAAATATAATTTCATA
1 ATAATTATTATTAAATATAATTTAATA
19698577 A
1 A
19698578 AATGTTCTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (27 bp):
ATAATTATTATTAAATATAATTTAATA
Found at i:19709973 original size:44 final size:44
Alignment explanation
Indices: 19709883--19710178 Score: 271
Period size: 44 Copynumber: 6.6 Consensus size: 44
19709873 TAATCCACTT
* *
19709883 CACTGCAACTTCAGGGAGATAGGATTAGTTATCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATT-GTTATCTTCAATCTGCTC
19709928 CACTGCAACTTCAGGGAGATAAGATTGTTATCTTCAA-CTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGTTATCTTCAATC-TGCTC
* *
19709972 CACTGCAACTTCAGGGAGATAA-ATT-TTGA--TACGATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGTT-ATCTTCAATCTGCTC
* * *
19710013 TACTGCAACTTCAGAGAGATAAGATATGTAATTTATAGCTTCAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGAT-TG----TTAT--CTTCAATCTGCTC
* * * * *
19710064 CACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATT-GTTATCTTCAATCTGCTC
* * * * *
19710109 CACTACAACTTCAGGGAGATAAGACTTG-TATATTAAATATGCCC
1 CACTGCAACTTCAGGGAGATAAGA-TTGTTATCTTCAATCTGCTC
* *
19710153 CGCTGCAACTTCAGGGGGATAAGATT
1 CACTGCAACTTCAGGGAGATAAGATT
19710179 CGCCATGATG
Statistics
Matches: 207, Mismatches: 28, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
41 28 0.14
42 5 0.02
43 8 0.04
44 69 0.33
45 57 0.28
46 2 0.01
47 4 0.02
48 2 0.01
50 1 0.00
51 31 0.15
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTGTTATCTTCAATCTGCTC
Found at i:19710461 original size:51 final size:51
Alignment explanation
Indices: 19710349--19710491 Score: 151
Period size: 51 Copynumber: 2.8 Consensus size: 51
19710339 TTAACGCTAG
* * * * *
19710349 GGAGATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCGCTGTAATGCCAG
1 GGAGATAAGATTCGCTACCTTCAACTTTAATCTGCTCCACTGTAATGCCAA
* * * *
19710400 GGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGTAATGCCAA
1 GGAGATAAGATTCGCTACCTTCAACTTTAATCTGCTCCACTGTAATGCCAA
*** * **
19710451 GGAGATAAGATTTATTGCCTTCAACTTTAATCCACTCCACT
1 GGAGATAAGATTCGCTACCTTCAACTTTAATCTGCTCCACT
19710492 TCAGCTTTAA
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (51 bp):
GGAGATAAGATTCGCTACCTTCAACTTTAATCTGCTCCACTGTAATGCCAA
Found at i:19710499 original size:21 final size:21
Alignment explanation
Indices: 19710469--19710517 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
19710459 GATTTATTGC
19710469 CTTCAACTTTAATCCACTCCA
1 CTTCAACTTTAATCCACTCCA
* * *
19710490 CTTCAGCTTTAATCTATTCCA
1 CTTCAACTTTAATCCACTCCA
*
19710511 CTACAAC
1 CTTCAAC
19710518 GCCAAGGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.02, T:0.35
Consensus pattern (21 bp):
CTTCAACTTTAATCCACTCCA
Found at i:19710593 original size:123 final size:123
Alignment explanation
Indices: 19710367--19710596 Score: 275
Period size: 123 Copynumber: 1.9 Consensus size: 123
19710357 GATTTGCTGC
* * ** * * *
19710367 CTTCAGCTTTAATCTGCTCCGCTGTAATGCCAGGGAAACAAGATTCGCTACCTTTAACTTTAATC
1 CTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAACAAGATTCACTACCTTTAACTTTAATC
* * * * *
19710432 TGTTCCACTGTAATGCCAAGGAGATAAGATTTATTGCCTTCAACTTTAATCCACTCCA
66 TGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCCACTCCA
* *
19710490 CTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAACAAGATTCATTACC-TTAAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAACAAGATTCACTACCTTTAA-CTTTAAT
* * *
19710554 -TCGTTCCACTGCAACGCTAGGGAAATAAGATTCGCTGCCTTCA
65 CT-GTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCA
19710597 GTCTTCTCCA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
122 5 0.06
123 83 0.94
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCCACTACAACGCCAAGGAAACAAGATTCACTACCTTTAACTTTAATC
TGTTCCACTGCAACGCCAAGGAAATAAGATTCACTGCCTTCAACTTTAATCCACTCCA
Found at i:19713124 original size:42 final size:42
Alignment explanation
Indices: 19713062--19713224 Score: 245
Period size: 42 Copynumber: 3.9 Consensus size: 42
19713052 GGTATAAAAA
* * *
19713062 GATCACCACATGCCCCAATCTGAACAAAATTTGAGCTGCTCT
1 GATCACCTCATGCCCTAATCTGATCAAAATTTGAGCTGCTCT
19713104 GATCACCTCATGCCCTAATCTGATCAAAATTTGAGCTGCTCT
1 GATCACCTCATGCCCTAATCTGATCAAAATTTGAGCTGCTCT
* *
19713146 GATCACCTCATGCCTTAATCTGATCAAAATTTGAGCTACTCT
1 GATCACCTCATGCCCTAATCTGATCAAAATTTGAGCTGCTCT
* * *
19713188 GATCACCTCATGCCCCATTTTGATCCAAAATTTGAGC
1 GATCACCTCATGCCCTAATCTGAT-CAAAATTTGAGC
19713225 CACTCTTTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 99 0.89
43 12 0.11
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (42 bp):
GATCACCTCATGCCCTAATCTGATCAAAATTTGAGCTGCTCT
Found at i:19713325 original size:22 final size:22
Alignment explanation
Indices: 19713300--19713352 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19713290 TTGGCCTTTC
*
19713300 CTTTTTTTTTTCTTCA-CTTTTT
1 CTTTTTTTTTT-TTCATCATTTT
*
19713322 CTTTTCTTTTTTTCATCATTTT
1 CTTTTTTTTTTTTCATCATTTT
*
19713344 CATTTTTTT
1 CTTTTTTTT
19713353 GAAATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (22 bp):
CTTTTTTTTTTTTCATCATTTT
Found at i:19713331 original size:24 final size:22
Alignment explanation
Indices: 19713296--19713352 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
19713286 CGCCTTGGCC
*
19713296 TTTCCTTTTTTTTTTCTTCACTT
1 TTTCCTTTTTTTTTTCATCA-TT
*
19713319 TTTCTTTTCTTTTTTTCATCA-T
1 TTTCCTTT-TTTTTTTCATCATT
*
19713341 TTTCATTTTTTT
1 TTTCCTTTTTTT
19713353 GAAATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 8 0.27
23 7 0.23
24 11 0.37
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCCTTTTTTTTTTCATCATT
Found at i:19713365 original size:33 final size:33
Alignment explanation
Indices: 19713328--19713404 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
19713318 TTTTCTTTTC
* *
19713328 TTTTTT-TCATCATTTTCATTTTTTTGAAATAT
1 TTTTTTATTATCATTTTCATTTTTTTAAAATAT
* * *
19713360 TTTTTTATTTTGATTTTGATTTTTTTAAAATAT
1 TTTTTTATTATCATTTTCATTTTTTTAAAATAT
19713393 TTTTTTGATTAT
1 TTTTTT-ATTAT
19713405 ACCTAAACTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
32 6 0.16
33 27 0.73
34 4 0.11
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (33 bp):
TTTTTTATTATCATTTTCATTTTTTTAAAATAT
Found at i:19718261 original size:15 final size:16
Alignment explanation
Indices: 19718222--19718264 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
19718212 ATGCATAAAT
19718222 AATAATAATGCAAGTAAC
1 AATAATAA--CAAGTAAC
19718240 AAT-ATAACAA-TAAC
1 AATAATAACAAGTAAC
19718254 AATAATAACAA
1 AATAATAACAA
19718265 CGACAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
17 4 0.17
18 3 0.12
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAATAACAAGTAAC
Found at i:19720100 original size:41 final size:39
Alignment explanation
Indices: 19720037--19720175 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 39
19720027 GACTTCAAGT
* * *
19720037 CGATGAGACACTAGGTGTCAATTTACTACTTCAGATTATTT
1 CGATGAGACACTGGGTGCCAA-TTA-TACTTCAGATTATTC
*
19720078 CGATGAGGCACTGGGTGCCAATT-TACTTCAG-TT-TTGC
1 CGATGAGACACTGGGTGCCAATTATACTTCAGATTATT-C
*
19720115 CGATGAGACACTGGGTGTCAAATTATTACTTC-GAATTA-TC
1 CGATGAGACACTGGGTG-CCAATTA-TACTTCAG-ATTATTC
*
19720155 CGATGAGGCACTGGGTGCCAA
1 CGATGAGACACTGGGTGCCAA
19720176 ACTCGTGTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
36 2 0.02
37 18 0.22
38 13 0.16
39 4 0.05
40 25 0.30
41 21 0.25
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGCCAATTATACTTCAGATTATTC
Found at i:19728098 original size:48 final size:48
Alignment explanation
Indices: 19728019--19728112 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
19728009 AGGGAATTCT
* *
19728019 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
19728067 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
19728113 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:19730613 original size:48 final size:48
Alignment explanation
Indices: 19730534--19730627 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
19730524 AGGGAATTCT
* *
19730534 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
19730582 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
19730628 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:19732142 original size:19 final size:19
Alignment explanation
Indices: 19732120--19732159 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19732110 AAAAAAAAGA
19732120 AAAAAAAAAGTCTGCCATG
1 AAAAAAAAAGTCTGCCATG
* * *
19732139 AAAAAGATAGTCTGCCTTG
1 AAAAAAAAAGTCTGCCATG
19732158 AA
1 AA
19732160 GATAGAGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (19 bp):
AAAAAAAAAGTCTGCCATG
Found at i:19735877 original size:29 final size:29
Alignment explanation
Indices: 19735835--19735997 Score: 84
Period size: 29 Copynumber: 5.6 Consensus size: 29
19735825 CCCTCAAATA
* *
19735835 ATGAAAATGGATAGCTTT-GGATATCGAAT
1 ATGAAAAGGGATAG-TTTCAGATATCGAAT
* * *
19735864 ATGAAAAGGGATAGTTTCAGCTGTCGATT
1 ATGAAAAGGGATAGTTTCAGATATCGAAT
* ** * *
19735893 ATGAAAAGGGATGGTAACAAACATC-AACT
1 ATGAAAAGGGATAGTTTCAGATATCGAA-T
* * * *
19735922 ATGAACAGGGAT-G-GTGATATCCATCGAAT
1 ATGAAAAGGGATAGTTTCAGAT--ATCGAAT
* * *
19735951 ATAAAAAGGGATAGCTTT-GGCTATCGAAT
1 ATGAAAAGGGATAG-TTTCAGATATCGAAT
*
19735980 ATGAAAAGGGATGGTTTC
1 ATGAAAAGGGATAGTTTC
19735998 GACCGTCGAT
Statistics
Matches: 98, Mismatches: 27, Indels: 18
0.69 0.19 0.13
Matches are distributed among these distances:
27 2 0.02
28 8 0.08
29 83 0.85
30 3 0.03
31 1 0.01
32 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGTTTCAGATATCGAAT
Found at i:19736006 original size:29 final size:29
Alignment explanation
Indices: 19735857--19736033 Score: 103
Period size: 29 Copynumber: 6.1 Consensus size: 29
19735847 AGCTTTGGAT
* *
19735857 ATCGAATATGAAAAGGGATAGTTTC-AGCT
1 ATCGAATATGAAAAGGGATGGTTTCGA-CC
* * ** * *
19735886 GTCGATTATGAAAAGGGATGGTAACAAAC
1 ATCGAATATGAAAAGGGATGGTTTCGACC
* *
19735915 ATC-AACTATGAACAGGGATGGTGAT--ATCC
1 ATCGAA-TATGAAAAGGGATGGT-TTCGA-CC
* * * *
19735944 ATCGAATATAAAAAGGGATAGCTTT-GGCT
1 ATCGAATATGAAAAGGGAT-GGTTTCGACC
19735973 ATCGAATATGAAAAGGGATGGTTTCGACC
1 ATCGAATATGAAAAGGGATGGTTTCGACC
* * * *
19736002 GTCGATTAAAGAAAAGGGATGGTTACGACC
1 ATCGAAT-ATGAAAAGGGATGGTTTCGACC
19736032 AT
1 AT
19736034 AGTTTAGCAC
Statistics
Matches: 112, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
28 6 0.05
29 79 0.71
30 27 0.24
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.24
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTTCGACC
Found at i:19740506 original size:24 final size:24
Alignment explanation
Indices: 19740478--19740529 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
19740468 TTCGTAAGTC
* *
19740478 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
**
19740502 AAATATGTTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
19740526 AAAT
1 AAAT
19740530 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:19742472 original size:24 final size:24
Alignment explanation
Indices: 19742444--19742489 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
19742434 GGTCAAACAA
* *
19742444 ATTATGCTAATAAATGCTAAATAT
1 ATTATACTAATAAATACTAAATAT
19742468 ATTATACTAATAAATACTAAAT
1 ATTATACTAATAAATACTAAAT
19742490 CTTCTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:19743352 original size:20 final size:21
Alignment explanation
Indices: 19743329--19743382 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
19743319 ATCAATTTTA
*
19743329 AAATTTATAAAAAT-AGAAAT
1 AAATATATAAAAATCAGAAAT
19743349 AAATATATAAAAATCAGAAA-
1 AAATATATAAAAATCAGAAAT
*
19743369 ATATATAATAAAAA
1 AAATAT-ATAAAAA
19743383 GTATAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
AAATATATAAAAATCAGAAAT
Found at i:19747854 original size:19 final size:19
Alignment explanation
Indices: 19747830--19747867 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19747820 TTTCTTTACT
19747830 TTGAAGTTAGAATTTTGAA
1 TTGAAGTTAGAATTTTGAA
19747849 TTGAAGTTAGAATTTTGAA
1 TTGAAGTTAGAATTTTGAA
19747868 GAATTTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (19 bp):
TTGAAGTTAGAATTTTGAA
Found at i:19748071 original size:3 final size:3
Alignment explanation
Indices: 19748063--19748114 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
19748053 TTATTTTCTT
*
19748063 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19748111 TAA T
1 TAA T
19748115 GGATCAAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:19748541 original size:23 final size:23
Alignment explanation
Indices: 19748492--19748542 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
19748482 TTTGCGAACA
* * * *
19748492 TAAACGAATATGTTCGTGAATGT
1 TAAACGAACATGTTCGCGAACGC
*
19748515 TAAACGAACATGTTCGCGGACGC
1 TAAACGAACATGTTCGCGAACGC
19748538 TAAAC
1 TAAAC
19748543 AAATCGAGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (23 bp):
TAAACGAACATGTTCGCGAACGC
Found at i:19752817 original size:181 final size:185
Alignment explanation
Indices: 19752481--19752824 Score: 443
Period size: 181 Copynumber: 1.9 Consensus size: 185
19752471 CCCCAAGATG
** *
19752481 TTTAAAGTTGCTGTGACACTTGTTGTATCTGTTGGCCTGTAAGCTTTCCTTTCCTTCTGCTACTG
1 TTTAAAGTTGCTGTGACACTTCCTGGATCTGTTGGCCTGTAAGCTTTCC-TTCCTTCTGC-ACTG
* * * *
19752546 TAAGTTTTTCATGGTAACATGAATTGATATACTAATGCCAACTAACAACAAAATGTGGCAAGTAT
64 TAAGTTTTTCAGGGAAACATGAATTGATATACTAATGCAAACTAACAACAAAATGTAGCAAGTAT
**
19752611 ATTACGATTTAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
129 ATTAAAATTTAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
*
19752668 TTTAAAGTTGCTGTGACGCTTCCTGGATCTGTTGGCCTGTAAGCATTT-C-T-CTTCT-C-CTGT
1 TTTAAAGTTGCTGTGACACTTCCTGGATCTGTTGGCCTGTAAGC-TTTCCTTCCTTCTGCACTGT
* * * *
19752728 AA-TATTTTCAGGGAAACATGAATTGATATACTAATGGAAACTAAGAAGAATATGTAGCGAA-TA
65 AAGT-TTTTCAGGGAAACATGAATTGATATACTAATGCAAACTAACAACAAAATGTAGC-AAGTA
*
19752791 -AGTTAAAATTTAATCTTTCTTATTAATCAATTCA
128 TA-TTAAAATTTAAACTTTCTTATTAATCAATTCA
19752825 ACATACATCC
Statistics
Matches: 138, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
180 2 0.01
181 83 0.60
182 2 0.01
183 1 0.01
184 5 0.04
185 1 0.01
187 41 0.30
188 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (185 bp):
TTTAAAGTTGCTGTGACACTTCCTGGATCTGTTGGCCTGTAAGCTTTCCTTCCTTCTGCACTGTA
AGTTTTTCAGGGAAACATGAATTGATATACTAATGCAAACTAACAACAAAATGTAGCAAGTATAT
TAAAATTTAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
Found at i:19757774 original size:14 final size:14
Alignment explanation
Indices: 19757738--19757774 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
19757728 CAGCAAATAT
19757738 TTTAAAAATAATTA
1 TTTAAAAATAATTA
**
19757752 TTTTTAAATAATTA
1 TTTAAAAATAATTA
19757766 TTTAAAAAT
1 TTTAAAAAT
19757775 TTGATTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTAAAAATAATTA
Found at i:19760047 original size:29 final size:29
Alignment explanation
Indices: 19760003--19760061 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
19759993 TAACACTTTA
*
19760003 TTTAATAATTTTAGTAAACAATACATAAT
1 TTTAATAATTTCAGTAAACAATACATAAT
19760032 TTTAATAATTTCAGTAAACAATACATAAT
1 TTTAATAATTTCAGTAAACAATACATAAT
19760061 T
1 T
19760062 AATATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTAATAATTTCAGTAAACAATACATAAT
Found at i:19761260 original size:32 final size:32
Alignment explanation
Indices: 19761219--19761280 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
19761209 CTTGCATGTT
19761219 TGGTAAATAGGTAAATAGGAGTTGTGAAATGA
1 TGGTAAATAGGTAAATAGGAGTTGTGAAATGA
*
19761251 TGGTAAATAGGTAAATTGGAGTTGTGAAAT
1 TGGTAAATAGGTAAATAGGAGTTGTGAAAT
19761281 AAACTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (32 bp):
TGGTAAATAGGTAAATAGGAGTTGTGAAATGA
Found at i:19766714 original size:40 final size:40
Alignment explanation
Indices: 19766669--19766839 Score: 243
Period size: 40 Copynumber: 4.3 Consensus size: 40
19766659 CCTTGTTGCT
* * *
19766669 TAGCAGGCTTCATGTCAGTGTACTTATCGGGCTTAGTTCC
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
19766709 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
* * * * * *
19766749 TAGCATGCTTCGTGTTGGTATACTTATTGGGATTAGTGCT
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
* *
19766789 TAGCAGGCTTCGTGTCGATGTACTTATCGGGGTTAGTGCC
1 TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
19766829 TAGCAGGCTTC
1 TAGCAGGCTTC
19766840 AGCTGGTGTA
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (40 bp):
TAGCAGGCTTCGTGTCGGTGTACTTATCGGGCTTAGTGCC
Found at i:19772035 original size:336 final size:336
Alignment explanation
Indices: 19771422--19772435 Score: 1733
Period size: 336 Copynumber: 3.0 Consensus size: 336
19771412 TTAGAAGGAA
** * *
19771422 GATTTAGGCTCCATAGTTTCTTATAGAATCCTTTAGATGTGGCTTGTAATTCATTAAAAGTAGGA
1 GATTTAGGCTCCATAACTTCCTATAGAATCCTTTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
* * *
19771487 CTAGGAAGACCAAATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGAGTTCGCA
66 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCGCA
* * *
19771552 TCTCCACACCATCACATCCTCATGTGGTTTTTTTGCCAATGGGATTCAAAATATCCTGGCCACGT
131 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
* *
19771617 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCACCTCCATTCTCTATTAGCATTATCAATTAAA
196 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCTTCCATTCTCTATTAGCATTATCAATTAAA
* *
19771682 CCAACAACTATTAATATGTTATTATCACGAACCATGTTGCTCAATTTATAATCAACCGAACCAGG
261 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
19771747 AATACATGCAT
326 AATACATGCAT
*
19771758 GATTTAGGCTCCATAACTTCCTATAGAATCCTCTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
1 GATTTAGGCTCCATAACTTCCTATAGAATCCTTTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
* * *
19771823 ATAGGAATACCAGATCGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCACA
66 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCGCA
*
19771888 TCTCCACACCATCACATCCTCGTGTAGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
131 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
* *
19771953 CAGCATCAAAGAAATTATCAGTAATAATCTCTCGCTTCCATTCTCTATTAGCATTATCAATTAAA
196 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCTTCCATTCTCTATTAGCATTATCAATTAAA
19772018 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
261 CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
19772083 AATACATGCAT
326 AATACATGCAT
*
19772094 GATTTAGGCTCCATAACTTCCTGTAGAATCCTTTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
1 GATTTAGGCTCCATAACTTCCTATAGAATCCTTTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
19772159 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCGCA
66 CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCGCA
* * *
19772224 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTACCAATGGGATTCGAAAAATCCTGGCCGCGT
131 TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
* * *
19772289 CAGCATCAGAGAAAGTATCGGTAATAATATCTGGCCTT-CATTCTCTATTAGCATTATCAATTAA
196 CAGCATCAAAGAAAGTATCGGTAATAATCTCTCG-CTTCCATTCTCTATTAGCATTATCAATTAA
* * *
19772353 ATCAGCAACTATTAATACGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCAAACCAG
260 ACCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAG
19772418 GAATACATGCAT
325 GAATACATGCAT
19772430 GATTTA
1 GATTTA
19772436 AAATGGAATT
Statistics
Matches: 639, Mismatches: 38, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
336 636 1.00
337 3 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (336 bp):
GATTTAGGCTCCATAACTTCCTATAGAATCCTTTAGATGTGGCTTGTAATTCATTGAAAGTAGGA
CTAGGAATACCAGATTGTAATAGTTTGTAGGCACTCCGAACAAAGAACTCTCCTGAGGGTTCGCA
TCTCCACACCATCACATCCTCGTGTGGTTCTTTTGCCAATGGGATTCGAAATATCCTGGCCACGT
CAGCATCAAAGAAAGTATCGGTAATAATCTCTCGCTTCCATTCTCTATTAGCATTATCAATTAAA
CCAGCAACTATTAATATGTTATTATCACGAACCATGCTGCTCAATTTATAATCAACCGAACCAGG
AATACATGCAT
Found at i:19780296 original size:5 final size:5
Alignment explanation
Indices: 19780288--19780318 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
19780278 TAGGTTAGGA
19780288 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
19780319 TAATTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:19781110 original size:41 final size:40
Alignment explanation
Indices: 19781065--19781215 Score: 97
Period size: 41 Copynumber: 3.6 Consensus size: 40
19781055 ACCGTGCAGC
*
19781065 TCATAGAGCTGTGTGTTAGGCCGTGTGCCAAACCATGTGAG
1 TCATAGAAC-GTGTGTTAGGCCGTGTGCCAAACCATGTGAG
* * ** * **
19781106 TCATACAACCGTGTGTCACGATCGTGTCCCAAACTGTGTG-G
1 TCATAGAA-CGTGTGTTA-GGCCGTGTGCCAAACCATGTGAG
* * * *
19781147 CTCACACGATCATGTGTTAGGCCATGTGCCAAACCATGTGAG
1 -TCATA-GAACGTGTGTTAGGCCGTGTGCCAAACCATGTGAG
* * * *
19781189 TCACACGAACATGTGTCAGGACGTGTG
1 TCATA-GAACGTGTGTTAGGCCGTGTG
19781216 TCAGGCCATA
Statistics
Matches: 82, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
41 52 0.63
42 29 0.35
43 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCATAGAACGTGTGTTAGGCCGTGTGCCAAACCATGTGAG
Found at i:19781178 original size:83 final size:83
Alignment explanation
Indices: 19781039--19781191 Score: 227
Period size: 83 Copynumber: 1.8 Consensus size: 83
19781029 ATCAACACCA
* * *
19781039 CACGATCGTGTCCCAAACCGTGCAGCTCATAGAGCTGTGTGTTAGGCCGTGTGCCAAACCATGTG
1 CACGATCGTGTCCCAAACCGTGCAGCTCACAGAGCTATGTGTTAGGCCATGTGCCAAACCATGTG
19781104 AGTCATACAACCGTGTGT
66 AGTCATACAACCGTGTGT
* ** *
19781122 CACGATCGTGTCCCAAACTGTGTGGCTCACACGATC-ATGTGTTAGGCCATGTGCCAAACCATGT
1 CACGATCGTGTCCCAAACCGTGCAGCTCACA-GAGCTATGTGTTAGGCCATGTGCCAAACCATGT
19781186 GAGTCA
65 GAGTCA
19781192 CACGAACATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 59 0.95
84 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (83 bp):
CACGATCGTGTCCCAAACCGTGCAGCTCACAGAGCTATGTGTTAGGCCATGTGCCAAACCATGTG
AGTCATACAACCGTGTGT
Found at i:19781204 original size:83 final size:83
Alignment explanation
Indices: 19781039--19781214 Score: 223
Period size: 83 Copynumber: 2.1 Consensus size: 83
19781029 ATCAACACCA
* * *
19781039 CACGATCGTGTCCCAAACCGTGCAGCTCATAGAGCTGTGTGTTAGGCCGTGTGCCAAACCATGTG
1 CACGATCGTGTCCCAAACCGTGCAGCTCACAGAGCTATGTGTTAGGCCATGTGCCAAACCATGTG
* *
19781104 AGTCATACAACCGTGTGT
66 AGTCACACAACCATGTGT
* ** *
19781122 CACGATCGTGTCCCAAACTGTGTGGCTCACACGATC-ATGTGTTAGGCCATGTGCCAAACCATGT
1 CACGATCGTGTCCCAAACCGTGCAGCTCACA-GAGCTATGTGTTAGGCCATGTGCCAAACCATGT
19781186 GAGTCACACGAA-CATGTGT
65 GAGTCACAC-AACCATGTGT
*
19781205 CAGGA-CGTGT
1 CACGATCGTGT
19781215 GTCAGGCCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
82 5 0.06
83 71 0.88
84 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (83 bp):
CACGATCGTGTCCCAAACCGTGCAGCTCACAGAGCTATGTGTTAGGCCATGTGCCAAACCATGTG
AGTCACACAACCATGTGT
Found at i:19791145 original size:14 final size:14
Alignment explanation
Indices: 19791126--19791153 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19791116 GAAACTTCTG
19791126 CAAAATTCATCATA
1 CAAAATTCATCATA
19791140 CAAAATTCATCATA
1 CAAAATTCATCATA
19791154 AAATAAAAGT
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:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
CAAAATTCATCATA
Found at i:19794691 original size:69 final size:67
Alignment explanation
Indices: 19794623--19795063 Score: 259
Period size: 69 Copynumber: 6.5 Consensus size: 67
19794613 AAGTATTTAA
* * *
19794623 AAAAAGTAA-AATAATAAATAAATAAATTGATAAAACAAATATGAATAATATCGAAATTAAATGC
1 AAAAAGTAAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAATAT-TAAATTAAATGC
19794687 TTT
65 TTT
* * *
19794690 -AAAAGTAAAAGAATAAATAAGTGAATAAATAGATAAAACAAATATAAATAATATTAAATTTAA-
1 AAAAAGT--AAGAAT-AATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAAT
19794753 GCATTT
63 GC-TTT
* * * * *
19794759 AAAAAGTAAAAGAATAATAAATAAGTAAATAGATAAAATAAGTACACATAATATTAAATTTAAAT
1 AAAAAGT--AAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAA-TTAAAT
*
19794824 -ATTT
63 GCTTT
* * *
19794828 TAAAAGTAA-AATAATGATAAATAAATAAATAAATTGATAAA-AAATATAAATAATATTACATTT
1 AAAAAGTAAGAAT-A--ATAAATAAATAAATAGA-T-A-AAACAAATATAAATAATATTA-AATT
*
19794891 AAAT-ATTT
59 AAATGCTTT
* * * * * * * * *
19794899 -AAAAGATAAAAGAATAATGAACAAATAAATAAATATAATAGATATGAATAATATTAAATT-TAG
1 AAAAAG-T--AAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAAT
*
19794962 GTATTT
63 G-CTTT
* * * * ** *
19794968 AAAAAAT-A-AAGAAT-AATAAAT--AT--ATAAAACAAATATAAATAATATTAACTTTAGGGAT
1 AAAAAGTAAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAATGCT
19795026 TT
66 TT
* *
19795028 AAAAAGTGAAGAATAAT-AATGAAATTAATATATAAA
1 AAAAAGT-AAGAATAATAAAT-AAATAAATAGATAAA
19795064 TAATGAAATT
Statistics
Matches: 300, Mismatches: 42, Indels: 63
0.74 0.10 0.16
Matches are distributed among these distances:
60 33 0.11
61 2 0.01
62 3 0.01
63 8 0.03
64 10 0.03
65 5 0.02
66 12 0.04
67 4 0.01
68 14 0.05
69 94 0.31
70 64 0.21
71 41 0.14
72 4 0.01
73 3 0.01
74 3 0.01
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (67 bp):
AAAAAGTAAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAATATTAAATTAAATGCT
TT
Found at i:19794717 original size:70 final size:68
Alignment explanation
Indices: 19794624--19795015 Score: 291
Period size: 69 Copynumber: 5.8 Consensus size: 68
19794614 AGTATTTAAA
* * * *
19794624 AAAAGTAAAATAATAAAT--A-AATAAATTGATAAAACAAATATGAATAATATCGAAATTAAATG
1 AAAAGTAAAAGAATAAATAAATAATAAATAGATAAAACAAATATAAATAATAT-TAAATTAAATG
19794686 CTTT
65 CTTT
* *
19794690 AAAAGTAAAAGAATAAATAAGTGAATAAATAGATAAAACAAATATAAATAATATTAAATTTAA-G
1 AAAAGTAAAAGAATAAATAAAT-AATAAATAGATAAAACAAATATAAATAATATTAAATTAAATG
19794754 CATTT
65 C-TTT
* * * *
19794759 AAAAAGTAAAAGAAT-AATAAATAAGTAAATAGATAAAATAAGTACACATAATATTAAATTTAAA
1 -AAAAGTAAAAGAATAAATAAATAA-TAAATAGATAAAACAAATATAAATAATATTAAA-TTAAA
**
19794823 TATTTT
63 TGCTTT
* * *
19794829 AAAAGTAAAATAATGATAAATAAATAAATAAATTGAT-AAA-AAATATAAATAATATTACATTTA
1 AAAAGTAAAA-GA--ATAAATAAAT-AATAAATAGATAAAACAAATATAAATAATATTA-AATTA
*
19794892 AAT-ATTT
61 AATGCTTT
* * * * * *
19794899 AAAAGATAAAAGAAT-AATGAACA-AATAAATAAATATAATAGATATGAATAATATTAAATT-TA
1 AAAAG-TAAAAGAATAAAT-AA-ATAATAAATAGATAAAACAAATATAAATAATATTAAATTAAA
*
19794961 -GGTATT
63 TGCT-TT
* *
19794967 -----TAAAA-AATAAA-GAATAATAAATATATAAAACAAATATAAATAATATTAA
1 AAAAGTAAAAGAATAAATAAATAATAAATAGATAAAACAAATATAAATAATATTAA
19795016 CTTTAGGGAT
Statistics
Matches: 266, Mismatches: 36, Indels: 54
0.75 0.10 0.15
Matches are distributed among these distances:
59 1 0.00
60 30 0.11
61 3 0.01
62 7 0.03
66 17 0.06
67 14 0.05
68 15 0.06
69 71 0.27
70 60 0.23
71 25 0.09
72 6 0.02
73 15 0.06
74 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (68 bp):
AAAAGTAAAAGAATAAATAAATAATAAATAGATAAAACAAATATAAATAATATTAAATTAAATGC
TTT
Found at i:19794794 original size:19 final size:18
Alignment explanation
Indices: 19794758--19794802 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
19794748 TTTAAGCATT
19794758 TAAA-AAGTAAAAGAATAA
1 TAAATAAGTAAAAGAAT-A
19794776 TAAATAAGTAAATAG-ATA
1 TAAATAAGTAAA-AGAATA
19794794 -AAATAAGTA
1 TAAATAAGTA
19794803 CACATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 9 0.36
18 5 0.20
19 9 0.36
20 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (18 bp):
TAAATAAGTAAAAGAATA
Found at i:19794811 original size:139 final size:135
Alignment explanation
Indices: 19794570--19795063 Score: 401
Period size: 140 Copynumber: 3.6 Consensus size: 135
19794560 CTTAAAAAAG
* * * * * *
19794570 AATAATAAATTGATAAATAGATAAAACAAATAACATTAAATTGAAGTATTTAAAAA--AAGTAA-
1 AATAATAAATAGATAAA-ACA-AATATAAATAATATTAAATTTAAGTATTTAAAAAGTAA--AAG
* * * *
19794632 AATAATAAATAAATAAATTGATAAAACAAATATGAATAATATCGAAATTAAATGCTTTAAAAGTA
62 AATAATAAATAAATAAATAGATAAAATAAGTATGAATAATAT-TAAATTAAATGCTTTAAAAGTA
19794697 AAAGAATAAAT
126 AAA-AATAAAT
*
19794708 AAGTGAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGCATTTAAAAAGTAAAAGAA
1 AA-T-AATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAA
* * **
19794773 TAATAAATAAGTAAATAGATAAAATAAGTA-CACATAATATTAAATTTAAATATTTTAAAAGTAA
64 TAATAAATAAATAAATAGATAAAATAAGTATGA-ATAATATTAAA-TTAAATGCTTTAAAAGT-A
19794837 AATAATGATAAAT
126 AA-AA--ATAAAT
* * *
19794850 AAATAAATAAATTGAT-AAA-AAATATAAATAATATTACATTTAAATATTT-AAAAGATAAAAGA
1 -AAT-AATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAG-TAAAAGA
* * * * * *
19794912 ATAATGAACAAATAAATAAATATAAT-AGATATGAATAATATTAAATT-TA-GGTATT-----TA
63 ATAATAAATAAATAAATAGATAAAATAAG-TATGAATAATATTAAATTAAATGCT-TTAAAAGTA
*
19794969 AAAAATAAAG
126 AAAAATAAAT
* * * * *
19794979 AATAATAAATATATAAAACAAATATAAATAATATTAACTTTAGGGATTTAAAAAGT-GAAGAATA
1 AATAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATA
* *
19795043 AT-AATGAAATTAATATATAAA
66 ATAAAT-AAATAAATAGATAAA
19795064 TAATGAAATT
Statistics
Matches: 294, Mismatches: 42, Indels: 50
0.76 0.11 0.13
Matches are distributed among these distances:
127 11 0.04
128 27 0.09
129 31 0.11
130 5 0.02
131 2 0.01
132 3 0.01
133 1 0.00
137 1 0.00
138 40 0.14
139 62 0.21
140 87 0.30
141 5 0.02
142 17 0.06
143 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.30
Consensus pattern (135 bp):
AATAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATA
ATAAATAAATAAATAGATAAAATAAGTATGAATAATATTAAATTAAATGCTTTAAAAGTAAAAAA
TAAAT
Found at i:19794878 original size:21 final size:20
Alignment explanation
Indices: 19794842--19794880 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19794832 AGTAAAATAA
*
19794842 TGATAAATAAATAAATAAAT
1 TGATAAAAAAATAAATAAAT
19794862 TGATAAAAAATATAAATAA
1 TGATAAAAAA-ATAAATAA
19794881 TATTACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
TGATAAAAAAATAAATAAAT
Found at i:19794957 original size:79 final size:71
Alignment explanation
Indices: 19794635--19794942 Score: 274
Period size: 70 Copynumber: 4.3 Consensus size: 71
19794625 AAAGTAAAAT
* * * **
19794635 AATAAATAAATAAATTGATAAAACAAATATGAATAATATCGAAA-TTAAATGCTTTAAAAGTAAA
1 AATAAATAAATAAATAGAT-AAA-AAATATAAATAATAT-TAAATTTAAATATTTTAAAAGTAAA
*
19794699 AGAAT---A
63 ATAATGACA
* * ** *
19794705 AATAAGTGAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGCATTTAAAAAGTAAAA
1 AATAAATAAATAAATAGAT-AAA-AAATATAAATAATATTAAATTTAAATATTTTAAAAGTAAAA
*
19794770 GAAT----
64 TAATGACA
* * *
19794774 AATAAATAAGTAAATAGATAAAATAAGTACACATAATATTAAATTTAAATATTTTAAAAGTAAAA
1 AATAAATAAATAAATAGATAAAA-AA-TATAAATAATATTAAATTTAAATATTTTAAAAGTAAAA
*
19794839 TAATGATA
64 TAATGACA
* *
19794847 AATAAATAAATAAATTGATAAAAAATATAAATAATATTACATTTAAATA-TTTAAAAGATAAAAG
1 AATAAATAAATAAATAGATAAAAAATATAAATAATATTAAATTTAAATATTTTAAAAG-T--AA-
19794911 AATAATGAACA
62 AATAATG-ACA
19794922 AATAAATAAATATAATAGATA
1 AATAAATAAATA-AATAGATA
19794943 TGAATAATAT
Statistics
Matches: 199, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
67 1 0.01
68 5 0.03
69 55 0.28
70 63 0.32
71 22 0.11
72 2 0.01
73 23 0.12
74 7 0.04
75 14 0.07
76 7 0.04
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (71 bp):
AATAAATAAATAAATAGATAAAAAATATAAATAATATTAAATTTAAATATTTTAAAAGTAAAATA
ATGACA
Found at i:19795021 original size:60 final size:60
Alignment explanation
Indices: 19794922--19795046 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
19794912 ATAATGAACA
* * * * *
19794922 AATAAATAAATATAATAGATATGAATAATATTAAATTTAGGTATTTAAAAAATAAAGAAT
1 AATAAATAAATAAAACAAATATAAATAATATTAAATTTAGGGATTTAAAAAATAAAGAAT
* * * *
19794982 AATAAATATATAAAACAAATATAAATAATATTAACTTTAGGGATTTAAAAAGTGAAGAAT
1 AATAAATAAATAAAACAAATATAAATAATATTAAATTTAGGGATTTAAAAAATAAAGAAT
19795042 AATAA
1 AATAA
19795047 TGAAATTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (60 bp):
AATAAATAAATAAAACAAATATAAATAATATTAAATTTAGGGATTTAAAAAATAAAGAAT
Found at i:19796677 original size:44 final size:44
Alignment explanation
Indices: 19796603--19796826 Score: 202
Period size: 44 Copynumber: 5.1 Consensus size: 44
19796593 GATTTGTAAC
* * * * * *
19796603 TTGTAACTTCAATCTGTTCTACTACAACTTCAAGGAAATGAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
* * * *
19796647 TTGTAGCTTTATTTTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
* * * *
19796691 TCGTAACTTCAATCTGCTCCGCTGCAACTTC-AGAGAGATTAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGAT
* * *
19796735 TTGTGGCTTCAATCTGCTCTACTGCAACTTC-AGAGAGATAAAAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGAT
** * * * *
19796779 TAAT-TCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
19796822 TTGTA
1 TTGTA
19796827 TCTACTCCAT
Statistics
Matches: 142, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
43 34 0.24
44 108 0.76
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
Found at i:19796759 original size:88 final size:88
Alignment explanation
Indices: 19796605--19796826 Score: 241
Period size: 88 Copynumber: 2.5 Consensus size: 88
19796595 TTTGTAACTT
* * * * * * * *
19796605 GTAACTTCAATCTGTTCTACTACAACTTCA-AGGAAATGAGATTTGTAGCTTTATTTTGCTCCAC
1 GTAACTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTCAATCTGCTCCAC
* * *
19796669 TGCAACTTCAGGGAGATAAGATTC
65 TGCAACTTCAGAGAGATAAAATTA
* * * *
19796693 GTAACTTCAATCTGCTCCGCTGCAACTTCAGAGAGATTAGATTTGTGGCTTCAATCTGCTCTACT
1 GTAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
19796758 GCAACTTCAGAGAGATAAAATTA
66 GCAACTTCAGAGAGATAAAATTA
* * * * *
19796781 AT-TCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTA
1 GTAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTA
19796827 TCTACTCCAT
Statistics
Matches: 111, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
87 37 0.33
88 73 0.66
89 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (88 bp):
GTAACTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
GCAACTTCAGAGAGATAAAATTA
Found at i:19801079 original size:30 final size:30
Alignment explanation
Indices: 19801043--19801099 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
19801033 AATATCATAG
*
19801043 GTACATGTCAAGATCAAAAGAACATTTTAA
1 GTACATGTCAAGATCAAAAAAACATTTTAA
19801073 GTACATGTCAAGATCAAAAAAACATTT
1 GTACATGTCAAGATCAAAAAAACATTT
19801100 CACCAACAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (30 bp):
GTACATGTCAAGATCAAAAAAACATTTTAA
Found at i:19808927 original size:26 final size:25
Alignment explanation
Indices: 19808880--19808928 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
19808870 CTTATTTGTT
* *
19808880 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
19808905 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
19808929 AGTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:19809545 original size:9 final size:9
Alignment explanation
Indices: 19809521--19809557 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
19809511 TTGGGAGGGT
19809521 TTGAGAGAA
1 TTGAGAGAA
19809530 TTTGAGAGAA
1 -TTGAGAGAA
*
19809540 TTGAGAGAG
1 TTGAGAGAA
19809549 TTGAGAGAA
1 TTGAGAGAA
19809558 GGATGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:19820540 original size:15 final size:15
Alignment explanation
Indices: 19820520--19820549 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19820510 AAGTATAGTA
19820520 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
*
19820535 AAATATTTAAAAAAT
1 AAATATTAAAAAAAT
19820550 TATTAATAGT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:19823298 original size:30 final size:30
Alignment explanation
Indices: 19823264--19823326 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
19823254 ACTTATTTTA
19823264 TTGTTAATCTTGTTATTATTTTAAAGGCAT
1 TTGTTAATCTTGTTATTATTTTAAAGGCAT
* *
19823294 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATCTTGTTATTATTTTAAAGGCAT
19823324 TTG
1 TTG
19823327 CTTGTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATCTTGTTATTATTTTAAAGGCAT
Found at i:19823482 original size:16 final size:17
Alignment explanation
Indices: 19823455--19823493 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
19823445 TTTAATTTTC
19823455 AAAATTTCAAAAAAAAA
1 AAAATTTCAAAAAAAAA
*
19823472 AAAATTT-AAAAAAATA
1 AAAATTTCAAAAAAAAA
19823488 AAAATT
1 AAAATT
19823494 GCATTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATTTCAAAAAAAAA
Found at i:19823529 original size:30 final size:29
Alignment explanation
Indices: 19823489--19823604 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
19823479 AAAAAAATAA
* *
19823489 AAATTGCATTTTGACACCTAAACTTTTC-CT
1 AAATTTCATTTTGAC-CCTAAAC-TTTCATT
*
19823519 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCATT
* *
19823549 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCATT
* * *
19823579 AAATTTCATTTTAATCCTAAATTTTC
1 AAATTTCATTTTGACCCTAAACTTTC
19823605 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.22
30 54 0.74
31 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCATT
Found at i:19823855 original size:20 final size:20
Alignment explanation
Indices: 19823832--19823889 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
19823822 AAAACTTGCA
19823832 AAAAAGAGAAAAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
* *
19823852 AAAAGGAGAGAAAG-AGAGG
1 AAAAAGAGAAAAAGAAGAGG
* *
19823871 AGAAAG-G-AGAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
19823889 A
1 A
19823890 GAGCCTCCGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 9 0.29
20 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAAAAAGAAGAGG
Found at i:19823861 original size:22 final size:20
Alignment explanation
Indices: 19823837--19823880 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19823827 TTGCAAAAAA
*
19823837 GAGAAAAAGAAGAGGA-AAAG
1 GAGAGAAAG-AGAGGAGAAAG
19823857 GAGAGAAAGAGAGGAGAAAG
1 GAGAGAAAGAGAGGAGAAAG
19823877 GAGA
1 GAGA
19823881 AGAAGAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (20 bp):
GAGAGAAAGAGAGGAGAAAG
Found at i:19823931 original size:18 final size:17
Alignment explanation
Indices: 19823908--19823950 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
19823898 GACAGCGGCT
19823908 CGACGGCGAAGACGACGG
1 CGACGGCGAAG-CGACGG
*
19823926 CGACGGCACAAGCGACGG
1 CGACGGC-GAAGCGACGG
19823944 CG-CGGCG
1 CGACGGCG
19823951 CGGCGGCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.23, C:0.33, G:0.44, T:0.00
Consensus pattern (17 bp):
CGACGGCGAAGCGACGG
Found at i:19823974 original size:3 final size:3
Alignment explanation
Indices: 19823968--19823995 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19823958 TAGGGCTCGT
19823968 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
19823996 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19826076 original size:18 final size:19
Alignment explanation
Indices: 19826033--19826078 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
19826023 TGATATATAT
19826033 AACAT-ATATAAAAAAACA
1 AACATAATATAAAAAAACA
* *
19826051 ATAAATAATATAAAAATA-A
1 A-ACATAATATAAAAAAACA
19826070 AACATAATA
1 AACATAATA
19826079 AAGATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 10 0.43
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (19 bp):
AACATAATATAAAAAAACA
Found at i:19826136 original size:5 final size:5
Alignment explanation
Indices: 19826126--19826181 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
19826116 AAAATAATAG
* *
19826126 ATATA ATATA AAATAA CATATA AAATA ATATA TATATA AT-TA ATA-A
1 ATATA ATATA ATAT-A -ATATA ATATA ATATA -ATATA ATATA ATATA
19826172 ATATA ATATA
1 ATATA ATATA
19826182 TGTGAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 8 0.19
5 24 0.57
6 7 0.17
7 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:19826273 original size:16 final size:16
Alignment explanation
Indices: 19826212--19826319 Score: 69
Period size: 16 Copynumber: 6.4 Consensus size: 16
19826202 TAAAAGAGAT
*
19826212 GTAAAATAATATTTAA
1 GTAAAATAATATATAA
*
19826228 GAAAAATAATACATAATAA
1 GTAAAATAAT--AT-ATAA
19826247 GTAATAATAATATATAA
1 GTAA-AATAATATATAA
*
19826264 TTAAAATAATACTTATAA
1 GTAAAATAATA--TATAA
*
19826282 -TCAAAATAATTTTATAA
1 GT-AAAATAA-TATATAA
* *
19826299 -T-ATATAATATAAAA
1 GTAAAATAATATATAA
19826313 GTAAAAT
1 GTAAAAT
19826320 TAAAATAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 19 0.26
17 14 0.19
18 16 0.22
19 7 0.10
20 6 0.08
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (16 bp):
GTAAAATAATATATAA
Done.