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 149 of 187
Found at i:44875845 original size:21 final size:21
Alignment explanation
Indices: 44875816--44875855 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
44875806 TCCCTCAAAC
44875816 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
44875838 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
44875856 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:44876490 original size:5 final size:5
Alignment explanation
Indices: 44876480--44876506 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
44876470 AAAATTTTTT
44876480 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
44876507 CGAATGCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:44879950 original size:20 final size:20
Alignment explanation
Indices: 44879914--44879954 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
44879904 AATTTTAATG
44879914 TTTGGGCTAGGTTAATTTGGGT
1 TTTGGGCTA-GTTAA-TTGGGT
44879936 TTTGGGCTA-TTAATTGGGT
1 TTTGGGCTAGTTAATTGGGT
44879955 CTGTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 4 0.21
22 9 0.47
ACGTcount: A:0.15, C:0.05, G:0.34, T:0.46
Consensus pattern (20 bp):
TTTGGGCTAGTTAATTGGGT
Found at i:44880522 original size:44 final size:44
Alignment explanation
Indices: 44880457--44881402 Score: 885
Period size: 44 Copynumber: 21.4 Consensus size: 44
44880447 ACCAGTATGG
* * *
44880457 GAAGACAAGATCTACTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACAT
* * ** * ***
44880501 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ATGTCAATACAT
* * * * *
44880546 GAAGACAAGATCTGTTATCTTTGATATACTTCACTG-CTAGTACAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGTC-AATACAT
* * * * *
44880591 GAAGACAATATTTGCTTTCTTCGATCTACTTCACGTCAGTACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACAT
* * * ** * *
44880635 GAAGACAATATCTGTTTTCTTTTTTATCTACTTCATGCCAGTACAT
1 GAAGACAAGATCTGCTATC--TTCGATCTACTTCATGTCAATACAT
* * * *
44880681 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACG-CTAGTACCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTC-AATACAT
*
44880725 GAAGACACGATCTGCTATC-TCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
***
44880769 GAAGACAAGATCCATTATCTTCGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACAT
* *
44880813 GAAGATAAGATATGCTATC-TCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
44880857 GAAGACAAGATCTGCTATC-TCTGATCTAC-TCTATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTC-ATGTCAATACAT
*** * ** * ***
44880901 GAAGACAAGATCCATTACCTTCGATCTACTTCACTACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGTCAATACAT
44880946 GAAGACAAGATCTGCTATC-TCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
44880990 GAAGACAAGATCTGCTATC-TCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
* *** * *
44881034 GAAGACAATATCCATTACCTTCGATCTAATTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACAT
* * * *
44881078 GAAAATAAGATATGTTATC-TCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
* * * *
44881122 GAAGGCAATACCTGCTATC-TCTGATCTACTCCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
*
44881166 GAAGACAATATC--CATCATCTTCGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGC-T-ATCTTCGATCTACTTCATGTCAATACAT
* * *
44881210 GAAGATAAGATCTACTATC-TCTGATCTACTCCATGTCAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
* *
44881254 GAAGACAAGATCTACTATC-TCTGATCTACTTCATGTTAATACAT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACAT
* *** *** ***
44881298 GAAGCCAAGATCCATTATCTTCGATCTACTTCACCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCA-TGTCAATACAT
* * *
44881343 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACAT
44881387 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
44881403 GCTTTTTAGC
Statistics
Matches: 753, Mismatches: 123, Indels: 52
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.00
43 12 0.02
44 557 0.74
45 144 0.19
46 39 0.05
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACAT
Found at i:44880860 original size:132 final size:132
Alignment explanation
Indices: 44880457--44881402 Score: 1089
Period size: 132 Copynumber: 7.1 Consensus size: 132
44880447 ACCAGTATGG
* * *
44880457 GAAGACAAGATCTACTATCT-TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT-T
1 GAAGACAAGATCTGCTATCTCT-GATCTACTTCATGTCAATACATGAAGACAAGATC--CATTAT
* * * *** * * *
44880519 CTTCGATCTACTTCGCTACCAGTATGGGAAGACAAGATCTGTTATCTTTGATATACTTCACTG-C
63 CTTCGATCTACTTC-ATGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCA-TGTC
* *
44880583 TAGTACAG
126 -AATACAT
* * * * * * ** *
44880591 GAAGACAATATTTGCTTTCT-TCGATCTACTTCACGTCAGTACATGAAGACAATATCTGTTTTCT
1 GAAGACAAGATCTGCTATCTCT-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATC-
** * * *
44880655 TTTTTATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCT-TCGATCTACTTCACG-CT
64 -TTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTCT-GATCTACTTCATGTC-
* *
44880718 AGTACCT
126 AATACAT
*
44880725 GAAGACACGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
1 GAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
* * *
44880790 CGATCTACTTCATGTCAATACATGAAGATAAGATATGCTATCTCTGATCTACTTCATGTCAATAC
66 CGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATAC
44880855 AT
131 AT
*
44880857 GAAGACAAGATCTGCTATCTCTGATCTAC-TCTATGTCAATACATGAAGACAAGATCCATTACCT
1 GAAGACAAGATCTGCTATCTCTGATCTACTTC-ATGTCAATACATGAAGACAAGATCCATTATCT
* * ***
44880921 TCGATCTACTTCACTACCAGTATGGGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAAT
65 TCGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAAT
44880986 ACAT
129 ACAT
* *
44880990 GAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAATATCCATTACCTT
1 GAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
* * * * * *
44881055 CGATCTAATTCATGTCAATACATGAAAATAAGATATGTTATCTCTGATCTACTTCATGTCAATAC
66 CGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATAC
44881120 AT
131 AT
* * * * * *
44881122 GAAGGCAATACCTGCTATCTCTGATCTACTCCATGTCAATACATGAAGACAATATCCATCATCTT
1 GAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
* * * *
44881187 CGATCTACTTCATGTCAATACATGAAGATAAGATCTACTATCTCTGATCTACTCCATGTCAATAC
66 CGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATAC
44881252 AT
131 AT
* * *
44881254 GAAGACAAGATCTACTATCTCTGATCTACTTCATGTTAATACATGAAGCCAAGATCCATTATCTT
1 GAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
** *** * * *
44881319 CGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATA
66 CGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATA
44881384 CAT
130 CAT
44881387 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
44881403 GCTTTTTAGC
Statistics
Matches: 703, Mismatches: 97, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
131 2 0.00
132 360 0.51
133 181 0.26
134 113 0.16
135 36 0.05
136 11 0.02
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (132 bp):
GAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
CGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTATCTCTGATCTACTTCATGTCAATAC
AT
Found at i:44883696 original size:18 final size:18
Alignment explanation
Indices: 44883670--44883712 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
44883660 TGATTTGGCA
*
44883670 GAAAAAATCCAAAAAAAT
1 GAAAGAATCCAAAAAAAT
** *
44883688 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAAAAT
44883706 GAAAGAA
1 GAAAGAA
44883713 CATATGCTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.07, G:0.16, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAAAAT
Found at i:44887657 original size:11 final size:10
Alignment explanation
Indices: 44887637--44887670 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
44887627 AAAAGAAATG
44887637 TATAAATATA
1 TATAAATATA
44887647 TATATAATATA
1 TATA-AATATA
44887658 TATAAAGTATA
1 TATAAA-TATA
44887669 TA
1 TA
44887671 AAGGTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (10 bp):
TATAAATATA
Found at i:44887854 original size:14 final size:14
Alignment explanation
Indices: 44887835--44887874 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
44887825 TAGTAATAAT
*
44887835 TTTAAAAATAACAA
1 TTTAAAAAAAACAA
44887849 TTTAAAAAAAACAAA
1 TTTAAAAAAAAC-AA
*
44887864 TTGAAAAAAAA
1 TTTAAAAAAAA
44887875 AACAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (14 bp):
TTTAAAAAAAACAA
Found at i:44890355 original size:18 final size:17
Alignment explanation
Indices: 44890314--44890356 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
44890304 ACACAAGTAT
*
44890314 ATTATATTATAAAAATTA
1 ATTATA-TATAAAAAATA
*
44890332 ATTATATA-AAATAATA
1 ATTATATATAAAAAATA
44890348 ATTATATAT
1 ATTATATAT
44890357 TTATATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 14 0.64
17 2 0.09
18 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATATATAAAAAATA
Found at i:44897857 original size:30 final size:31
Alignment explanation
Indices: 44897809--44897881 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
44897799 TAACTTTAGT
* **
44897809 CCTTCAAATTTTTTATATTTATAATTTAACC
1 CCTTCAACTTTTGAATATTTATAATTTAACC
44897840 CC-TCAACTTTTGAATATTTATAATTTAACC
1 CCTTCAACTTTTGAATATTTATAATTTAACC
*
44897870 CCTTCAATTTTT
1 CCTTCAACTTTT
44897882 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.30, C:0.19, G:0.01, T:0.49
Consensus pattern (31 bp):
CCTTCAACTTTTGAATATTTATAATTTAACC
Found at i:44901362 original size:2 final size:2
Alignment explanation
Indices: 44901355--44901383 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44901345 TAAAAGATTA
44901355 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44901384 TAAACCCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44916859 original size:27 final size:27
Alignment explanation
Indices: 44916810--44916861 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
44916800 TTTTTGTTAA
* *
44916810 AAATTACCCGAAGTACCCTAATTACTC
1 AAATTACCCGAAGTAACCGAATTACTC
* *
44916837 AAATTACCTGAATTAACCGAATTAC
1 AAATTACCCGAAGTAACCGAATTAC
44916862 CGAAAAATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTACCCGAAGTAACCGAATTACTC
Found at i:44917877 original size:11 final size:11
Alignment explanation
Indices: 44917861--44917899 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
44917851 AAGAAGAACA
44917861 AGAAAAATTAG
1 AGAAAAATTAG
*
44917872 AGAAAAA-AAG
1 AGAAAAATTAG
44917882 AGAAAAATTAG
1 AGAAAAATTAG
*
44917893 GGAAAAA
1 AGAAAAA
44917900 AAATGGCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (11 bp):
AGAAAAATTAG
Found at i:44917885 original size:21 final size:21
Alignment explanation
Indices: 44917861--44917901 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44917851 AAGAAGAACA
44917861 AGAAAAATTAGAGAAAAAAAG
1 AGAAAAATTAGAGAAAAAAAG
*
44917882 AGAAAAATTAGGGAAAAAAA
1 AGAAAAATTAGAGAAAAAAA
44917902 ATGGCAGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.10
Consensus pattern (21 bp):
AGAAAAATTAGAGAAAAAAAG
Found at i:44918004 original size:39 final size:39
Alignment explanation
Indices: 44917961--44918058 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
44917951 GATTTAGTAA
**
44917961 ATTGGGTT-GGTAATTGGGTAGTCTTTTAGTTTTAGTTTT
1 ATTGGGTTGGGTAATTGGGTA-AATTTTAGTTTTAGTTTT
*
44918000 ATTGGGTTGGGTAATTGGATAAATTTTAGTTTTAGTTTT
1 ATTGGGTTGGGTAATTGGGTAAATTTTAGTTTTAGTTTT
*
44918039 ACTGGGTTGGGTAATTGGGT
1 ATTGGGTTGGGTAATTGGGT
44918059 TTGGGCTGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 42 0.79
40 11 0.21
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (39 bp):
ATTGGGTTGGGTAATTGGGTAAATTTTAGTTTTAGTTTT
Found at i:44920227 original size:16 final size:16
Alignment explanation
Indices: 44920206--44920236 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44920196 CTATGCATGC
*
44920206 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
44920222 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
44920237 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:44930641 original size:24 final size:25
Alignment explanation
Indices: 44930575--44930634 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
44930565 TAAATTTAAA
* *
44930575 TTTTAT-TTAATATTTAAAATTATT
1 TTTTATATAAATATATAAAATTATT
44930599 TTTTATATAAATATATAAAA-TATT
1 TTTTATATAAATATATAAAATTATT
44930623 TTTTA-A-AAATAT
1 TTTTATATAAATAT
44930635 CGATAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 15 0.45
25 11 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTATATAAATATATAAAATTATT
Found at i:44934858 original size:21 final size:21
Alignment explanation
Indices: 44934810--44934858 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
44934800 TACTTATATG
*
44934810 TGAG-AAATTTACTTATGCTA
1 TGAGTAAATTTACCTATGCTA
44934830 TG-GATAAATTTACCTATG-TCA
1 TGAG-TAAATTTACCTATGCT-A
44934851 TGAGTAAA
1 TGAGTAAA
44934859 CACACTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 19 0.79
22 1 0.04
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
TGAGTAAATTTACCTATGCTA
Found at i:44934925 original size:20 final size:20
Alignment explanation
Indices: 44934900--44934971 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
44934890 AAGCTTATGC
44934900 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
44934920 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
44934940 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
44934960 TAAGTAAATGGA
1 TAAGTAAATGGA
44934972 GTGGCTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:44934948 original size:15 final size:16
Alignment explanation
Indices: 44934930--44934962 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44934920 TAAGTAAATG
44934930 AAATGGAA-AGTAAGT
1 AAATGGAATAGTAAGT
*
44934945 AAATGGAATGGTAAGT
1 AAATGGAATAGTAAGT
44934961 AA
1 AA
44934963 GTAAATGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (16 bp):
AAATGGAATAGTAAGT
Found at i:44937971 original size:20 final size:20
Alignment explanation
Indices: 44937941--44937995 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
44937931 GACGATGAAT
44937941 CATTCCATTTACTTACTTTC
1 CATTCCATTTACTTACTTTC
44937961 CACTT-CATTTACTTACTTTC
1 CA-TTCCATTTACTTACTTTC
44937981 CATTCCATTTACTTA
1 CATTCCATTTACTTA
44937996 GCATAAGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (20 bp):
CATTCCATTTACTTACTTTC
Found at i:44939428 original size:18 final size:18
Alignment explanation
Indices: 44939405--44939442 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
44939395 CAAAATCACT
44939405 TAACAA-AATACTTACAAA
1 TAACAACAATACTT-CAAA
44939423 TAACAACTAATACTTCAAA
1 TAACAAC-AATACTTCAAA
44939442 T
1 T
44939443 TCATCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.26
Consensus pattern (18 bp):
TAACAACAATACTTCAAA
Found at i:44945109 original size:30 final size:28
Alignment explanation
Indices: 44945047--44945122 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 28
44945037 TTATTGTTGT
* *
44945047 TATTATAATTATTATTATTACTACTTTC
1 TATTATTATTAATATTATTACTACTTTC
44945075 -ATTATTATTAATATTATTACTA-TTACTGC
1 TATTATTATTAATATTATTACTACTT--T-C
44945104 TATTATTGA-TAATATTATT
1 TATTATT-ATTAATATTATT
44945123 TGCTTATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 2 0.05
27 20 0.49
28 1 0.02
29 1 0.02
30 16 0.39
31 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (28 bp):
TATTATTATTAATATTATTACTACTTTC
Found at i:44945110 original size:3 final size:3
Alignment explanation
Indices: 44945033--44945099 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
44945023 TAATATTAGG
* * * * *
44945033 ATT ATT ATT GTT GTT ATT ATA ATT ATT ATT ATT ACT ACTT -TC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* *
44945078 ATT ATT AAT ATT ATT ACT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
44945100 CTGCTATTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
2 1 0.02
3 48 0.96
4 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:44945463 original size:29 final size:28
Alignment explanation
Indices: 44945429--44945504 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
44945419 TTCTTTCAAA
* *
44945429 TATTTTAACATCTTTAATTCATTTCAACT
1 TATTTTAAAAT-TTTAATTCATTTAAACT
* * *
44945458 TATTTTAATATTGTTCATTTATTTAAACT
1 TATTTTAAAATT-TTAATTCATTTAAACT
44945487 TATTTTAAAATTTTAATT
1 TATTTTAAAATTTTAATT
44945505 TACATATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (28 bp):
TATTTTAAAATTTTAATTCATTTAAACT
Found at i:44957959 original size:44 final size:44
Alignment explanation
Indices: 44957896--44958234 Score: 195
Period size: 44 Copynumber: 7.8 Consensus size: 44
44957886 GGCAGATCTC
* *
44957896 ATCTCCCTGAAGTTACAGTGGAGCATATTGAAGCCAATAATCAT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCAT
* ***** *
44957940 ATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGATGGCGAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCAATAATCAT
* * *
44957985 ATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCCAATAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCAT
* * * * *
44958029 ATCTCCCTGAAGTTGCAGTGGTA-CGGATTAAAACCAGA-GATCTT
1 ATCTCCCTGAAGTTGCAGTGG-AGCAGATTGAAGCCA-ATAATCAT
* ** * * * * ** *
44958073 ATCTCTCTGAAGTTATAGTAGAGCAGATCGCA-TC-A-GGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCAT
* * * ** *** *
44958114 ATCTTCCTAAAGTTGCAATGGAGCAGA-CCAAATAAATCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAAT-AATCAT
* * * * * * *
44958158 ATTTCCCTGAAGCTGCAGTGGAGTATATTAAAGCCAATAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCAT
* *
44958202 ATCTCCCTGAAGTTGCAGTGGAACAGACTGAAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
44958235 ATATTAAATT
Statistics
Matches: 221, Mismatches: 65, Indels: 18
0.73 0.21 0.06
Matches are distributed among these distances:
40 2 0.01
41 27 0.12
42 1 0.00
43 2 0.01
44 147 0.67
45 42 0.19
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCAT
Found at i:44958035 original size:89 final size:89
Alignment explanation
Indices: 44957891--44958057 Score: 264
Period size: 89 Copynumber: 1.9 Consensus size: 89
44957881 ATTATGGCAG
* * *
44957891 ATCTCATCTCCCTGAAGTTACAGTGGAGCATATTGAAGCCAATAATCATATCTCCCTGAAGTTGC
1 ATCTCATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGCCAATAATCATATCTCCCTGAAGTTGC
44957956 AGTGG-AGCGGATTGAAGATGGCGA
66 AGTGGTA-CGGATTGAAGATGGCGA
* * *
44957980 ATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGC
1 ATCTCATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGCCAATAATCATATCTCCCTGAAGTTGC
44958045 AGTGGTACGGATT
66 AGTGGTACGGATT
44958058 AAAACCAGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 70 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (89 bp):
ATCTCATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGCCAATAATCATATCTCCCTGAAGTTGC
AGTGGTACGGATTGAAGATGGCGA
Found at i:44958940 original size:9 final size:8
Alignment explanation
Indices: 44958923--44958956 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
44958913 TTACCTTCTG
44958923 TTTTTTTA
1 TTTTTTTA
44958931 TTTATTTTA
1 TTT-TTTTA
44958940 TTTTATTTA
1 TTTT-TTTA
44958949 TTTTTTTA
1 TTTTTTTA
44958957 ATCGGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:44958943 original size:14 final size:14
Alignment explanation
Indices: 44958926--44958952 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44958916 CCTTCTGTTT
44958926 TTTTATTTATTTTA
1 TTTTATTTATTTTA
44958940 TTTTATTTATTTT
1 TTTTATTTATTTT
44958953 TTTAATCGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:44960130 original size:28 final size:27
Alignment explanation
Indices: 44960067--44960131 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
44960057 TTTTAACATC
* * *
44960067 TTTAATTCATTTCAACTTTTTTAATAT
1 TTTAATTTATTTAAACTTTTTAAATAT
44960094 TGTTAATTTATTTAAACTTATTTAAATAT
1 T-TTAATTTATTTAAACTT-TTTAAATAT
44960123 TTTAATTTA
1 TTTAATTTA
44960132 CATATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.70
29 9 0.27
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTAATTTATTTAAACTTTTTAAATAT
Found at i:44962922 original size:40 final size:40
Alignment explanation
Indices: 44962867--44963030 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 40
44962857 GTGTTTGGAT
* * * *
44962867 AAAAAATGCCGCTAAAAATCAAGAATTAGCGGCTCTTTCC
1 AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTCC
*
44962907 AAAAAATGCCTCTAAAGATCGAGCATTAGCGGCGCTTTCC
1 AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTCC
* * **
44962947 AAAAAACGCCGCTAAAGATCGAGCATTAGCGGTGCTTTTT
1 AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTCC
** * * * *
44962987 GGAAAACGCCGCTAAAAAT-TAGCATTAGCGGCGTTTTCC
1 AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTCC
44963026 AAAAA
1 AAAAA
44963031 GCGCCGCGAA
Statistics
Matches: 104, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 18 0.17
40 86 0.83
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTCC
Found at i:44963306 original size:22 final size:21
Alignment explanation
Indices: 44963281--44963330 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
44963271 GAGTTACTAT
*
44963281 TTTAAGGTTTAGGGATTATGTG
1 TTTAAGGATTAGGGATTATG-G
* *
44963303 TTTATGGATTATGGATTATGG
1 TTTAAGGATTAGGGATTATGG
44963324 TTTAAGG
1 TTTAAGG
44963331 GTTGAGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTAGGGATTATGG
Found at i:44963894 original size:39 final size:38
Alignment explanation
Indices: 44963824--44963900 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
44963814 TAATTAAAAC
* * *
44963824 ATATAATATTCAAAAATAAATATTTTAAAATCATAAATT
1 ATATAACATTCAAAAATAAATAATTGAAAATCA-AAATT
*
44963863 ATATAACATTCAAAAATAAATAATTGGAAATCAAAATT
1 ATATAACATTCAAAAATAAATAATTGAAAATCAAAATT
44963901 TAAGTAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (38 bp):
ATATAACATTCAAAAATAAATAATTGAAAATCAAAATT
Found at i:44964305 original size:23 final size:23
Alignment explanation
Indices: 44964268--44964311 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44964258 CCACTTAACT
*
44964268 AATAATTTTAGCAGA-TAAAATA
1 AATAATTTTAACAGATTAAAATA
44964290 AATAATTTTTAACAGATTAAAA
1 AATAA-TTTTAACAGATTAAAA
44964312 CGACATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (23 bp):
AATAATTTTAACAGATTAAAATA
Found at i:44964703 original size:29 final size:29
Alignment explanation
Indices: 44964607--44964709 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
44964597 GGCCCTTGAT
*
44964607 TTTATTTTATTTTTCCAGTATTTTTCCTC
1 TTTATTTTGTTTTTCCAGTATTTTTCCTC
* * * **
44964636 TTTATTTTCTTCGCTT-CA-TTTTCTTTGAGAT-
1 TTTATTTTGTT--TTTCCAGTATT-TTT--CCTC
44964667 TTTATTTTGTTTTTCCAGTATTTTTCCTC
1 TTTATTTTGTTTTTCCAGTATTTTTCCTC
*
44964696 TTTATTTTGGTTTT
1 TTTATTTTGTTTTT
44964710 AATTTTTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
28 1 0.02
29 28 0.51
30 10 0.18
31 15 0.27
32 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.08, T:0.66
Consensus pattern (29 bp):
TTTATTTTGTTTTTCCAGTATTTTTCCTC
Found at i:44966726 original size:29 final size:29
Alignment explanation
Indices: 44966630--44966732 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
44966620 GGTCCTTGAT
*
44966630 TTTATTTTATTTTTCCAGTATTTTTCCTC
1 TTTATTTTGTTTTTCCAGTATTTTTCCTC
* * * **
44966659 TTTATTTTCTTCGCTT-CA-TTTTCTTTGAGAT-
1 TTTATTTTGTT--TTTCCAGTATT-TTT--CCTC
44966690 TTTATTTTGTTTTTCCAGTATTTTTCCTC
1 TTTATTTTGTTTTTCCAGTATTTTTCCTC
*
44966719 TTTATTTTGGTTTT
1 TTTATTTTGTTTTT
44966733 AATTTTTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
28 1 0.02
29 28 0.51
30 10 0.18
31 15 0.27
32 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.08, T:0.66
Consensus pattern (29 bp):
TTTATTTTGTTTTTCCAGTATTTTTCCTC
Found at i:44969148 original size:43 final size:43
Alignment explanation
Indices: 44969083--44969173 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
44969073 CTTTGAGTTC
* * *
44969083 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* * *
44969125 ATTACCAAGATTTACTTGGTTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
44969168 ATTACC
1 ATTACC
44969174 TTGCAATGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:44969623 original size:43 final size:43
Alignment explanation
Indices: 44969513--44969665 Score: 136
Period size: 42 Copynumber: 3.6 Consensus size: 43
44969503 TAATTTTTTT
* * * **
44969513 TAAAGGTTATGTT-TTTAGCGGTGTTTTTGCTAAAAGTTTCGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTGTGATAAAAGGCTCGC
* *
44969555 TAAATGTT-TGTTCTTTAGTGGCGTTTGTGATAAAAGCGCT-GC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTGTGATAAAAG-GCTCGC
* *
44969597 TAAAGGTTATGTTCTTTAGCGACGTTTGTGA-CAAAGTGC-CGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTGTGATAAAAG-GCTCGC
* * **
44969639 TAAATGTCATGACCTTTAGCGGCGTTT
1 TAAAGGTTATGTTCTTTAGCGGCGTTT
44969666 TTCACATAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.04
42 65 0.72
43 21 0.23
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (43 bp):
TAAAGGTTATGTTCTTTAGCGGCGTTTGTGATAAAAGGCTCGC
Found at i:44971042 original size:107 final size:107
Alignment explanation
Indices: 44970881--44971090 Score: 296
Period size: 107 Copynumber: 2.0 Consensus size: 107
44970871 AAAAGATTCA
* * * **
44970881 TAATGTGTTCCATGTATGGATGTTATGTCGTTATTGTTTCGGTCCCTCTCACGTGATTTGTACAG
1 TAATGTGTTCCATGTATGGATGTTACGTCATTATTCTTTCAATCCCTCTCACGTGATTTGTACAG
*
44970946 AAGAAATAGAGTTGCAACCCGATTTTTCGTACAGTGAAGAGC
66 AAGAAATAGAGTTACAACCCGATTTTTCGTACAGTGAAGAGC
* **
44970988 TAATGTGTTCCATGTATTGATGTTACGTCATTA-TCTTTCTAATCCCTCTCACGTGATTTGTATT
1 TAATGTGTTCCATGTATGGATGTTACGTCATTATTCTTTC-AATCCCTCTCACGTGATTTGTACA
* * *
44971052 GATGAAATAGAGTTACAACCTGATTTTTTGTACAGTGAA
65 GAAGAAATAGAGTTACAACCCGATTTTTCGTACAGTGAA
44971091 AAACCCATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
106 5 0.06
107 85 0.94
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (107 bp):
TAATGTGTTCCATGTATGGATGTTACGTCATTATTCTTTCAATCCCTCTCACGTGATTTGTACAG
AAGAAATAGAGTTACAACCCGATTTTTCGTACAGTGAAGAGC
Found at i:44972399 original size:111 final size:110
Alignment explanation
Indices: 44972161--44972482 Score: 538
Period size: 111 Copynumber: 2.9 Consensus size: 110
44972151 GAAATTCAAG
* * * *
44972161 AGGATATTTGGCTATTTGGTTAAATGAGAAAAATCGACACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * *
44972226 GAATTTCCAAA-AGCAAAACATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAATTTTTAAA
* *
44972270 AGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
44972335 GAATTTCCCAAACGGTAAAACATTGCCTTATTTTGAAATTTTTAAA
66 GAATTT-CCAAACGGTAAAACATTGCCTTATTTTGAAATTTTTAAA
44972381 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*
44972446 GAATTTCCAAACGGTAAAACATTACCTTATTTTGAAA
66 GAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAA
44972483 AATTTTCCTT
Statistics
Matches: 199, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
109 65 0.33
110 35 0.18
111 99 0.50
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
GAATTTCCAAACGGTAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:44983223 original size:23 final size:23
Alignment explanation
Indices: 44983197--44983241 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44983187 TTTCTTACTG
* *
44983197 TAGTAATTTTTGGGATATTACAA
1 TAGTAATTTTCGGAATATTACAA
44983220 TAGTAATTTTCGGAATATTACA
1 TAGTAATTTTCGGAATATTACA
44983242 TAATTCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCGGAATATTACAA
Found at i:44991883 original size:24 final size:24
Alignment explanation
Indices: 44991856--44991907 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44991846 TTAGTAAGTC
*
44991856 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44991880 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44991904 AAAT
1 AAAT
44991908 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44993853 original size:24 final size:24
Alignment explanation
Indices: 44993826--44993877 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44993816 TTAGTAAGTC
*
44993826 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44993850 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44993874 AAAT
1 AAAT
44993878 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44995823 original size:24 final size:24
Alignment explanation
Indices: 44995796--44995847 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44995786 TTAGTAAGTC
*
44995796 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44995820 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44995844 AAAT
1 AAAT
44995848 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:44997793 original size:24 final size:24
Alignment explanation
Indices: 44997766--44997817 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44997756 TTAGTAAGTC
*
44997766 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
44997790 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
44997814 AAAT
1 AAAT
44997818 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45002144 original size:48 final size:49
Alignment explanation
Indices: 45002092--45002246 Score: 129
Period size: 48 Copynumber: 3.3 Consensus size: 49
45002082 AGTTAGTAAG
45002092 CAAAT-TA-AATCATGTGTTTCATGTGCAATATTATTAATTAATGTTCAA
1 CAAATATACAATCATGTGTTTCATGTGCAATATTATTAATT-ATGTTCAA
* *
45002140 CAAATATACAATCA--AG-TTC-T-TGCAAATATGT-TACAAGTTA-G-T-AA
1 CAAATATACAATCATGTGTTTCATGTGC-AATAT-TAT-TAA-TTATGTTCAA
*
45002184 GCAAAT-TA-AATCATGTGTTTCATGTACAATATTATTAATTCATGTTCAA
1 -CAAATATACAATCATGTGTTTCATGTGCAATATTATTAATT-ATGTTCAA
45002233 CAAATATACAATCA
1 CAAATATACAATCA
45002247 AGTTCATACA
Statistics
Matches: 83, Mismatches: 5, Indels: 36
0.67 0.04 0.29
Matches are distributed among these distances:
43 5 0.06
44 4 0.05
45 12 0.14
46 15 0.18
47 15 0.18
48 16 0.19
49 6 0.07
50 10 0.12
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (49 bp):
CAAATATACAATCATGTGTTTCATGTGCAATATTATTAATTATGTTCAA
Found at i:45002214 original size:93 final size:93
Alignment explanation
Indices: 45002054--45002273 Score: 379
Period size: 93 Copynumber: 2.4 Consensus size: 93
45002044 AATATATGTG
*
45002054 ACAATCAAGTT-TATACAAATATGTTACAAGTTAGTAAGCAAATTAAATCATGTGTTTCATGTGC
1 ACAATCAAGTTCT-TACAAATATGTTACAAGTTAGTAAGCAAATTAAATCATGTGTTTCATGTAC
45002118 AATATTATTAATTAATGTTCAACAAATAT
65 AATATTATTAATTAATGTTCAACAAATAT
*
45002147 ACAATCAAGTTCTTGCAAATATGTTACAAGTTAGTAAGCAAATTAAATCATGTGTTTCATGTACA
1 ACAATCAAGTTCTTACAAATATGTTACAAGTTAGTAAGCAAATTAAATCATGTGTTTCATGTACA
*
45002212 ATATTATTAATTCATGTTCAACAAATAT
66 ATATTATTAATTAATGTTCAACAAATAT
* *
45002240 ACAATCAAGTTCATACAAATATGTTACAATTTAG
1 ACAATCAAGTTCTTACAAATATGTTACAAGTTAG
45002274 CAGTTAATAA
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
93 119 0.99
94 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (93 bp):
ACAATCAAGTTCTTACAAATATGTTACAAGTTAGTAAGCAAATTAAATCATGTGTTTCATGTACA
ATATTATTAATTAATGTTCAACAAATAT
Found at i:45006985 original size:43 final size:43
Alignment explanation
Indices: 45006924--45007010 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
45006914 ATCAACATCT
45006924 AGCACTAAAACAGTTTTGGACAACAACAGTAGGTTAACTTTGA
1 AGCACTAAAACAGTTTTGGACAACAACAGTAGGTTAACTTTGA
* *
45006967 AGCACTAAAACAGTTTTGGACAGCAGCAGTAGGTTAACTTTGA
1 AGCACTAAAACAGTTTTGGACAACAACAGTAGGTTAACTTTGA
45007010 A
1 A
45007011 AAATCACCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (43 bp):
AGCACTAAAACAGTTTTGGACAACAACAGTAGGTTAACTTTGA
Found at i:45015027 original size:30 final size:31
Alignment explanation
Indices: 45014993--45015055 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
45014983 TAACAATACG
*
45014993 ATGACTTAAA-TAAAACTTTCAATTAATTTA
1 ATGACTTAAATTAAAACTTTCAAATAATTTA
* *
45015023 ATGACTTAAATTAAAATTTTTAAATAATTTA
1 ATGACTTAAATTAAAACTTTCAAATAATTTA
45015054 AT
1 AT
45015056 AACTATCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 10 0.34
31 19 0.66
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (31 bp):
ATGACTTAAATTAAAACTTTCAAATAATTTA
Found at i:45016098 original size:15 final size:16
Alignment explanation
Indices: 45016063--45016123 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
45016053 ATTTTGGTTC
45016063 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
45016079 ACTGTAATGGAATA-A
1 ACTGTAATGGAATAGA
*
45016094 ACTGTAATTGAATAGA
1 ACTGTAATGGAATAGA
** *
45016110 GTTATAATGGAATA
1 ACTGTAATGGAATA
45016124 AAGCTATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 14 0.36
16 25 0.64
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:45016098 original size:31 final size:31
Alignment explanation
Indices: 45016063--45016125 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
45016053 ATTTTGGTTC
*
45016063 ACTGTAATGGAATAGAACTGTAATGGAATAA
1 ACTGTAATGGAATAGAACTATAATGGAATAA
* **
45016094 ACTGTAATTGAATAGAGTTATAATGGAATAA
1 ACTGTAATGGAATAGAACTATAATGGAATAA
45016125 A
1 A
45016126 GCTATAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.29
Consensus pattern (31 bp):
ACTGTAATGGAATAGAACTATAATGGAATAA
Found at i:45016131 original size:16 final size:15
Alignment explanation
Indices: 45016067--45016133 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
45016057 TGGTTCACTG
*
45016067 TAATGGAATAGAACTG
1 TAATGGAATA-AACTA
*
45016083 TAATGGAATAAACTG
1 TAATGGAATAAACTA
* **
45016098 TAATTGAATAGAGTTA
1 TAATGGAATA-AACTA
45016114 TAATGGAATAAAGCTA
1 TAATGGAATAAA-CTA
45016130 TAAT
1 TAAT
45016134 CAGTAATCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
15 15 0.36
16 27 0.64
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.30
Consensus pattern (15 bp):
TAATGGAATAAACTA
Found at i:45016207 original size:13 final size:13
Alignment explanation
Indices: 45016189--45016214 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45016179 AGTATTTTTG
45016189 TGTTTGGTTGAAT
1 TGTTTGGTTGAAT
45016202 TGTTTGGTTGAAT
1 TGTTTGGTTGAAT
45016215 GGAATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
TGTTTGGTTGAAT
Found at i:45016385 original size:58 final size:58
Alignment explanation
Indices: 45016323--45016446 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
45016313 TTTTAATAAG
* *
45016323 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAAAA-AATAAATAATTTAACAAAATTCTTAACATA
* * * * *
45016381 ATTATTATTAAATATAATTTAATAAAAAAGTATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAAAAATAAATAATTTAACAAAATTCTTAACATA
45016439 ATTATTAT
1 ATTATTAT
45016447 ATGAATTTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 16 0.28
58 42 0.72
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAAAAATAAATAATTTAACAAAATTCTTAACATA
Found at i:45016479 original size:21 final size:21
Alignment explanation
Indices: 45016454--45016496 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
45016444 TATATGAATT
**
45016454 TACTAAAATCATAATATATAA
1 TACTAAAAAAATAATATATAA
45016475 TACTAAAAAAATAATATATAA
1 TACTAAAAAAATAATATATAA
45016496 T
1 T
45016497 CTACTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TACTAAAAAAATAATATATAA
Found at i:45016501 original size:23 final size:22
Alignment explanation
Indices: 45016444--45016501 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
45016434 ATATAATTAT
**
45016444 TATATGAATTTACTAAAATCATAA
1 TATAT-AA-TTACTAAAAAAATAA
45016468 TATATAA-TACTAAAAAAATAA
1 TATATAATTACTAAAAAAATAA
45016489 TATATAATCTACT
1 TATATAAT-TACT
45016502 TTATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 19 0.63
23 6 0.20
24 5 0.17
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (22 bp):
TATATAATTACTAAAAAAATAA
Found at i:45019614 original size:590 final size:592
Alignment explanation
Indices: 45018493--45019675 Score: 2217
Period size: 590 Copynumber: 2.0 Consensus size: 592
45018483 AGCAAAATAG
45018493 TCCAAAATGTATGTCCATCAGATTCAACAATAAAAAATACTAGTAATATTGACTGTGGCAGCCAA
1 TCCAAAATGTATGTCCATCAGATTCAACAATAAAAAATACTAGTAATATTGACTGTGGCAGCCAA
* * * *
45018558 AGAACGAAATTGTAATGAGTAATTAATATCTGTAAAATCCAACATTATTAGCGAAATCAAAATCA
66 AGAAAGAAATTGTAATGAGTAATT-ATACCTGGAAAATCCAACATTATTAGAGAAATCAAAATCA
45018623 TAAGCATATGTTGCAAAAAAATCACAACAAATGATGTGCTGAACATTTTCATATTGAGGATCTGG
130 TAAGCATATGTTGCAAAAAAATCACAACAAATGATGTGCTGAACATTTTCATATTGAGGATCTGG
* *
45018688 GAAAAAGTGACCATACTGCAAAAGGTGGGATTGAAAGAAGTGAGAAATCAAAAATTATTAGATGA
195 GAAAAAGTGACCATACTGCAAAAGGAGGGATTGAAAGAAGTGAGAAATAAAAAATTATTAGATGA
*
45018753 TATTTCCCCAGTAAGAAAATTTGAAAGTAGAAAGAGGAAAACTTACAGAATGGCCAGGCTTGAAT
260 TATTTCCCCAGTAAGAAAATTTGAAAGTAGAAAGAGGAAAACTTACAGAATAGCCAGGCTTGAAT
45018818 TCAGTAGATGTCCTCAATCTTAGTACGCAAGTAAAAGCATATGGTCGACTTAGCATTCGGTACCT
325 TCAGTAGATGTCCTCAATCTTAGTACGCAAGTAAAAGCATATGGTCGACTTAGCATTCGGTACCT
45018883 GCAAAGTAAGATCAATAACAGCACTCAAATGGAATATCCATATAATTAACTCAAGTAGATATGAA
390 GCAAAGTAAGATCAATAACAGCACTCAAATGGAATATCCATATAATTAACTCAAGTAGATATGAA
*
45018948 GTATCCATATAAACATATACTTTATCATCTTTAAAAAAGAATAAATTAGAGGAACTTATAGTACT
455 GTATCCATATAAACATATACTTTATCATATTTAAAAAAGAATAAATTAGAGGAACTTATAGTACT
45019013 AACATGTCCTGAGGAATTGTTGAATCATCTGTATTTGCATATAAGAACAAAGAGCCACCACTTTC
520 AACATGTCCTGAGGAATTGTTGAATCATCTGTATTTGCATATAAGAACAAAGAGCCACCACTTTC
45019078 TATGCTAA
585 TATGCTAA
*
45019086 TCCAAAATGTATGTCCATTAGATTCAACAATAAAAAATACTAGTAATATTGACTGTGGCAGCCAA
1 TCCAAAATGTATGTCCATCAGATTCAACAATAAAAAATACTAGTAATATTGACTGTGGCAGCCAA
45019151 AGAAAGAAATTGTAATGAGTAA-T-TACCTGGAAAATCCAACATTATTAGAGAAATCAAAATCAT
66 AGAAAGAAATTGTAATGAGTAATTATACCTGGAAAATCCAACATTATTAGAGAAATCAAAATCAT
* *
45019214 AAGCATATGTTGCAAAAGAATCACAACAAATGATGTGCTGAACATTTTCATATTGTGGATCTGGG
131 AAGCATATGTTGCAAAAAAATCACAACAAATGATGTGCTGAACATTTTCATATTGAGGATCTGGG
*
45019279 AAGAAGTGACCATACTGCAAAAGGAGGGATTGAAAGAAGTGAGAAATAAAAAATTATTAGATGAT
196 AAAAAGTGACCATACTGCAAAAGGAGGGATTGAAAGAAGTGAGAAATAAAAAATTATTAGATGAT
45019344 ATTTCCCCAGTAAGAAAATTTGAAAGTAGAAAGAGGAAAACTTACAGAATAGCCAGGCTTGAATT
261 ATTTCCCCAGTAAGAAAATTTGAAAGTAGAAAGAGGAAAACTTACAGAATAGCCAGGCTTGAATT
* *
45019409 CAGTAGATGTCCTCAATCTTAGTACGCAATTAAAAGCATATGGTCGACTTAGCATTTGGTACCTG
326 CAGTAGATGTCCTCAATCTTAGTACGCAAGTAAAAGCATATGGTCGACTTAGCATTCGGTACCTG
45019474 CAAAGTAAGATCAATAACAGCACTCAAATGGAATATCCATATAATTAACTCAAGTAGATATGAAG
391 CAAAGTAAGATCAATAACAGCACTCAAATGGAATATCCATATAATTAACTCAAGTAGATATGAAG
45019539 TATCCATATAAACATATACTTTATCATATTTAAAAAAGAATAAATTAGAGGAACTTATAGTACTA
456 TATCCATATAAACATATACTTTATCATATTTAAAAAAGAATAAATTAGAGGAACTTATAGTACTA
45019604 ACATGTCCTGAGGAATTGTTGAATCATCTGTATTTGCATATAAGAACAAAGAGCCACCACTTTCT
521 ACATGTCCTGAGGAATTGTTGAATCATCTGTATTTGCATATAAGAACAAAGAGCCACCACTTTCT
45019669 ATGCTAA
586 ATGCTAA
45019676 GAAATTTAAG
Statistics
Matches: 576, Mismatches: 14, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
590 490 0.85
592 1 0.00
593 85 0.15
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (592 bp):
TCCAAAATGTATGTCCATCAGATTCAACAATAAAAAATACTAGTAATATTGACTGTGGCAGCCAA
AGAAAGAAATTGTAATGAGTAATTATACCTGGAAAATCCAACATTATTAGAGAAATCAAAATCAT
AAGCATATGTTGCAAAAAAATCACAACAAATGATGTGCTGAACATTTTCATATTGAGGATCTGGG
AAAAAGTGACCATACTGCAAAAGGAGGGATTGAAAGAAGTGAGAAATAAAAAATTATTAGATGAT
ATTTCCCCAGTAAGAAAATTTGAAAGTAGAAAGAGGAAAACTTACAGAATAGCCAGGCTTGAATT
CAGTAGATGTCCTCAATCTTAGTACGCAAGTAAAAGCATATGGTCGACTTAGCATTCGGTACCTG
CAAAGTAAGATCAATAACAGCACTCAAATGGAATATCCATATAATTAACTCAAGTAGATATGAAG
TATCCATATAAACATATACTTTATCATATTTAAAAAAGAATAAATTAGAGGAACTTATAGTACTA
ACATGTCCTGAGGAATTGTTGAATCATCTGTATTTGCATATAAGAACAAAGAGCCACCACTTTCT
ATGCTAA
Found at i:45022882 original size:26 final size:25
Alignment explanation
Indices: 45022803--45022890 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 25
45022793 CTGTTAAGAT
* *
45022803 AGTAAACACTGGGTAGCCTGCTGGGGC
1 AGTAAACAC-GGGTAGTCTGC-GGGAC
* * * *
45022830 AGTGAACATGGGATAGTCTACCAGGAC
1 AGTAAACACGGG-TAGTCT-GCGGGAC
45022857 AGTAAACACGGGTAGTCTGTCGGGAC
1 AGTAAACACGGGTAGTCTG-CGGGAC
*
45022883 ATTAAACA
1 AGTAAACA
45022891 TGGGGCAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
26 21 0.45
27 25 0.53
28 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (25 bp):
AGTAAACACGGGTAGTCTGCGGGAC
Found at i:45029918 original size:6 final size:6
Alignment explanation
Indices: 45029909--45029945 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
45029899 TTAAACATGT
45029909 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
45029946 ATTCATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:45031839 original size:95 final size:96
Alignment explanation
Indices: 45031676--45031925 Score: 346
Period size: 95 Copynumber: 2.6 Consensus size: 96
45031666 TGTTCCACTA
* * * * * * *
45031676 CAACTTCA-AGAAGATAAGATT-AGTAGCTTCAATCTGCTCCATTACAATTTTCGGGAGATAAGA
1 CAACTTCAGGGAA-ATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA
45031739 TTTGTAACTCGTAACTTTAATCTATTCC-TCTG
65 TTTGTAACTCGTAACTTTAATCTATTCCAT-TG
*
45031771 CAACTTCAGGGAAATAAGATTCAC-ATCTTCAATCTGCTCTACTGCAACTTTAGGGAGATAAGAT
1 CAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* *
45031835 TTGTAACTTGTACCTTTAATCTATTCCATTG
66 TTGTAACTCGTAACTTTAATCTATTCCATTG
* *
45031866 CAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTAGGAAGAT
1 CAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGAT
45031926 GAGGTTTGCG
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
95 100 0.72
96 38 0.28
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (96 bp):
CAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
TTGTAACTCGTAACTTTAATCTATTCCATTG
Found at i:45049344 original size:31 final size:33
Alignment explanation
Indices: 45049282--45049346 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
45049272 CCATTTTTAA
* * * *
45049282 TTAAATTTTGACCCTCAACCTTTTTAGAAAGAG
1 TTAAATTTTGACCATCAAACTTTTCAAAAAGAG
45049315 TTAAA-TTTGACCAT-AAACTTTTCAAAAAGAG
1 TTAAATTTTGACCATCAAACTTTTCAAAAAGAG
45049346 T
1 T
45049347 CAAGTTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 15 0.54
32 8 0.29
33 5 0.18
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (33 bp):
TTAAATTTTGACCATCAAACTTTTCAAAAAGAG
Found at i:45049448 original size:10 final size:10
Alignment explanation
Indices: 45049435--45049487 Score: 81
Period size: 10 Copynumber: 5.4 Consensus size: 10
45049425 GTATTTTCTA
*
45049435 TTTTTTGAAC
1 TTTTATGAAC
45049445 TTTTATGAAC
1 TTTTATGAAC
45049455 TTTTATGAAC
1 TTTTATGAAC
45049465 TTTTATGAAC
1 TTTTATGAAC
*
45049475 TTTTTTGAA-
1 TTTTATGAAC
45049484 TTTT
1 TTTT
45049488 GAATTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
9 4 0.10
10 37 0.90
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.58
Consensus pattern (10 bp):
TTTTATGAAC
Found at i:45049463 original size:20 final size:20
Alignment explanation
Indices: 45049435--45049487 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
45049425 GTATTTTCTA
45049435 TTTTTTGAACTTTTATGAAC
1 TTTTTTGAACTTTTATGAAC
*
45049455 TTTTATGAACTTTTATGAAC
1 TTTTTTGAACTTTTATGAAC
45049475 TTTTTTGAA-TTTT
1 TTTTTTGAACTTTT
45049488 GAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTTTGAACTTTTATGAAC
Found at i:45052426 original size:19 final size:18
Alignment explanation
Indices: 45052397--45052438 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
45052387 GGATATAGTT
45052397 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
45052415 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
45052434 TAAAT
1 TAAAT
45052439 ATTAGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:45054488 original size:24 final size:24
Alignment explanation
Indices: 45054461--45054511 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
45054451 AAGCAGTCTC
45054461 CTCGAGCTTGGTTTGAACGGTTCA
1 CTCGAGCTTGGTTTGAACGGTTCA
45054485 CTCGAGCTTGGTTTGAACGGTTCA
1 CTCGAGCTTGGTTTGAACGGTTCA
45054509 CTC
1 CTC
45054512 ACAAAGAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (24 bp):
CTCGAGCTTGGTTTGAACGGTTCA
Found at i:45055659 original size:42 final size:42
Alignment explanation
Indices: 45055610--45055691 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
45055600 ACTTTATTTT
45055610 ATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTTCCCTC
1 ATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTTCCCTC
*
45055652 ATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCC
1 ATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTTCCC
45055692 AATTAGGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (42 bp):
ATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTTCCCTC
Found at i:45056420 original size:31 final size:33
Alignment explanation
Indices: 45056362--45056423 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
45056352 AAAGTGATTT
**
45056362 TGGTGAAATTGAATTGAAAATTGTGAAATATTCA
1 TGGTGAAATT-AATTGAAAATAATGAAATATTCA
45056396 TGGTGAAATT-A-TGAAAATAATGAAATAT
1 TGGTGAAATTAATTGAAAATAATGAAATAT
45056424 ATGAGTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 15 0.58
32 1 0.04
34 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (33 bp):
TGGTGAAATTAATTGAAAATAATGAAATATTCA
Found at i:45070235 original size:49 final size:49
Alignment explanation
Indices: 45070172--45070310 Score: 242
Period size: 49 Copynumber: 2.8 Consensus size: 49
45070162 CAATAAGTGA
*
45070172 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
45070221 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
* * *
45070270 TATGTGATTACGTGTAAGATCATAGTTGGACTATGGCATCG
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
45070311 AGAAAATAAG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.33
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTATATGT
Found at i:45083030 original size:18 final size:18
Alignment explanation
Indices: 45083001--45083039 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45082991 GTAATTTTTT
45083001 AAATTTTAAAATATTA-A
1 AAATTTTAAAATATTATA
45083018 AAATTTGTAAAATATTATA
1 AAATTT-TAAAATATTATA
45083037 AAA
1 AAA
45083040 ATATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATTTTAAAATATTATA
Found at i:45088145 original size:195 final size:195
Alignment explanation
Indices: 45087813--45088200 Score: 776
Period size: 195 Copynumber: 2.0 Consensus size: 195
45087803 CTCCAGCTTC
45087813 TATTTCTTGAATCTAACTTGATATTCTAGCTCCCCATTGTCTTCTTGTTATTTTTCTCTCTTGGA
1 TATTTCTTGAATCTAACTTGATATTCTAGCTCCCCATTGTCTTCTTGTTATTTTTCTCTCTTGGA
45087878 AGTTATGGAAATTCTTTTGATTTCTAAGTGAAAATGGTAATTTTTTGTGGAAGGACCAAATTGTA
66 AGTTATGGAAATTCTTTTGATTTCTAAGTGAAAATGGTAATTTTTTGTGGAAGGACCAAATTGTA
45087943 AAGAAAGCAAAACTTTCTTTCTTTTCCTCTCTTCTCACGTTGGTTGCATGGAAGAAGATGAATAT
131 AAGAAAGCAAAACTTTCTTTCTTTTCCTCTCTTCTCACGTTGGTTGCATGGAAGAAGATGAATAT
45088008 TATTTCTTGAATCTAACTTGATATTCTAGCTCCCCATTGTCTTCTTGTTATTTTTCTCTCTTGGA
1 TATTTCTTGAATCTAACTTGATATTCTAGCTCCCCATTGTCTTCTTGTTATTTTTCTCTCTTGGA
45088073 AGTTATGGAAATTCTTTTGATTTCTAAGTGAAAATGGTAATTTTTTGTGGAAGGACCAAATTGTA
66 AGTTATGGAAATTCTTTTGATTTCTAAGTGAAAATGGTAATTTTTTGTGGAAGGACCAAATTGTA
45088138 AAGAAAGCAAAACTTTCTTTCTTTTCCTCTCTTCTCACGTTGGTTGCATGGAAGAAGATGAAT
131 AAGAAAGCAAAACTTTCTTTCTTTTCCTCTCTTCTCACGTTGGTTGCATGGAAGAAGATGAAT
45088201 TCATCTTCCC
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 193 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (195 bp):
TATTTCTTGAATCTAACTTGATATTCTAGCTCCCCATTGTCTTCTTGTTATTTTTCTCTCTTGGA
AGTTATGGAAATTCTTTTGATTTCTAAGTGAAAATGGTAATTTTTTGTGGAAGGACCAAATTGTA
AAGAAAGCAAAACTTTCTTTCTTTTCCTCTCTTCTCACGTTGGTTGCATGGAAGAAGATGAATAT
Found at i:45088735 original size:23 final size:23
Alignment explanation
Indices: 45088709--45088753 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
45088699 TTTCTTACTG
*
45088709 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
*
45088732 TAGTAATTTTTGGGATATTACA
1 TAGTAATTTTCGGGATATTACA
45088754 CGAATGGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:45089543 original size:254 final size:254
Alignment explanation
Indices: 45089063--45089565 Score: 808
Period size: 254 Copynumber: 2.0 Consensus size: 254
45089053 GGTAATGTAC
*
45089063 GTTTAGTACATTTAGATTTATTTTCTCCATATTGTACTCTTATTTGTTTACACATTTAGTGAAAA
1 GTTTAATACATTTAGATTTATTTTCTCCATATTGTACTCTTATTTGTTTACACATTTAGTGAAAA
45089128 GTCGATACCTCCTCTACCTGTGGTTTTTCCCTCTTTCAGGATTTTCTACGTAAAATATTTGTGTT
66 GTCGATACCTCCTCTACCTGTGGTTTTTCCCTCTTTCAGGATTTTCTACGTAAAATATTTGTGTT
*
45089193 TGTTCTTCTCCACTTTTACTACTTCATTGCATATACAGGTCAATCCCCAAAAAATTGGTATCAAA
131 CGTTCTTCTCCACTTTTACTACTTCATTGCATATACAGGTCAATCCCCAAAAAATTGGTATCAAA
* * * * *
45089258 GCTACAATTTAGGTTCCGCAGATCGACTTGTTCGATGACACAACAATGATTTTGTTTAT
196 GCTACAATTCAGCTTCCACAGATCAACTTGTTCGATGACACAACAATAATTTTGTTTAT
* * *
45089317 GTTTAATACATTTAGGTTTATTTTCTCCATATTGTACTCTTATTTGTTTACTCATTTAGTGAGAA
1 GTTTAATACATTTAGATTTATTTTCTCCATATTGTACTCTTATTTGTTTACACATTTAGTGAAAA
* * * *
45089382 GTCGATTCCTCCTCTACCTGTGGTTTTTCCCTCTTTGAGGGTTTTCTAGGTAAAATATTTGTGTT
66 GTCGATACCTCCTCTACCTGTGGTTTTTCCCTCTTTCAGGATTTTCTACGTAAAATATTTGTGTT
* ** *** *
45089447 CGTTCTTCTCCGCTTTTACTACTTTGTTGCATATGGGGGTCGATCCCCAAAAAATTGGTATCAAA
131 CGTTCTTCTCCACTTTTACTACTTCATTGCATATACAGGTCAATCCCCAAAAAATTGGTATCAAA
*
45089512 GCTACTATTCAGCTTCCACAGATCAACTTGTTCGATGACACAACAATAATTTTG
196 GCTACAATTCAGCTTCCACAGATCAACTTGTTCGATGACACAACAATAATTTTG
45089566 GATATCGAGA
Statistics
Matches: 227, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
254 227 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (254 bp):
GTTTAATACATTTAGATTTATTTTCTCCATATTGTACTCTTATTTGTTTACACATTTAGTGAAAA
GTCGATACCTCCTCTACCTGTGGTTTTTCCCTCTTTCAGGATTTTCTACGTAAAATATTTGTGTT
CGTTCTTCTCCACTTTTACTACTTCATTGCATATACAGGTCAATCCCCAAAAAATTGGTATCAAA
GCTACAATTCAGCTTCCACAGATCAACTTGTTCGATGACACAACAATAATTTTGTTTAT
Found at i:45090122 original size:23 final size:23
Alignment explanation
Indices: 45090045--45090124 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 23
45090035 ACATTGTGTC
* *
45090045 CAAGCCACTCAATATTGTTGTGGT
1 CAAGCCACTC-ATATCGTTGTGGA
** * * * *
45090069 CAAGCCACTTGTTAGCATTATGAA
1 CAAGCCAC-TCATATCGTTGTGGA
45090093 CAAGCCACTCATATCGTTGTGGA
1 CAAGCCACTCATATCGTTGTGGA
45090116 CAAGCCACT
1 CAAGCCACT
45090125 TAATTTTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
23 18 0.44
24 22 0.54
25 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (23 bp):
CAAGCCACTCATATCGTTGTGGA
Found at i:45090981 original size:20 final size:20
Alignment explanation
Indices: 45090956--45091029 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
45090946 AGTAAAATGA
45090956 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGTTTTACT
*
45090976 TTTCTGTAAAATG----A--
1 TTTCTGAAAAATGTTTTACT
45090990 TTTCT-AGAAAATGTTTTACT
1 TTTCTGA-AAAATGTTTTACT
* *
45091010 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGTTTTACT
45091030 GGAAAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
14 11 0.26
16 1 0.02
18 1 0.02
20 29 0.69
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATGTTTTACT
Found at i:45090990 original size:34 final size:34
Alignment explanation
Indices: 45090947--45091041 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 34
45090937 TTGATTACCA
45090947 GTAAAATGATTTCTGAAAAATGTTTTACTTTTCT
1 GTAAAATGATTTCTGAAAAATGTTTTACTTTTCT
45090981 GTAAAATGATTTCT-AGAAAATGTTTTACTTTTCT
1 GTAAAATGATTTCTGA-AAAATGTTTTACTTTTCT
* *
45091015 GTAAAATGATTTACTGGAAAATATTTT
1 GTAAAATGATTT-CTGAAAAATGTTTT
45091042 CTGGTGTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
33 1 0.02
34 44 0.79
35 11 0.20
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (34 bp):
GTAAAATGATTTCTGAAAAATGTTTTACTTTTCT
Found at i:45093698 original size:13 final size:13
Alignment explanation
Indices: 45093680--45093712 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
45093670 ATATAAATTA
45093680 TGTAATTGTAACT
1 TGTAATTGTAACT
45093693 TGTAATTGTAACT
1 TGTAATTGTAACT
45093706 TGTAATT
1 TGTAATT
45093713 ACAATTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTAATTGTAACT
Found at i:45094145 original size:28 final size:28
Alignment explanation
Indices: 45094105--45094170 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
45094095 TATTTGTATG
**
45094105 TTAGGGTTTAAGGTCTTTGGAAAATAAA
1 TTAGGGTTTAAGGTCTTTAAAAAATAAA
*
45094133 TTAGGGTTTAAGGTTTTTAAAAAATAAA
1 TTAGGGTTTAAGGTCTTTAAAAAATAAA
45094161 TTAGGGTTTA
1 TTAGGGTTTA
45094171 TTGTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (28 bp):
TTAGGGTTTAAGGTCTTTAAAAAATAAA
Found at i:45095273 original size:19 final size:19
Alignment explanation
Indices: 45095251--45095289 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
45095241 GTTGATTCAT
*
45095251 AAAATTCCAGTTAATAAAG
1 AAAATTCCAGTTAACAAAG
**
45095270 AAAATTTTAGTTAACAAAG
1 AAAATTCCAGTTAACAAAG
45095289 A
1 A
45095290 GCTGTCTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (19 bp):
AAAATTCCAGTTAACAAAG
Found at i:45105326 original size:16 final size:17
Alignment explanation
Indices: 45105307--45105339 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
45105297 AAAAAAAATG
45105307 ATGAAAAAAAT-AAAAA
1 ATGAAAAAAATGAAAAA
45105323 ATGAAAAAAATGAAAAA
1 ATGAAAAAAATGAAAAA
45105340 GTAAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (17 bp):
ATGAAAAAAATGAAAAA
Found at i:45105330 original size:9 final size:9
Alignment explanation
Indices: 45105307--45105339 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
45105297 AAAAAAAATG
45105307 ATGAAAAAA
1 ATGAAAAAA
45105316 AT--AAAAA
1 ATGAAAAAA
45105323 ATGAAAAAA
1 ATGAAAAAA
45105332 ATGAAAAA
1 ATGAAAAA
45105340 GTAAAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:45106697 original size:88 final size:88
Alignment explanation
Indices: 45106548--45107198 Score: 1126
Period size: 88 Copynumber: 7.4 Consensus size: 88
45106538 AACAGATCAG
*
45106548 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45106613 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
45106636 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45106701 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
45106724 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45106789 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * * *
45106812 TGAAGACAACAGATTTTACCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
45106877 CTCTCGGTTGTGATGGAGCTCGT
66 CTCTCGGTTGTGATGGAGCTGGT
45106900 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
45106965 CTCTCGGTTGTGATGGAGCTAGT
66 CTCTCGGTTGTGATGGAGCTGGT
* * *
45106988 TGAAGACAACAGATCTTGCCGTCCTGCATTGACAGCGAAGCAGGTCGAAGATACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
45107053 CTCTCGGTTGTGATGGAGCTAGT
66 CTCTCGGTTGTGATGGAGCTGGT
* *
45107076 TGAAGACAACAGATCTTGCCGTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
45107141 CTCTCGGTTGT-A-GCAGAGCTGGT
66 CTCTCGGTTGTGATG--GAGCTGGT
* *
45107164 TGAAGACAATAGATCTTCCCTTCCTGCATTGACAG
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAG
45107199 TGGAGCAGAC
Statistics
Matches: 542, Mismatches: 19, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 540 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:45107249 original size:133 final size:132
Alignment explanation
Indices: 45107086--45107330 Score: 384
Period size: 133 Copynumber: 1.8 Consensus size: 132
45107076 TGAAGACAAC
* *
45107086 AGATCTTGCCGTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCGTCCTGCACTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
45107151 T-AGCAGAGCTGGTTGAAGACAATAGATCTTCCCTTCCTGCATTGACAGTGGAGCAGACTGAAGA
66 TGAG--GAGCTGGTTGAAGACAATAGATCTTCCCTTCCTGCATTGACAGTGGAGCAGACTGAAGA
45107215 TAGT
129 TAGT
* * * *
45107219 AGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCGTCCTGCACTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
45107284 TGATGGAGCTGGTTGAAGACAATAGATCTTGCCTTCCTTCATTGACA
66 TGA-GGAGCTGGTTGAAGACAATAGATCTTCCCTTCCTGCATTGACA
45107331 ACGAAGCAGA
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
133 100 0.98
134 1 0.01
135 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATCTTGCCGTCCTGCACTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGAGGAGCTGGTTGAAGACAATAGATCTTCCCTTCCTGCATTGACAGTGGAGCAGACTGAAGATA
GT
Found at i:45107383 original size:43 final size:43
Alignment explanation
Indices: 45107242--45107390 Score: 106
Period size: 43 Copynumber: 3.4 Consensus size: 43
45107232 TTGTACTGAC
* *
45107242 AGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGT
1 AGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGT
* * * * * * * *
45107285 -GATGGAGCTGGTTGAAGACA-ATAGATCTTGCCTTCCTTC-ATTGAC
1 AG-TGAAGCAGATCGAAGACACA-AG-CCTTGCC-TCCCTCGGTTG-T
**
45107330 AACGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGT
1 AGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGT
* *
45107373 AGTGGAGCAGATCTAAGA
1 AGTGAAGCAGATCGAAGA
45107391 TGGTGAATCT
Statistics
Matches: 74, Mismatches: 24, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
42 2 0.03
43 34 0.46
44 18 0.24
45 19 0.26
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (43 bp):
AGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGT
Found at i:45107401 original size:88 final size:89
Alignment explanation
Indices: 45107197--45107391 Score: 247
Period size: 88 Copynumber: 2.2 Consensus size: 89
45107187 CTGCATTGAC
* **
45107197 AGTGGAGCAGA-CTGAAGATAGTAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGAC
1 AGTGGAGCAGATCTGAAGATAGTAGATCTTGCCTTCTTGCACTGACAACGAAGCAGATCGAAGAC
*
45107261 ACAAACCTTGCCTCTCTCGGTTGT
66 ACAAACCTTGCCTCCCTCGGTTGT
* * * * *
45107285 -GATGGAGCTGGT-TGAAGACAATAGATCTTGCCTTCCTT-CATTGACAACGAAGCAGATCGAAG
1 AG-TGGAGCAGATCTGAAGATAGTAGATCTTGCCTT-CTTGCACTGACAACGAAGCAGATCGAAG
*
45107347 ACACAAGCCTTGCCTCCCTCGGTTGT
64 ACACAAACCTTGCCTCCCTCGGTTGT
45107373 AGTGGAGCAGATCT-AAGAT
1 AGTGGAGCAGATCTGAAGAT
45107392 GGTGAATCTT
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
87 1 0.01
88 83 0.93
89 5 0.06
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (89 bp):
AGTGGAGCAGATCTGAAGATAGTAGATCTTGCCTTCTTGCACTGACAACGAAGCAGATCGAAGAC
ACAAACCTTGCCTCCCTCGGTTGT
Found at i:45108875 original size:21 final size:21
Alignment explanation
Indices: 45108853--45108930 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
45108843 TTTACCATTT
*
45108853 TTATTATTTTCTTCATTATTT
1 TTATTATTTTCTTCATTATTA
* *
45108874 TTAATATATTATCATC-TT-TTA
1 TT-AT-TATTTTCTTCATTATTA
*
45108895 TTATTATTGTTGTT-ATTATTA
1 TTATTATT-TTCTTCATTATTA
45108916 TTATTA-TTTCTTCAT
1 TTATTATTTTCTTCAT
45108931 CTATATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
19 8 0.18
20 9 0.20
21 15 0.34
22 4 0.09
23 8 0.18
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTATTTTCTTCATTATTA
Found at i:45109277 original size:22 final size:22
Alignment explanation
Indices: 45109236--45109300 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
45109226 TTTATTGTTT
* *
45109236 TTTATGTTCATTTATGTATTTA-
1 TTTA-GTTTATTTATTTATTTAC
*
45109258 TTTATGTGTTCTTT-TTTATTTAC
1 TTTA-GT-TTATTTATTTATTTAC
45109281 TTTAGTTTATTTATTTATTT
1 TTTAGTTTATTTATTTATTT
45109301 GCTATGATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 23 0.64
23 8 0.22
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTAGTTTATTTATTTATTTAC
Found at i:45109366 original size:21 final size:20
Alignment explanation
Indices: 45109341--45109379 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
45109331 TTTTACTCAT
*
45109341 TATTTTTTATGCACATTATTA
1 TATTTATTATGC-CATTATTA
*
45109362 TATTTATTATTCCATTAT
1 TATTTATTATGCCATTAT
45109380 GCACATTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTTATTATGCCATTATTA
Found at i:45109735 original size:110 final size:111
Alignment explanation
Indices: 45109408--45109722 Score: 499
Period size: 111 Copynumber: 2.8 Consensus size: 111
45109398 TCAAGAAAGG
* * * * *
45109408 AAAATTTTTCTAAATGAGGCAATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAATTTTT-AAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
45109473 GGGTGTTGTTTTTTCTCGTTCAACCAAATGGCTTAATAACCTTTTAA
65 GGGTGTTGTTTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAA
*
45109520 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAATTTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * *
45109585 GGTGTCGTTTTTTCTCATTCAATCAAATGGCTTAATATCCTTTT-A
66 GGTGTTGTTTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAA
45109630 AAAA-TTTTAAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
45109694 GGGTGTTGATTTTTCTCGTTCAACCAAAT
65 GGGTGTTGTTTTTTCTCGTTCAACCAAAT
45109723 TGCCAAATAT
Statistics
Matches: 188, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
109 27 0.14
110 61 0.32
111 91 0.48
112 9 0.05
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (111 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTTGTTTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAA
Found at i:45114338 original size:17 final size:17
Alignment explanation
Indices: 45114318--45114354 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
45114308 CTATTTAATT
45114318 AATTAAATTATTTTCTC
1 AATTAAATTATTTTCTC
45114335 AATTAAATTATTTTCTC
1 AATTAAATTATTTTCTC
45114352 AAT
1 AAT
45114355 CCAATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAATTATTTTCTC
Found at i:45114360 original size:17 final size:17
Alignment explanation
Indices: 45114322--45114360 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
45114312 TTAATTAATT
*
45114322 AAATTATTTTCTCAATT
1 AAATTATTTTCTCAATC
45114339 AAATTATTTTCTCAATC
1 AAATTATTTTCTCAATC
*
45114356 CAATT
1 AAATT
45114361 CTAATTTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTATTTTCTCAATC
Found at i:45116948 original size:25 final size:25
Alignment explanation
Indices: 45116914--45116968 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
45116904 AGGCCGTGTG
*
45116914 GGTATTCAAAGTAGGGACACACGAT
1 GGTATTCAAAGTAGGGACACAAGAT
45116939 GGTATTCAAAGTAGGGACACAAGAT
1 GGTATTCAAAGTAGGGACACAAGAT
*
45116964 CGTAT
1 GGTAT
45116969 CCCAGCCTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (25 bp):
GGTATTCAAAGTAGGGACACAAGAT
Found at i:45118222 original size:25 final size:25
Alignment explanation
Indices: 45118191--45118382 Score: 112
Period size: 25 Copynumber: 7.8 Consensus size: 25
45118181 AGTCCTCTCT
45118191 TGAGCCATATAACGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * *
45118216 TGAGCCATGTAACGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATG
* * * * *
45118241 CGGGCTATATAACGGAAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATG
* * *
45118266 AGAGCCATA-ATCGGGAGGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* **
45118290 CGAGCC-TATAACGGTTAGCTCA-G
1 TGAGCCATATAACGGGAAGCTCATG
* *
45118313 AAGAGCCAT-TAATCGAGAAGCTC-TG
1 -TGAGCCATATAA-CGGGAAGCTCATG
* * * *
45118338 AAT-AGCCATATATCGAGAAGTTCAAG
1 --TGAGCCATATAACGGGAAGCTCATG
45118364 TGAGCCATAT--CGGGAAGCT
1 TGAGCCATATAACGGGAAGCT
45118383 TTAGAGAGCC
Statistics
Matches: 126, Mismatches: 32, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
23 10 0.08
24 34 0.27
25 78 0.62
26 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATG
Found at i:45118299 original size:50 final size:50
Alignment explanation
Indices: 45118192--45118335 Score: 150
Period size: 49 Copynumber: 2.9 Consensus size: 50
45118182 GTCCTCTCTT
* ** *
45118192 GAGCCATATAACGGGAAGCTCATGTGAGCCATGTAA-CGGGAAGCTTATCC
1 GAGCCATATAACGGAAAGCTCATAAGAGCCAT-TAATCGGGAAGCTCATCC
* * * *
45118242 GGGCTATATAACGGAAAGCTCATAAGAGCCA-TAATCGGGAGGCTCATGC
1 GAGCCATATAACGGAAAGCTCATAAGAGCCATTAATCGGGAAGCTCATCC
** * *
45118291 GAGCC-TATAACGGTTAGCTCAGAAGAGCCATTAATCGAGAAGCTC
1 GAGCCATATAACGGAAAGCTCATAAGAGCCATTAATCGGGAAGCTC
45118336 TGAATAGCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
48 25 0.32
49 26 0.34
50 26 0.34
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (50 bp):
GAGCCATATAACGGAAAGCTCATAAGAGCCATTAATCGGGAAGCTCATCC
Found at i:45130437 original size:15 final size:16
Alignment explanation
Indices: 45130412--45130444 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45130402 AGGTTTAACT
45130412 TTTACATCTTTTTCAA
1 TTTACATCTTTTTCAA
*
45130428 TTTA-ATCTTTTTTAA
1 TTTACATCTTTTTCAA
45130443 TT
1 TT
45130445 AATTAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTACATCTTTTTCAA
Found at i:45133282 original size:29 final size:29
Alignment explanation
Indices: 45133226--45133282 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
45133216 ACTATGACCC
* *
45133226 TCATTCTAAATTTATCCCTAAATTTCAAG
1 TCATTCTAAATTAATCCCTAAATATCAAG
*
45133255 TCATTCT-AATTAATCCGTAAACTATCAA
1 TCATTCTAAATTAATCCCTAAA-TATCAA
45133283 AATTATATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.39
Consensus pattern (29 bp):
TCATTCTAAATTAATCCCTAAATATCAAG
Found at i:45135805 original size:9 final size:9
Alignment explanation
Indices: 45135740--45135806 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
45135730 TTTAAATATA
45135740 TTTTAT-AT
1 TTTTATAAT
*
45135748 TTTTATTAAAA
1 TTTTA-T-AAT
*
45135759 TTTAATAAT
1 TTTTATAAT
*
45135768 TTTTATAAC
1 TTTTATAAT
*
45135777 TTTTATTGAT
1 TTTTA-TAAT
45135787 TTTTAT--T
1 TTTTATAAT
45135794 TTTTATAAT
1 TTTTATAAT
45135803 TTTT
1 TTTT
45135807 TTTGCCACTT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.15
8 5 0.11
9 21 0.46
10 8 0.17
11 5 0.11
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:45137066 original size:21 final size:21
Alignment explanation
Indices: 45137040--45137079 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
45137030 AAAAAATTAT
45137040 AAAATATAATAC-AATAAAATA
1 AAAATAT-ATACTAATAAAATA
45137061 AAAATATATACTAATAAAA
1 AAAATATATACTAATAAAA
45137080 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATATATACTAATAAAATA
Found at i:45141644 original size:109 final size:109
Alignment explanation
Indices: 45141453--45141679 Score: 436
Period size: 109 Copynumber: 2.1 Consensus size: 109
45141443 CCAATGGGAT
45141453 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTTGCTCAC
1 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTTGCTCAC
45141518 AGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
66 AGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
45141562 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTTGCTCAC
1 GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTTGCTCAC
*
45141627 AGCTCACTATTTTGTTTAAGAGAAATGTTCACAAATTATTAAAA
66 AGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
*
45141671 GAAACAAAA
1 GCAACAAAA
45141680 GTTAAAGGCT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 116 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (109 bp):
GCAACAAAAAGAAAAAAATTAACAATCAGCTGAAAGCAGAACCTAGAAGACTACATGTTGCTCAC
AGCTCACTATTTTGTTTAAGAGAAATGTTCAAAAATTATTAAAA
Found at i:45142956 original size:2 final size:2
Alignment explanation
Indices: 45142951--45142988 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
45142941 TATGCGCGCA
* *
45142951 TG TG TG TG TT TG TG TG TG TG TA TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
45142989 ATAGTGAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.53
Consensus pattern (2 bp):
TG
Found at i:45142999 original size:2 final size:2
Alignment explanation
Indices: 45142994--45143027 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45142984 GTGTGATAGT
45142994 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
45143028 ATGGAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:45150704 original size:17 final size:19
Alignment explanation
Indices: 45150682--45150716 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
45150672 CATTTCATAC
45150682 TATCATTT-TCAA-TTCAA
1 TATCATTTATCAAGTTCAA
45150699 TATCATTTATCAAGTTCA
1 TATCATTTATCAAGTTCA
45150717 TATTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (19 bp):
TATCATTTATCAAGTTCAA
Found at i:45157207 original size:27 final size:27
Alignment explanation
Indices: 45157169--45157224 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
45157159 AACCAACGAG
45157169 TTTGTTGGTTTTAGGGCCACTTACAAC
1 TTTGTTGGTTTTAGGGCCACTTACAAC
*
45157196 TTTGTTGGTTTTAGGGCCGCTTACAAC
1 TTTGTTGGTTTTAGGGCCACTTACAAC
45157223 TT
1 TT
45157225 GAGGAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (27 bp):
TTTGTTGGTTTTAGGGCCACTTACAAC
Found at i:45161697 original size:6 final size:6
Alignment explanation
Indices: 45161688--45161771 Score: 77
Period size: 6 Copynumber: 14.7 Consensus size: 6
45161678 CTACTACTAA
* * **
45161688 TACTGC TACTGC TACTGC TGCTGC TGCTGC TACTGC TACT-C TGTTGC
1 TACTGC TACTGC TACTGC TACTGC TACTGC TACTGC TACTGC TACTGC
* * *
45161735 TACTAC TACTG- T--TGT TACTAC TACTGC TACTGC TACT
1 TACTGC TACTGC TACTGC TACTGC TACTGC TACTGC TACT
45161772 ACTATTCTAG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 4 0.06
6 56 0.89
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.38
Consensus pattern (6 bp):
TACTGC
Found at i:45161708 original size:9 final size:9
Alignment explanation
Indices: 45161696--45161738 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
45161686 AATACTGCTA
45161696 CTGCTACTG
1 CTGCTACTG
*
45161705 CTGCTGCTG
1 CTGCTACTG
45161714 CTGCTACTG
1 CTGCTACTG
*
45161723 CTACT-CTG
1 CTGCTACTG
*
45161731 TTGCTACT
1 CTGCTACT
45161739 ACTACTGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.09, C:0.33, G:0.21, T:0.37
Consensus pattern (9 bp):
CTGCTACTG
Found at i:45161770 original size:15 final size:15
Alignment explanation
Indices: 45161678--45161774 Score: 61
Period size: 15 Copynumber: 6.5 Consensus size: 15
45161668 TTATTACTAA
**
45161678 CTACTACTAATACTG
1 CTACTACTGCTACTG
* * *
45161693 CTACTGCTACTGCTG
1 CTACTACTGCTACTG
* *
45161708 CTGCTGCTGCTACTG
1 CTACTACTGCTACTG
* * *
45161723 CTACT-CTGTTGCTA
1 CTACTACTGCTACTG
* ** *
45161737 CTACTACTGTTGTTA
1 CTACTACTGCTACTG
45161752 CTACTACTGCTACTG
1 CTACTACTGCTACTG
45161767 CTACTACT
1 CTACTACT
45161775 ATTCTAGTTA
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
14 11 0.17
15 55 0.83
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (15 bp):
CTACTACTGCTACTG
Found at i:45164058 original size:19 final size:19
Alignment explanation
Indices: 45164034--45164070 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45164024 TTAATTTTGA
45164034 TCAAATAAAATAAAATTAG
1 TCAAATAAAATAAAATTAG
* *
45164053 TCAAATCAATTAAAATTA
1 TCAAATAAAATAAAATTA
45164071 ATATGATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (19 bp):
TCAAATAAAATAAAATTAG
Found at i:45166502 original size:13 final size:14
Alignment explanation
Indices: 45166470--45166502 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
45166460 TTTAGGTTAA
45166470 TTAATTTAATTATT
1 TTAATTTAATTATT
45166484 TT-ATTTAA-TATT
1 TTAATTTAATTATT
45166496 TTAATTT
1 TTAATTT
45166503 GGATTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 10 0.56
14 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTAATTATT
Found at i:45173812 original size:13 final size:13
Alignment explanation
Indices: 45173794--45173820 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45173784 CCACCTTAGA
45173794 AATCCAACCATAT
1 AATCCAACCATAT
45173807 AATCCAACCATAT
1 AATCCAACCATAT
45173820 A
1 A
45173821 CTTTTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
AATCCAACCATAT
Found at i:45174594 original size:54 final size:54
Alignment explanation
Indices: 45174535--45174741 Score: 155
Period size: 54 Copynumber: 3.6 Consensus size: 54
45174525 TTGTTAGTTA
*
45174535 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTTAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
* * * * **
45174589 TAATTATTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA
1 TAATTATTTTAAATT-T-TATTA-A--ATTATATATT-TTA-ATTA--AAA-T-ATAT-TTAATA
45174654 T
54 T
* * * *
45174655 TGATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTTA-AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
* * *
45174709 TAATTATGTTTAAATATGATTAAATTATTTATT
1 TAATTAT-TTTAAATTTTATTAAATTATATATT
45174742 ATTGATATTA
Statistics
Matches: 117, Mismatches: 21, Indels: 29
0.70 0.13 0.17
Matches are distributed among these distances:
54 23 0.20
55 23 0.20
56 8 0.07
57 3 0.03
59 12 0.10
60 4 0.03
61 13 0.11
63 4 0.03
64 5 0.04
65 8 0.07
66 14 0.12
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (54 bp):
TAATTATTTTAAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAT
Found at i:45174701 original size:16 final size:16
Alignment explanation
Indices: 45174680--45174721 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45174670 TTATTAAATT
*
45174680 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45174696 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45174711 AT-TATGTTTAA
1 ATATAT-TTTAA
45174722 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45174706 original size:15 final size:15
Alignment explanation
Indices: 45174671--45174712 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45174661 TTAAGAATTT
*
45174671 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45174685 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45174699 TATTTAATAATAAT
1 TATTTAATTATAAT
45174713 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45174947 original size:45 final size:43
Alignment explanation
Indices: 45174847--45174953 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 43
45174837 TTTTCCATTA
45174847 TGCTATTACACCTCTATT-C---CATTCAACCAAACATAAGAT
1 TGCTATTACACCTCTATTCCATTCATTCAACCAAACATAAGAT
* * *
45174886 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGT-TGATT
1 TGCTATTACACCTCTATTCCATT-CATTCAACCAAACA-TAAGA-T
45174931 TGCTATTACACCTCTATTCCATT
1 TGCTATTACACCTCTATTCCATT
45174954 GCACCTCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 16 0.29
40 1 0.02
44 16 0.29
45 23 0.41
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATTCATTCAACCAAACATAAGAT
Found at i:45174974 original size:16 final size:16
Alignment explanation
Indices: 45174937--45175004 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
45174927 GATTTGCTAT
* *
45174937 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
45174953 TGCACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
45174969 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
* *
45174985 TAGACCTCTAATCTAA
1 TACACCTCTAATCCAA
45175001 TACA
1 TACA
45175005 GTGAACCAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.34, C:0.35, G:0.03, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45183850 original size:17 final size:17
Alignment explanation
Indices: 45183804--45183852 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
45183794 TCAATTTAAT
45183804 TTAATTTAATTAACTAAA
1 TTAATTT-ATTAACTAAA
*
45183822 TTAATTTATTAATTAAA
1 TTAATTTATTAACTAAA
* *
45183839 TTATTTTCTTAACT
1 TTAATTTATTAACT
45183853 CAGTTCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTTATTAACTAAA
Found at i:45185541 original size:20 final size:20
Alignment explanation
Indices: 45185516--45185559 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
45185506 TTTCGAACAA
*
45185516 ATTGGTTAATAAAATAATCC
1 ATTGGTCAATAAAATAATCC
45185536 ATTGGTCAATAAAATAATCC
1 ATTGGTCAATAAAATAATCC
45185556 ATTG
1 ATTG
45185560 TTTACATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (20 bp):
ATTGGTCAATAAAATAATCC
Found at i:45188303 original size:23 final size:23
Alignment explanation
Indices: 45188222--45188295 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
45188212 GCCAATCAGA
45188222 CACTTTATGTGTCGTATTTTAGG
1 CACTTTATGTGTCGTATTTTAGG
* *
45188245 CACTTTATGTGTGGTATTTCAGG
1 CACTTTATGTGTCGTATTTTAGG
45188268 CACTTTATGTGTCGTATTTTAGG
1 CACTTTATGTGTCGTATTTTAGG
45188291 CACTT
1 CACTT
45188296 CGTGTGTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.46
Consensus pattern (23 bp):
CACTTTATGTGTCGTATTTTAGG
Found at i:45188307 original size:21 final size:21
Alignment explanation
Indices: 45188222--45188307 Score: 66
Period size: 23 Copynumber: 3.8 Consensus size: 21
45188212 GCCAATCAGA
*
45188222 CACTTTATGTGTCGTATTTTAGG
1 CACTTTGTGTGTC--ATTTTAGG
*
45188245 CACTTTATGTGTGGT-ATTTCAGG
1 CAC-TT-TGTGT-GTCATTTTAGG
*
45188268 CACTTTATGTGTCGTATTTTAGG
1 CACTTTGTGTGTC--ATTTTAGG
*
45188291 CACTTCGTGTGTCATTT
1 CACTTTGTGTGTCATTT
45188308 CAGGGGCACT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
20 2 0.04
21 8 0.16
22 2 0.04
23 31 0.61
24 2 0.04
25 4 0.08
26 2 0.04
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (21 bp):
CACTTTGTGTGTCATTTTAGG
Found at i:45188316 original size:46 final size:46
Alignment explanation
Indices: 45188217--45188329 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
45188207 GCTTTGCCAA
* *
45188217 TCAGACACTTTATGTGTCGTATTTTAGGCACTTTATGTGTGGTATT
1 TCAGGCACTTTATGTGTCGTATTTTAGGCACTTTACGTGTGGTATT
45188263 TCAGGCACTTTATGTGTCGTATTTTAGGCAC-TT-CGTGT-GTCATT
1 TCAGGCACTTTATGTGTCGTATTTTAGGCACTTTACGTGTGGT-ATT
*
45188307 TCAGGGGCAC-TTATGTGTTGTAT
1 TCA--GGCACTTTATGTGTCGTAT
45188330 ACTGATCAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
43 2 0.03
44 10 0.16
45 14 0.23
46 35 0.57
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.43
Consensus pattern (46 bp):
TCAGGCACTTTATGTGTCGTATTTTAGGCACTTTACGTGTGGTATT
Found at i:45190148 original size:26 final size:26
Alignment explanation
Indices: 45190112--45190161 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
45190102 ACATATTTTC
*
45190112 TCAAAATTTTACTAAGGGTAAAATCA
1 TCAAAATTTTACGAAGGGTAAAATCA
*
45190138 TCAAAATTTTACGAATGGTAAAAT
1 TCAAAATTTTACGAAGGGTAAAAT
45190162 AGGGATGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACGAAGGGTAAAATCA
Found at i:45199598 original size:23 final size:23
Alignment explanation
Indices: 45199564--45199610 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
45199554 TTAAGGTTAT
*
45199564 TTTAAAATAATTTTAATTATATTG
1 TTTAAAATAATTATAATT-TATTG
45199588 TTTAAAA-AATTATAATTTATTG
1 TTTAAAATAATTATAATTTATTG
45199610 T
1 T
45199611 ATTACATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTAAAATAATTATAATTTATTG
Done.