Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold312
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: 931450
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 39452 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:5734 original size:16 final size:16
Alignment explanation
Indices: 5709--5745 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
5699 TACACCCTCC
*
5709 CCCAATTTAAACCCAG
1 CCCAACTTAAACCCAG
*
5725 CCCAACTTAAATCCAG
1 CCCAACTTAAACCCAG
5741 CCCAA
1 CCCAA
5746 TTTTCTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.41, G:0.05, T:0.16
Consensus pattern (16 bp):
CCCAACTTAAACCCAG
Found at i:6823 original size:16 final size:16
Alignment explanation
Indices: 6802--6835 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6792 AATTATTGAA
6802 TATATTGTAATTAATG
1 TATATTGTAATTAATG
6818 TATATTGTAATTAATG
1 TATATTGTAATTAATG
6834 TA
1 TA
6836 AGAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
TATATTGTAATTAATG
Found at i:7637 original size:23 final size:23
Alignment explanation
Indices: 7606--7650 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7596 TATGCTGGCA
*
7606 AGGCCGAACCTTCTTCTAGTTTT
1 AGGCCGAACCTGCTTCTAGTTTT
*
7629 AGGCTGAACCTGCTTCTAGTTT
1 AGGCCGAACCTGCTTCTAGTTT
7651 CCTTTAACTC
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:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (23 bp):
AGGCCGAACCTGCTTCTAGTTTT
Found at i:10316 original size:37 final size:37
Alignment explanation
Indices: 10261--10455 Score: 295
Period size: 37 Copynumber: 5.3 Consensus size: 37
10251 CTTACATGTC
*
10261 AATTATGT-GTAAATTCAAGACTTATGTAATGTTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
10297 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
10334 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
* *
10371 AATTATGTAG-TGATTCAAAGACTTATGTAATATTTTT
1 AATTATGTAGTTAATTC-AAGACTTATGTAATGTTTTT
* * * * *
10408 AATTATGTAGTGATTTAAAGATTTATGTAATGCTTTT
1 AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
10445 AATTATGTAGT
1 AATTATGTAGT
10456 GATTTAATTC
Statistics
Matches: 146, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
36 13 0.09
37 131 0.90
38 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (37 bp):
AATTATGTAGTTAATTCAAGACTTATGTAATGTTTTT
Found at i:10324 original size:20 final size:20
Alignment explanation
Indices: 10299--10362 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
10289 ATGTTTTTAA
10299 TTATGTAGTTAATTCAAGAC
1 TTATGTAGTTAATTCAAGAC
*
10319 TTATGTAATGTT--TT-TA-A-
1 TTATGT-A-GTTAATTCAAGAC
10336 TTATGTAGTTAATTCAAGAC
1 TTATGTAGTTAATTCAAGAC
10356 TTATGTA
1 TTATGTA
10363 ATGTTTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 8 0.23
18 2 0.06
19 2 0.06
20 15 0.43
21 1 0.03
22 3 0.09
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (20 bp):
TTATGTAGTTAATTCAAGAC
Found at i:10435 original size:20 final size:18
Alignment explanation
Indices: 10371--10462 Score: 71
Period size: 17 Copynumber: 5.0 Consensus size: 18
10361 TAATGTTTTT
*
10371 AATTATGTAGTGATTCAA
1 AATTATGTAGTGATTTAA
* **
10389 AGACTTATGTAAT-ATTTTT
1 A-A-TTATGTAGTGATTTAA
10408 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
* * *
10426 AGATTTATGTAATGCTTT-T
1 A-A-TTATGTAGTGATTTAA
10445 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
10463 TTCGGGTAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
17 20 0.36
18 8 0.15
19 7 0.13
20 20 0.36
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (18 bp):
AATTATGTAGTGATTTAA
Found at i:10474 original size:9 final size:9
Alignment explanation
Indices: 10460--10540 Score: 108
Period size: 9 Copynumber: 8.6 Consensus size: 9
10450 TGTAGTGATT
10460 TAATTCGGG
1 TAATTCGGG
10469 TAATTCGGG
1 TAATTCGGG
*
10478 TAATTTGGG
1 TAATTCGGG
10487 TAATTTTCGGG
1 TAA--TTCGGG
10498 TAATTCGGG
1 TAATTCGGG
10507 TAATTTTCGGG
1 TAA--TTCGGG
*
10518 TAATTTGGG
1 TAATTCGGG
10527 TAATTCGGG
1 TAATTCGGG
10536 TAATT
1 TAATT
10541 TTTAACCAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
9 47 0.73
11 17 0.27
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:10497 original size:20 final size:18
Alignment explanation
Indices: 10460--10541 Score: 110
Period size: 20 Copynumber: 4.3 Consensus size: 18
10450 TGTAGTGATT
*
10460 TAATTCGGGTAATTCGGG
1 TAATTTGGGTAATTCGGG
10478 TAATTTGGGTAATTTTCGGG
1 TAATTTGGGTAA--TTCGGG
*
10498 TAATTCGGGTAATTTTCGGG
1 TAATTTGGGTAA--TTCGGG
10518 TAATTTGGGTAATTCGGG
1 TAATTTGGGTAATTCGGG
10536 TAATTT
1 TAATTT
10542 TTAACCAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
18 23 0.39
20 36 0.61
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.41
Consensus pattern (18 bp):
TAATTTGGGTAATTCGGG
Found at i:10500 original size:29 final size:29
Alignment explanation
Indices: 10463--10541 Score: 126
Period size: 29 Copynumber: 2.7 Consensus size: 29
10453 AGTGATTTAA
10463 TTCGGGTAATTCGGGTAATTT-GGGTAATT
1 TTCGGGTAATTCGGGTAATTTCGGGTAA-T
10492 TTCGGGTAATTCGGGTAATTTTCGGGTAAT
1 TTCGGGTAATTCGGGTAA-TTTCGGGTAAT
10522 TT-GGGTAATTCGGGTAATTT
1 TTCGGGTAATTCGGGTAATTT
10542 TTAACCAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
28 3 0.06
29 33 0.69
30 6 0.12
31 6 0.12
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.42
Consensus pattern (29 bp):
TTCGGGTAATTCGGGTAATTTCGGGTAAT
Found at i:12060 original size:22 final size:21
Alignment explanation
Indices: 12016--12061 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
12006 AATATTAATA
* **
12016 TATTAATATAATAATTATTTT
1 TATTAATATAAAAATTAAATT
12037 TATTAATTATAAAAATTAAATT
1 TATTAA-TATAAAAATTAAATT
12059 TAT
1 TAT
12062 AAAAGTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTAATATAAAAATTAAATT
Found at i:19633 original size:44 final size:43
Alignment explanation
Indices: 19521--19992 Score: 458
Period size: 44 Copynumber: 10.9 Consensus size: 43
19511 TGAAGCCACA
* *
19521 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TA-CG
* * * *
19566 AATCTTATCTTCCTAAAGATGCAGTGGAGCAAGA-TGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAG-TACG
* *
19610 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA-CG
* * * *
19654 AGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGTCACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-ACG
* * * * * *
19698 AATCTAATATCCTTGAAGTTGTAGCGGAGCAGATTGAGGTTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TACG
* *
19742 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGT--G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTACG
* * *
19783 AACCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TACG
* * * **
19827 AATTTTGTCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TACG
* *
19871 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATTGAAGTAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGTA-CG
* *
19916 AGTCTTATCTCCCT---G-T--AGTGGAGCAAGATTGAAGTAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGTA-CG
* *
19955 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
19993 AAGACAAATC
Statistics
Matches: 360, Mismatches: 51, Indels: 33
0.81 0.11 0.07
Matches are distributed among these distances:
39 37 0.10
41 38 0.11
42 3 0.01
43 7 0.02
44 207 0.57
45 65 0.18
46 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTACG
Found at i:19844 original size:129 final size:130
Alignment explanation
Indices: 19523--20023 Score: 527
Period size: 129 Copynumber: 3.8 Consensus size: 130
19513 AAGCCACAAA
* * * * * *
19523 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTTATCTTCCTAAAGATGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TA-CGAATCTTATCTCCCTGAAGTTGC
19588 AGTGGAGCAAGA-TGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAG
64 AGTGGAGC-AGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AATAG
19652 TGAG
127 TGAG
* * * * * *
19656 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGTCACGAATCTAATATCCTTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-ACGAATCTTATCTCCCTGAAGTTGCA
* * * * *
19721 GCGGAGCAGATTGAGGTTACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-AGTGA
65 GTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAGTGA
*
19784 A
130 G
* * * *
19785 CCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACGAATTTTGTCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TACGAATCTTATCTCCCTGAAGTTGCA
* * *
19850 GTGGAGCAGGTTGAAGCTATAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAGATTGAAGTAGT
65 GTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAA-TAGT
19915 GAG
128 GAG
* * *
19918 TCTTATCTCCCT---G-T--AGTGGAGCAAGATTGAAGTAGTGAGTCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAGTA-CGAATCTTATCTCCCTGAAGTTGC
* *** * *
19977 AGTGGAGCAAATTGAAAAGACAAATCCTATAC-CTCTGAAGTTGCAGT
64 AGTGGAGCAGATTGAAGCTACAAATCTTAT-CTCCCTGAAGTTGCAGT
20024 AGGTTAGAAT
Statistics
Matches: 305, Mismatches: 53, Indels: 25
0.80 0.14 0.07
Matches are distributed among these distances:
127 10 0.03
128 64 0.21
129 102 0.33
130 9 0.03
131 5 0.02
132 65 0.21
133 50 0.16
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (130 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTACGAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAATAGTGAG
Found at i:19944 original size:39 final size:39
Alignment explanation
Indices: 19890--19969 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
19880 TCCCTGAAGT
19890 TGTAGTGGAGCAAGATTGAAGTAGTGAGTCTTATCTCCC
1 TGTAGTGGAGCAAGATTGAAGTAGTGAGTCTTATCTCCC
19929 TGTAGTGGAGCAAGATTGAAGTAGTGAGTCTTATCTCCC
1 TGTAGTGGAGCAAGATTGAAGTAGTGAGTCTTATCTCCC
19968 TG
1 TG
19970 AAGTTGCAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (39 bp):
TGTAGTGGAGCAAGATTGAAGTAGTGAGTCTTATCTCCC
Found at i:28703 original size:141 final size:141
Alignment explanation
Indices: 28449--28732 Score: 568
Period size: 141 Copynumber: 2.0 Consensus size: 141
28439 NNNNNNNNNN
28449 TTTTATTAAAAACATTGATATGTATTATAAATATTTAGAGAGAATATAATTTTTGACTTTACTGA
1 TTTTATTAAAAACATTGATATGTATTATAAATATTTAGAGAGAATATAATTTTTGACTTTACTGA
28514 TGTGGTTAATATTACTAGAATAAGATCAGATTGGATGGTTTAAAAATTGATCGATATAATAGTTC
66 TGTGGTTAATATTACTAGAATAAGATCAGATTGGATGGTTTAAAAATTGATCGATATAATAGTTC
28579 AAGCAAAAGGG
131 AAGCAAAAGGG
28590 TTTTATTAAAAACATTGATATGTATTATAAATATTTAGAGAGAATATAATTTTTGACTTTACTGA
1 TTTTATTAAAAACATTGATATGTATTATAAATATTTAGAGAGAATATAATTTTTGACTTTACTGA
28655 TGTGGTTAATATTACTAGAATAAGATCAGATTGGATGGTTTAAAAATTGATCGATATAATAGTTC
66 TGTGGTTAATATTACTAGAATAAGATCAGATTGGATGGTTTAAAAATTGATCGATATAATAGTTC
28720 AAGCAAAAGGG
131 AAGCAAAAGGG
28731 TT
1 TT
28733 AAATCGATTG
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 143 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (141 bp):
TTTTATTAAAAACATTGATATGTATTATAAATATTTAGAGAGAATATAATTTTTGACTTTACTGA
TGTGGTTAATATTACTAGAATAAGATCAGATTGGATGGTTTAAAAATTGATCGATATAATAGTTC
AAGCAAAAGGG
Found at i:31884 original size:20 final size:22
Alignment explanation
Indices: 31856--31902 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
31846 ATTCTATCAT
*
31856 TTCTTTTTTTG-TTT-TTTTTC
1 TTCTGTTTTTGCTTTGTTTTTC
31876 TTCTGTTTTTGTCTTTGTTTTTC
1 TTCTGTTTTTG-CTTTGTTTTTC
31899 TTCT
1 TTCT
31903 TTGCAGGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
22 3 0.13
23 10 0.43
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.79
Consensus pattern (22 bp):
TTCTGTTTTTGCTTTGTTTTTC
Found at i:31903 original size:13 final size:12
Alignment explanation
Indices: 31859--31905 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
31849 CTATCATTTC
31859 TTTT-TTTGTTTT
1 TTTTCTTTG-TTT
31871 TTTTCTTCTGTTT
1 TTTTCTT-TGTTT
*
31884 TTGTCTTTGTTT
1 TTTTCTTTGTTT
31896 TTCTTCTTTG
1 TT-TTCTTTG
31906 CAGGTATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 11 0.37
13 17 0.57
14 2 0.07
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (12 bp):
TTTTCTTTGTTT
Found at i:32953 original size:50 final size:50
Alignment explanation
Indices: 32891--33049 Score: 188
Period size: 50 Copynumber: 3.3 Consensus size: 50
32881 ATCTTGCTTT
32891 ACTGCAACTTCAGGGAGATAAGATTCGCAATTGCAGTTTCATTCCAACCC
1 ACTGCAACTTCAGGGAGATAAGATTCGCAATTGCAGTTTCATTCCAACCC
* * * * * *
32941 ACTGCAACTTCAGTGG-TATAA-A-----AATTGTAGCTTCAATCCAATCT
1 ACTGCAACTTCAG-GGAGATAAGATTCGCAATTGCAGTTTCATTCCAACCC
* *
32985 ACTGTAACTTCAGGGAGATAAGATTCGCAATCGCAGTTTCATTCCAACCC
1 ACTGCAACTTCAGGGAGATAAGATTCGCAATTGCAGTTTCATTCCAACCC
33035 ACTGCAACTTCAGGG
1 ACTGCAACTTCAGGG
33050 GTATAAAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
43 2 0.02
44 33 0.38
45 1 0.01
49 1 0.01
50 47 0.55
51 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
ACTGCAACTTCAGGGAGATAAGATTCGCAATTGCAGTTTCATTCCAACCC
Found at i:32971 original size:94 final size:93
Alignment explanation
Indices: 32890--33103 Score: 365
Period size: 94 Copynumber: 2.3 Consensus size: 93
32880 CATCTTGCTT
* *
32890 TACTGCAACTTCAGGGAGATAAGATTCGCAATTGCAGTTTCATTCCAACCCACTGCAACTTCAGT
1 TACTGCAACTTCAGGGAGATAAGATTCGCAATCGCAGTTTCATTCCAACCCACTGCAACTTCAGG
32955 GGTATAAAAATTGTAGCTTCAATCCAATC
66 GGTATAAAAATTGTAGCTTC-ATCCAATC
*
32984 TACTGTAACTTCAGGGAGATAAGATTCGCAATCGCAGTTTCATTCCAACCCACTGCAACTTCAGG
1 TACTGCAACTTCAGGGAGATAAGATTCGCAATCGCAGTTTCATTCCAACCCACTGCAACTTCAGG
33049 GGTATAAAAATTGTAGCTTCAATCCAATC
66 GGTATAAAAATTGTAGCTTC-ATCCAATC
* *
33078 TACTGCAACTTCAGGGATATAGGATT
1 TACTGCAACTTCAGGGAGATAAGATT
33104 TGTAACTTCA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (93 bp):
TACTGCAACTTCAGGGAGATAAGATTCGCAATCGCAGTTTCATTCCAACCCACTGCAACTTCAGG
GGTATAAAAATTGTAGCTTCATCCAATC
Found at i:33107 original size:44 final size:44
Alignment explanation
Indices: 32941--33145 Score: 155
Period size: 44 Copynumber: 4.5 Consensus size: 44
32931 ATTCCAACCC
*
32941 ACTGCAACTTCAGTGG-TATAAAAATTGTAGCTTCAATCCAATCT
1 ACTGCAACTTCAG-GGATATAAGAATTGTAGCTTCAATCCAATCT
* * * * * *
32985 ACTGTAACTTCAGGGAGATAAG-ATTCGCAATCGCAGTTTCATTCCAACCC
1 ACTGCAACTTCAGGGATATAAGAATT-G---T---AGCTTCAATCCAATCT
* *
33035 ACTGCAACTTCAGGGGTATAAAAATTGTAGCTTCAATCCAATCT
1 ACTGCAACTTCAGGGATATAAGAATTGTAGCTTCAATCCAATCT
* * * *** *
33079 ACTGCAACTTCAGGGATATAGGATTTGTAACTTC-ATCTTGCTCC
1 ACTGCAACTTCAGGGATATAAGAATTGTAGCTTCAATC-CAATCT
*
33123 ACTGCAACTTCAGGGAGATAAGA
1 ACTGCAACTTCAGGGATATAAGA
33146 TTCGCTATGG
Statistics
Matches: 125, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
43 8 0.06
44 81 0.65
47 2 0.02
50 31 0.25
51 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGATATAAGAATTGTAGCTTCAATCCAATCT
Found at i:38807 original size:86 final size:86
Alignment explanation
Indices: 38559--39664 Score: 1564
Period size: 86 Copynumber: 12.9 Consensus size: 86
38549 TTCACTGTCG
* * * * ** * *
38559 ACGCAGAAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGA-GAGAGGTAAGG-TTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTT
*
38622 GTGTCTTCGATCTGCTTCGCTGTCA
65 -T-T-TTCGATCTGCTTCGCTGTTA
* * * * * * *
38647 AGGCAGAAAGGCAAGATCTGTTGTCTTCAACTAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
*
38712 TTTTTGATCTGCTTCGCTGTTA
65 TTTTCGATCTGCTTCGCTGTTA
*
38734 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTC
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
*
38798 TTTTCGATCTGCTTCGTTGTTA
65 TTTTCGATCTGCTTCGCTGTTA
* *
38820 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGACTTTG
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
38884 TTTTCGATCTGCTTCGCTGTTA
65 TTTTCGATCTGCTTCGCTGTTA
** *
38906 ACATAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
38970 TCT-GATCTGCTTTGCTGTTA
66 TTTCGATCTGCTTCGCTGTTA
* *
38990 ACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
39055 TCTCGAGCTGCTTCGCTGTTA
66 TTTCGATCTGCTTCGCTGTTA
* * * *
39076 ACGTAGGAATGCAAGATCTACTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
39141 TCTCGAGCTGCTTCGCTGTTA
66 TTTCGATCTGCTTCGCTGTTA
*
39162 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
39226 TCTCGAGCTGCTTCGCTGTTA
66 TTTCGATCTGCTTCGCTGTTA
*
39247 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
39311 TCTCGAGCTGCTTCGCTGTTA
66 TTTCGATCTGCTTCGCTGTTA
*
39332 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
39396 TCTCGAGCTGCTTCGCTGTTA
66 TTTCGATCTGCTTCGCTGTTA
* * *
39417 ACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACTGATGGAGGCAAGGTTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
*
39482 TTTCGATCTGCTTCGTTGTTA
66 TTTCGATCTGCTTCGCTGTTA
* *
39503 ACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTTA
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
* **
39568 TTTTCGATCTACTTTACTGTTA
65 TTTTCGATCTGCTTCGCTGTTA
* *
39590 ACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTTA
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
39655 TTTTCGATCT
65 TTTTCGATCT
39665 TCACTGATCT
Statistics
Matches: 950, Mismatches: 62, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
84 36 0.04
85 298 0.31
86 427 0.45
87 130 0.14
88 53 0.06
89 6 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (86 bp):
ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
TTTCGATCTGCTTCGCTGTTA
Found at i:39092 original size:256 final size:258
Alignment explanation
Indices: 38559--39664 Score: 1555
Period size: 256 Copynumber: 4.3 Consensus size: 258
38549 TTCACTGTCG
* * * * ** * *
38559 ACGCAGAAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGA-GAGAGGTAAGG-TTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTT
* * * * * *
38622 GTGTCTTCGATCTGCTTCGCTGTCAAGGCAGAAAGGCAAGATCTGTTGTCTTCAACTAGCTCCAC
65 -T-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCAC
* * *
38687 TGCAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATC
127 TGCAACCGATGGAGGCAAGGCTTT-TTCTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATC
* * * * * *
38752 TGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTTCTTTTCGATCTGCTTCGTTG
191 TGCTTCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTATTCTCGAGCTGCTTCGCTG
38817 TTA
256 TTA
* *
38820 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGACTTTG
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
** * *
38884 TTTTCGATCTGCTTCGCTGTTAACATAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCTACTGC
65 TTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGC
*
38948 AACCGATGGAGGCAAGGCTTTTTCT-GATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTGCT
130 AACCGATGGAGGCAAGGCTTTTTCTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT
*
39012 ATCTTCAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTT-TTCTCGAGCTGCTTCGCTGTTA
195 -TCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTATTCTCGAGCTGCTTCGCTGTTA
* * * *
39076 ACGTAGGAATGCAAGATCTACTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* * *
39141 TCTCGAGCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCA
66 TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCA
* *
39205 ACCGATAGAGGCAAGGCTTTTTCTCGAGCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTT
131 ACCGATGGAGGCAAGGCTTTTTCTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTT
39270 CTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTT-TTCTCGAGCTGCTTCGCTGTTA
196 CTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTATTCTCGAGCTGCTTCGCTGTTA
*
39332 ACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTT
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
* *
39396 TCTCGAGCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCA
66 TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCA
* * * * *
39461 ACTGATGGAGGCAAGGTTTTTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGCAAGATCTGTTA
131 ACCGATGGAGGCAAGGCTTTTTCTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-
* * * * * **
39526 TCTTTAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTTATTTTCGATCTACTTTACTGTTA
195 TCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTATTCTCGAGCTGCTTCGCTGTTA
* *
39590 ACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCATTGCAACCGATGGAGGCAAGGCTTTA
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-
39655 TTTTCGATCT
65 TTTTCGATCT
39665 TCACTGATCT
Statistics
Matches: 768, Mismatches: 67, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
255 83 0.11
256 317 0.41
257 155 0.20
258 75 0.10
259 75 0.10
260 37 0.05
261 26 0.03
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (258 bp):
ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTT
TTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCA
ACCGATGGAGGCAAGGCTTTTTCTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTT
CTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTATTCTCGAGCTGCTTCGCTGTTA
Found at i:40903 original size:21 final size:21
Alignment explanation
Indices: 40879--40918 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
40869 TTAGCCTCTC
40879 CATTTT-ACTTTTCATTTTTTT
1 CATTTTCA-TTTTCATTTTTTT
40900 CATTTTCATTTTCATTTTT
1 CATTTTCATTTTCATTTTT
40919 CATCTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTCATTTTCATTTTTTT
Found at i:41399 original size:48 final size:47
Alignment explanation
Indices: 41306--41399 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
41296 CTTTTCATAT
** *
41306 TTTTATTTTGACTTCGATTGATTTCTCTTTTTCTTTTTGTTTTTTTA
1 TTTTATTTTGACTTCGATTGATTTCTCTTTTTCTTTTCCTCTTTTTA
* * *
41353 TTTTATTTTGATTTTGATT-TTTTCTCTCTTTTCCTTTTCCTCTTTTT
1 TTTTATTTTGACTTCGATTGATTTCTCT-TTTT-CTTTTCCTCTTTTT
41400 TAATCGGATC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
46 7 0.18
47 21 0.54
48 11 0.28
ACGTcount: A:0.09, C:0.14, G:0.06, T:0.71
Consensus pattern (47 bp):
TTTTATTTTGACTTCGATTGATTTCTCTTTTTCTTTTCCTCTTTTTA
Found at i:43458 original size:20 final size:20
Alignment explanation
Indices: 43433--43470 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43423 ATTCGCTCTA
43433 ATTTTTCCAACCTTTGTTCC
1 ATTTTTCCAACCTTTGTTCC
*
43453 ATTTTTCTAACCTTTGTT
1 ATTTTTCCAACCTTTGTT
43471 TCGATACCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTTTCCAACCTTTGTTCC
Found at i:46904 original size:29 final size:29
Alignment explanation
Indices: 46839--47065 Score: 363
Period size: 29 Copynumber: 7.8 Consensus size: 29
46829 TATATGTTTT
46839 ATATAC-TT-CCGAATTGATTTGTATATGG
1 ATATACATTGCCGAATTGATTTGT-TATGG
46867 ATATACATTGCCGAATTGATTTGTTATGG
1 ATATACATTGCCGAATTGATTTGTTATGG
46896 ATATACATTGCCGAATTGATTTGTATATGG
1 ATATACATTGCCGAATTGATTTGT-TATGG
46926 ATATACATTGCCGAATTGATTTGTTATGG
1 ATATACATTGCCGAATTGATTTGTTATGG
46955 ATATACATTGCCGAATTGATTTGTATATGG
1 ATATACATTGCCGAATTGATTTGT-TATGG
46985 ATATACATTGCCGAATTGATTTGTTATGG
1 ATATACATTGCCGAATTGATTTGTTATGG
*
47014 ATATACATTGCCGAATTGATTTG-TATACG
1 ATATACATTGCCGAATTGATTTGTTAT-GG
* *
47043 -TATATATTGTCGAATTGATTTGT
1 ATATACATTGCCGAATTGATTTGT
47066 ATATTATACA
Statistics
Matches: 190, Mismatches: 3, Indels: 11
0.93 0.01 0.05
Matches are distributed among these distances:
28 29 0.15
29 89 0.47
30 72 0.38
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (29 bp):
ATATACATTGCCGAATTGATTTGTTATGG
Found at i:46913 original size:59 final size:59
Alignment explanation
Indices: 46839--47065 Score: 399
Period size: 59 Copynumber: 3.9 Consensus size: 59
46829 TATATGTTTT
46839 ATATAC-TT-CCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
1 ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
46896 ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
1 ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
46955 ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
1 ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
* * *
47014 ATATACATTGCCGAATTGATTTGTATA-CG-TATATATTGTCGAATTGATTTGT
1 ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGT
47066 ATATTATACA
Statistics
Matches: 165, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
57 27 0.16
58 3 0.02
59 135 0.82
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (59 bp):
ATATACATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTTATGG
Found at i:50501 original size:19 final size:17
Alignment explanation
Indices: 50478--50515 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50468 TTTTTAGTTA
50478 ATATTA-TTTTTTATAT
1 ATATTATTTTTTTATAT
*
50494 ATATTATTTTTTTATGT
1 ATATTATTTTTTTATAT
50511 ATATT
1 ATATT
50516 TAAATCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATATTATTTTTTTATAT
Found at i:50665 original size:12 final size:12
Alignment explanation
Indices: 50657--50689 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
50647 TTTTTTACTG
50657 TTTTATTTAATA
1 TTTTATTTAATA
*
50669 TTTCATTTAATA
1 TTTTATTTAATA
50681 TTTTATTTA
1 TTTTATTTA
50690 CTTATTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:50752 original size:18 final size:17
Alignment explanation
Indices: 50722--50755 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50712 TAAATCCATC
50722 TTATATTAGTTTTTATT
1 TTATATTAGTTTTTATT
*
50739 TTATCATTATTTTTTAT
1 TTAT-ATTAGTTTTTAT
50756 ATTGGCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TTATATTAGTTTTTATT
Found at i:52047 original size:16 final size:16
Alignment explanation
Indices: 52022--52055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52012 TGTGTTTTGC
* *
52022 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
52038 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
52054 TT
1 TT
52056 CATCATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:58133 original size:30 final size:30
Alignment explanation
Indices: 58094--58152 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58084 TGACATAGAC
58094 TGTGGTTTATCTTC-GAACTTGTTAAGGATT
1 TGTGGTTTATCTTCAG-ACTTGTTAAGGATT
* *
58124 TGTGTTTTATCTTCAGACTTGTTGAGGAT
1 TGTGGTTTATCTTCAGACTTGTTAAGGAT
58153 GGTAGAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.47
Consensus pattern (30 bp):
TGTGGTTTATCTTCAGACTTGTTAAGGATT
Found at i:62855 original size:96 final size:94
Alignment explanation
Indices: 62691--62970 Score: 379
Period size: 96 Copynumber: 3.0 Consensus size: 94
62681 TATACCCCTG
*
62691 GCGTGGCAGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATTTCTCTGGCGTTGCAGTAGAT
1 GCGTGGCAGT-GAGCAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTAGAT
* *
62756 TAAAGCTAAAGGCAGCAAATCTTTTTTCCT
65 TAAAGCTGAAGGCAACAAATCTTTTTTCCT
62786 AGCGTGGCAGTAGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTAGA
1 -GCGTGGCAGT-GAGCAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTAGA
*
62851 TTAAAGCTGAAGGCAACAAATCTTTTTACCT
64 TTAAAGCTGAAGGCAACAAATCTTTTTTCCT
** * * * * *
62882 G-GT-GTTGT-AGTAGATAAAAGCTGAAGGCAGCAAATCTT-TTTCCCTGGCATTACAGTAGATT
1 GCGTGGCAGTGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTAGATT
* * *
62943 AAAGCTGAAGGCATCGAATCTTATTTCC
66 AAAGCTGAAGGCAACAAATCTTTTTTCC
62971 CTGGCATTGC
Statistics
Matches: 168, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
90 45 0.27
91 27 0.16
93 3 0.02
94 2 0.01
95 1 0.01
96 90 0.54
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (94 bp):
GCGTGGCAGTGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGTAGATT
AAAGCTGAAGGCAACAAATCTTTTTTCCT
Found at i:62902 original size:45 final size:46
Alignment explanation
Indices: 62706--62981 Score: 333
Period size: 45 Copynumber: 6.0 Consensus size: 46
62696 GCAGTGGAGC
* *
62706 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCTCTGGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTTGCAGT
* * * *
62752 AGATTAAAGCTAAAGGCAGCAAATCTTTTTTCCTAGCGTGGCAGTAG-AGC
1 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCC---C-TGGC-GTTGCAGT
*
62802 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTTGCAGT
* * * *
62848 AGATTAAAGCTGAAGGCAACAAATCTT-TTTACCTGGTGTTGTAGT
1 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTTGCAGT
* * *
62893 AGATAAAAGCTGAAGGCAGCAAATCTT-TTTCCCTGGCATTACAGT
1 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTTGCAGT
* * *
62938 AGATTAAAGCTGAAGGCATCGAATCTTATTTCCCTGGCATTGCA
1 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTTGCA
62982 ACAGACTAAA
Statistics
Matches: 196, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
45 80 0.41
46 75 0.38
47 1 0.01
49 1 0.01
50 36 0.18
51 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (46 bp):
AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTTGCAGT
Found at i:63230 original size:173 final size:172
Alignment explanation
Indices: 63018--63423 Score: 575
Period size: 173 Copynumber: 2.3 Consensus size: 172
63008 TTTACCTCCC
63018 CGAGGTTGTAGAGGAGCAGATTGAAGAAACCAATCCTATCTCTCTGAAGTTGCAGTGGAG-CAGG
1 CGAGGTTGTAGAGGAGCAGATTGAAGAAACCAATCCTATCTC-CTGAAGTTGCAGTGGAGCCA-G
* *
63082 TTAAAATGATGGATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGCATCAGGTCTTATCTC-C
64 TTAAAATGATGGATCTTATCTCTCTAAAGTTGCAGTAGAACAAATCGCATCAGGTCTTATCTCTC
* *
63146 ATGAAGTTGTAGCGGAGCAGACTAAATAAACCAATCGTATCTTCA
129 -TAAAGTTGCAGCGGAGCAGACTAAATAAACCAATCGTATCTTCA
63191 CGAGGTTGTAGAGGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCCAGT
1 CGAGGTTGTAGAGGAGCAGATTGAAGAAACCAATCCTATCT-CCTGAAGTTGCAGTGGAGCCAGT
* * * *
63256 TAAAATGATGGATCTTATCTCTTTAAAGTTGCAGTAGAGCAAATTGCATTAGGTCTTATCTCTCT
65 TAAAATGATGGATCTTATCTCTCTAAAGTTGCAGTAGAACAAATCGCATCAGGTCTTATCTCTCT
* *
63321 AAAGTTGCAGCGGAGCAGACTGAATAAACCAATCGTATCTTCT
130 AAAGTTGCAGCGGAGCAGACTAAATAAACCAATCGTATCTTCA
* * * * * * * *
63364 CGAGGTCGCA-ATGGAGCAGATTAAAGCAACAAATCTTATATCCTTGATGTTGCAGTGGAG
1 CGAGGTTGTAGA-GGAGCAGATTGAAGAAACCAATCCTATCTCC-TGAAGTTGCAGTGGAG
63424 TGGATCGAAG
Statistics
Matches: 210, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
172 3 0.01
173 203 0.97
174 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (172 bp):
CGAGGTTGTAGAGGAGCAGATTGAAGAAACCAATCCTATCTCCTGAAGTTGCAGTGGAGCCAGTT
AAAATGATGGATCTTATCTCTCTAAAGTTGCAGTAGAACAAATCGCATCAGGTCTTATCTCTCTA
AAGTTGCAGCGGAGCAGACTAAATAAACCAATCGTATCTTCA
Found at i:63251 original size:44 final size:44
Alignment explanation
Indices: 63139--63251 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
63129 CATCAGGTCT
* * * *
63139 TATCTCCATGAAGTTGTAGCGGAGCAGACTAAATAAACCAATCG
1 TATCTCCCTGAAGTTGTAGAGGAGCAGACTAAAGAAACCAATCC
* * * *
63183 TATCTTCAC-GAGGTTGTAGAGGAGCAGATTGAAGAAACCAATCC
1 TATC-TCCCTGAAGTTGTAGAGGAGCAGACTAAAGAAACCAATCC
* *
63227 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGTAGAGGAGC
63252 CAGTTAAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.05
44 50 0.91
45 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGTAGAGGAGCAGACTAAAGAAACCAATCC
Found at i:64847 original size:12 final size:12
Alignment explanation
Indices: 64827--64871 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
64817 CATTTTCATC
*
64827 ATTTT-TTTACT
1 ATTTTATTTAAT
64838 ATTTTATTTAAT
1 ATTTTATTTAAT
*
64850 ATTTCATTTAAT
1 ATTTTATTTAAT
64862 ATTTTATTTA
1 ATTTTATTTA
64872 CTTATTTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 5 0.17
12 25 0.83
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:64934 original size:18 final size:17
Alignment explanation
Indices: 64904--64937 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
64894 TAAATCCATC
64904 TTATATTAGTTTTTATT
1 TTATATTAGTTTTTATT
*
64921 TTATCATTATTTTTTAT
1 TTAT-ATTAGTTTTTAT
64938 ATTGGCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TTATATTAGTTTTTATT
Found at i:81036 original size:33 final size:30
Alignment explanation
Indices: 80983--81042 Score: 75
Period size: 33 Copynumber: 1.9 Consensus size: 30
80973 TCTTATTATT
*
80983 TTATTATTTTTTATTCTAAATTTTTTATAA
1 TTATTATTTTTTATTCTAAATTATTTATAA
*
81013 TTATTATTTTTAAGTATTTTAAATTATTTA
1 TTATTATTTTT---TATTCTAAATTATTTA
81043 GGAGTTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
33 14 0.56
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTATTATTTTTTATTCTAAATTATTTATAA
Found at i:94401 original size:43 final size:43
Alignment explanation
Indices: 94343--94539 Score: 161
Period size: 43 Copynumber: 4.6 Consensus size: 43
94333 CCAAAAGAAA
* ***
94343 TATAGTGGCACACATAGTGCATCATTGGACAAGCC-GAAGCAAT
1 TATACTGGCACACATAGTGCATCATCAAACAAGCCAGAA-CAAT
* *
94386 TATATTGGCATACATAGTGCATCATCAAACAAGCCAGAACAAT
1 TATACTGGCACACATAGTGCATCATCAAACAAGCCAGAACAAT
* *
94429 TATACTGGCGCACATAGTGCATCATCAAATGAA-CCA-AAGCAAT
1 TATACTGGCACACATAGTGCATCATCAAA-CAAGCCAGAA-CAAT
* * * * * * * *
94472 TATATTGGCACCCGTAATGCATCATCGAATAAACCA-AAGCAAA
1 TATACTGGCACACATAGTGCATCATCAAACAAGCCAGAA-CAAT
* *
94515 TATACTTGCACATA-AGTGCATCATC
1 TATACTGGCACACATAGTGCATCATC
94540 GCCTATAACG
Statistics
Matches: 127, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
42 14 0.11
43 108 0.85
44 5 0.04
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (43 bp):
TATACTGGCACACATAGTGCATCATCAAACAAGCCAGAACAAT
Found at i:94493 original size:86 final size:85
Alignment explanation
Indices: 94379--94539 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
94369 GGACAAGCCG
* * * *
94379 AAGCAATTATATTGGCATACATAGTGCATCATCAAACAAGCCAGAA-CAATTATACTGGCGCACA
1 AAGCAATTATATTGGCACACATAATGCATCATCAAACAAACCA-AAGCAAATATACT--CGCACA
94443 T-AGTGCATCATCAAATGAACCA
63 TAAGTGCATCATCAAATGAACCA
* * * * *
94465 AAGCAATTATATTGGCACCCGTAATGCATCATCGAATAAACCAAAGCAAATATACTTGCACATAA
1 AAGCAATTATATTGGCACACATAATGCATCATCAAACAAACCAAAGCAAATATACTCGCACATAA
94530 GTGCATCATC
66 GTGCATCATC
94540 GCCTATAACG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
84 6 0.09
85 13 0.20
86 45 0.70
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.23
Consensus pattern (85 bp):
AAGCAATTATATTGGCACACATAATGCATCATCAAACAAACCAAAGCAAATATACTCGCACATAA
GTGCATCATCAAATGAACCA
Found at i:95280 original size:31 final size:29
Alignment explanation
Indices: 95205--95283 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
95195 TATTTTTCTT
95205 ATGTTACATTTTAGTCACTTATGTTTGAA
1 ATGTTACATTTTAGTCACTTATGTTTGAA
**
95234 ATGTTATGTTTTAGTCACTTATG-TT-AA
1 ATGTTACATTTTAGTCACTTATGTTTGAA
95261 CATGTTGCAACATTTTAGTCACT
1 -ATGTT---ACATTTTAGTCACT
95284 GAGCCTTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.05
28 7 0.17
29 21 0.50
31 12 0.29
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.47
Consensus pattern (29 bp):
ATGTTACATTTTAGTCACTTATGTTTGAA
Found at i:95431 original size:17 final size:16
Alignment explanation
Indices: 95406--95448 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
95396 TTTTGAGCAG
95406 TTTATTT-TTTT--CT
1 TTTATTTCTTTTAACT
95419 TTTATGTTCTTTTAACT
1 TTTAT-TTCTTTTAACT
95436 TTTATTTCTTTTA
1 TTTATTTCTTTTA
95449 TTTATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.19
14 2 0.08
15 4 0.15
16 8 0.31
17 7 0.27
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTATTTCTTTTAACT
Found at i:95887 original size:11 final size:11
Alignment explanation
Indices: 95858--95890 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
95848 TGAAGTTTTG
*
95858 TTAATATAATA
1 TTAATTTAATA
95869 TTAA-TTAATA
1 TTAATTTAATA
95879 TTAATTTAATA
1 TTAATTTAATA
95890 T
1 T
95891 ATTAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:100574 original size:12 final size:12
Alignment explanation
Indices: 100557--100582 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100547 TACAAGAATT
100557 GAAAAAAAGAGA
1 GAAAAAAAGAGA
100569 GAAAAAAAGAGA
1 GAAAAAAAGAGA
100581 GA
1 GA
100583 GTTCCCGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAGA
Found at i:101197 original size:50 final size:49
Alignment explanation
Indices: 101122--102345 Score: 693
Period size: 50 Copynumber: 24.6 Consensus size: 49
101112 GAGTTCTGAC
* * * * *
101122 TTGTAGCTTTAATCTTTTTAATTGCAATGTTAGGGAAGCAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTT-GGGAAGTAAGATTCGCCG
** ** * *
101172 TTGTAGCTTCAATCTGTTCCGTTGCACCGCCTGGGAAGTAAGATTCGCCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATG-TTGGGAAGTAAGATTCGCCG
* * * * * * ** * * *
101222 TTGTGGCTTTAATATTTTAAATTGTAATGTCAAGGATGTGAGATTCGCCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATGT-TGGGAAGTAAGATTCGCCG
* *** *
101272 TCGTAGCTTCAATCTGTTCCGCTAC-ATCGTCTGGGAAGTAAGATTCGCCG
1 TTGTAGCTTCAATCTGTTCAATTGCAAT-GT-TGGGAAGTAAGATTCGCCG
* * * *
101322 TTGTAGCTTCAATCTTTTTAATTGCAATGTTAGGGAAGCAAGA-TCTCCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTT-GGGAAGTAAGATTCGCCG
* ** ** * * *
101371 TTGTAGCTTCAATCTATTTC-GCTGCACCGCCT-GGAATGTAAGATTCACCA
1 TTGTAGCTTCAATCT-GTTCAATTGCAATG-TTGGGAA-GTAAGATTCGCCG
* * * *
101421 TTGTAGCTTCAAT-T-TTTAATTACAATGTCGGGGAAGCAAGATTCGCCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGT-TGGGAAGTAAGATTCGCCG
* *** ** * * * *
101469 TTGCAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTCACCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATG-TTGGGAAGTAAGATTCGCCG
* * * *
101519 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTTG-GGAAGTAAGATTCGCCG
*** ** * * * *
101569 TTGTAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTCACCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATG-TTGGGAAGTAAGATTCGCCG
* * * ** *
101619 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGT-TGGGAAGTAAGATTCGCCG
* * * ** * ** *
101669 TTGTAACTTCAATCTGTTCCACTGCACCGCCTGAAAAGTAAGATTCGTCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATG-TTGGGAAGTAAGATTCGCCG
* * * * * *
101719 TTGTAGCTTCAATCTTTTTAATTGCAATATCGGGGAAGGAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGT-TGGGAAGTAAGATTCGCCG
** ** * *
101769 TTGTAGCTTCAATCTGTTTC-GGTGCACCGCTTGGAAAGTAAGATTCGCCA
1 TTGTAGCTTCAATCTG-TTCAATTGCAATG-TTGGGAAGTAAGATTCGCCG
* * * * *
101819 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGT-TGGGAAGTAAGATTCGCCG
* * ** *
101869 TTGTAGCTTCAATCTGTTCTACTGCACCGCCTT-GGAAGTAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATG--TTGGGAAGTAAGATTCGCCG
* * * * * *
101919 TTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGTGAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTTG-GGAAGTAAGATTCGCCG
** * * ** * ** *
101969 TCATAGCTTCAATCTGTTCCACTGCACCGTCGAAAAAGTAAGATTCGCCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTTG-GGAAGTAAGATTCGCCG
* * * * * *
102019 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATGT-TGGGAAGTAAGATTCGCCG
* *** ** * * *
102069 TTATAGCTTCAATCTGTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
1 TTGTAGCTTCAATCTGTTCAATTGCAATG-TTGGGAAGTAAGATTCGCCG
* * * * * *
102119 TTATAGCTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAAATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTT-GGGAAGTAAGATTCGCCG
*** * ** *
102169 TTGTAGCTTCAATCTGTTCCGCTGCACCTCCTGGGAAGTAAGATTCACCG
1 TTGTAGCTTCAATCTGTTCAATTGCA-ATGTTGGGAAGTAAGATTCGCCG
* * * * *
102219 TTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGTGAGATTCGCCG
1 TTGTAGCTTCAATCTGTTCAATTGCAATGTTG-GGAAGTAAGATTCGCCG
*** *
102269 TTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCTGGGAAGTAAGATTCGCCG
1 TTGTAGCTTCAATCTGTTCAATTGCAAT-G-TTGGGAAGTAAGATTCGCCG
* *
102319 TTGTAGCTTCAATCTTTTTAATTGCAA
1 TTGTAGCTTCAATCTGTTCAATTGCAA
102346 ACTATGGTTT
Statistics
Matches: 853, Mismatches: 285, Indels: 71
0.71 0.24 0.06
Matches are distributed among these distances:
47 2 0.00
48 31 0.04
49 48 0.06
50 759 0.89
51 12 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (49 bp):
TTGTAGCTTCAATCTGTTCAATTGCAATGTTGGGAAGTAAGATTCGCCG
Found at i:101266 original size:100 final size:100
Alignment explanation
Indices: 101122--102345 Score: 1657
Period size: 100 Copynumber: 12.3 Consensus size: 100
101112 GAGTTCTGAC
* **
101122 TTGTAGCTTTAATCTTTTTAATTGCAATGTTAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* *
101187 GTTCCGTTGCACCGCCTGGGAAGTAAGATTCGCCA
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* * * * * ** * ** * * *
101222 TTGTGGCTTTAATATTTTAAATTGTAATGTCAAGGATGTGAGATTCGCCATCGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * * * *
101287 GTTCCGCTACATCGTCTGGGAAGTAAGATTCGCCG
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
** *
101322 TTGTAGCTTCAATCTTTTTAATTGCAATGTTAGGGAAGCAAGA-TCTCCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * * *
101386 ATTTCGCTGCACCGCCTGGAATGTAAGATTCACCA
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* * *
101421 TTGTAGCTTCAA--TTTTTAATTACAATGTCGGGGAAGCAAGATTCGCCGTTGCAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
*
101484 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCACCA
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* *
101519 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
*
101584 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCACCA
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* *
101619 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAACAAGATTCACCGTTGTAACTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * * *
101684 GTTCCACTGCACCGCCTGAAAAGTAAGATTCGTCG
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* *
101719 TTGTAGCTTCAATCTTTTTAATTGCAATATCGGGGAAGGAAGATTCACCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * *
101784 GTTTCGGTGCACCGCTTGGAAAGTAAGATTCGCCA
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
101819 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
** * *
101884 GTTCTACTGCACCGCCTTGG-AAGTAAGATTCACCG
66 GTTCCGCTGCACCGCC-TGGAAAGTAAGATTCGCCA
* * * ** **
101919 TTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGTGAGATTCACCGTCATAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * *
101984 GTTCCACTGCACCGTC-GAAAAAGTAAGATTCGCCA
66 GTTCCGCTGCACCGCCTG-GAAAGTAAGATTCGCCA
** * *
102019 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCCATTATAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
102084 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* * *
102119 TTATAGCTTCAATCTTTTTAATTGCAATGTTGGGGAAGCAAAATTCACCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * * *
102184 GTTCCGCTGCACCTCCTGGGAAGTAAGATTCACCG
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
* * * ** *
102219 TTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGTGAGATTCGCCGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
* * *
102284 GTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCG
66 GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
102319 TTGTAGCTTCAATCTTTTTAATTGCAA
1 TTGTAGCTTCAATCTTTTTAATTGCAA
102346 ACTATGGTTT
Statistics
Matches: 989, Mismatches: 128, Indels: 14
0.87 0.11 0.01
Matches are distributed among these distances:
97 26 0.03
98 64 0.06
99 56 0.06
100 839 0.85
101 4 0.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (100 bp):
TTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
GTTCCGCTGCACCGCCTGGAAAGTAAGATTCGCCA
Found at i:103627 original size:13 final size:13
Alignment explanation
Indices: 103601--103650 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
103591 TTAGCCTCTC
*
103601 CATTTTTACTTTTT
1 CATTTTT-CATTTT
103615 CATTTTTCATTTT
1 CATTTTTCATTTT
*
103628 TATTTTTCA--TT
1 CATTTTTCATTTT
103639 -ATTTTTCATTTT
1 CATTTTTCATTTT
103651 TTGTTTGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 8 0.25
11 2 0.06
12 2 0.06
13 13 0.41
14 7 0.22
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:103651 original size:7 final size:7
Alignment explanation
Indices: 103601--103638 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
103591 TTAGCCTCTC
103601 CATTTTT
1 CATTTTT
103608 -ACTTTTT
1 CA-TTTTT
103615 CATTTTT
1 CATTTTT
103622 CATTTTT
1 CATTTTT
103629 -ATTTTT
1 CATTTTT
103635 CATT
1 CATT
103639 ATTTTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.25
7 20 0.71
8 1 0.04
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:104464 original size:13 final size:13
Alignment explanation
Indices: 104446--104471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104436 TGACCTCTCC
104446 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
104459 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
104472 CCTTTTTTAC
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:126909 original size:285 final size:285
Alignment explanation
Indices: 126399--126985 Score: 1165
Period size: 285 Copynumber: 2.1 Consensus size: 285
126389 AAGATACTTT
126399 GGGTTATTAAAACATAGATGGGGGATAATTAGGAGTCCATCATTCTATCCTGTAAGGGTGCACAA
1 GGGTTATTAAAACATAGATGGGGGATAATTAGGAGTCCATCATTCTATCCTGTAAGGGTGCACAA
126464 TAGAATCATTATTGCATTTGGTTAGCTCTATGATTTTATTTGAACCTATATGAGTCTTGATCCTA
66 TAGAATCATTATTGCATTTGGTTAGCTCTATGATTTTATTTGAACCTATATGAGTCTTGATCCTA
126529 TTGAAGCGAAGTTGGGAGAATGACTACCTAGTAATGTGATAGATGACTATGAATCGGATATCGTA
131 TTGAAGCGAAGTTGGGAGAATGACTACCTAGTAATGTGATAGATGACTATGAATCGGATATCGTA
126594 AATATTCATCCTTCAGATACATTGGCTACTTGGAGGATGGAACTAGCCAATCAAATGTTCTATGA
196 AATATTCATCCTTCAGATACATTGGCTACTTGGAGGATGGAACTAGCCAATCAAATGTTCTATGA
126659 ATGGTAAGTATTTAGAAATTAGTTA
261 ATGGTAAGTATTTAGAAATTAGTTA
126684 GGGTTATTAAAACATAGATGGGGGATAATTAGGAGTCCATCATTCTATCCTGTAAGGGTGCACAA
1 GGGTTATTAAAACATAGATGGGGGATAATTAGGAGTCCATCATTCTATCCTGTAAGGGTGCACAA
126749 TAGAATCATTATTGCATTTGGTTAGCTCTATGATTTTATTTGAACCTATATGAGTCTTGATCCTA
66 TAGAATCATTATTGCATTTGGTTAGCTCTATGATTTTATTTGAACCTATATGAGTCTTGATCCTA
126814 TTGAAGCGAAGTTGGGAGAATGACTACCTAGTAATGTGATAGATGACTATGAATCGGATATCGTA
131 TTGAAGCGAAGTTGGGAGAATGACTACCTAGTAATGTGATAGATGACTATGAATCGGATATCGTA
126879 AATATTCATCCTTCAGATACATTGGCTACTTGGAGGATGGAACTAGCCAATCAAATGTTCTATGA
196 AATATTCATCCTTCAGATACATTGGCTACTTGGAGGATGGAACTAGCCAATCAAATGTTCTATGA
126944 ATGGTAAGTATTTAGAAATTAGTTA
261 ATGGTAAGTATTTAGAAATTAGTTA
*
126969 GGTTTATTAAAACATAG
1 GGGTTATTAAAACATAG
126986 TAGAATGTTA
Statistics
Matches: 301, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 301 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (285 bp):
GGGTTATTAAAACATAGATGGGGGATAATTAGGAGTCCATCATTCTATCCTGTAAGGGTGCACAA
TAGAATCATTATTGCATTTGGTTAGCTCTATGATTTTATTTGAACCTATATGAGTCTTGATCCTA
TTGAAGCGAAGTTGGGAGAATGACTACCTAGTAATGTGATAGATGACTATGAATCGGATATCGTA
AATATTCATCCTTCAGATACATTGGCTACTTGGAGGATGGAACTAGCCAATCAAATGTTCTATGA
ATGGTAAGTATTTAGAAATTAGTTA
Found at i:127554 original size:21 final size:21
Alignment explanation
Indices: 127528--127568 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
127518 CAGATGGTTG
127528 TTGTCTTTATTATCTTGTTTA
1 TTGTCTTTATTATCTTGTTTA
127549 TTGTCTTTATTATCTTGTTT
1 TTGTCTTTATTATCTTGTTT
127569 TGACCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.10, T:0.68
Consensus pattern (21 bp):
TTGTCTTTATTATCTTGTTTA
Found at i:128637 original size:58 final size:58
Alignment explanation
Indices: 128573--128699 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 58
128563 TAATTCACAT
* * * *
128573 TTTAATAATAATTATATTAAGAATGTTATTAAATTATATGTTA-TTTTATTAAATTGTA
1 TTTAATAATAATTATATTAA-AATGTGATTAAATTATATATTATTTTTATTAAAATATA
* * *
128631 TTTAATAATAATTATGTTAAAATGTGATTAAATTGTTTATTATTTTTATTAAAATATA
1 TTTAATAATAATTATATTAAAATGTGATTAAATTATATATTATTTTTATTAAAATATA
128689 TTTAATAATAA
1 TTTAATAATAA
128700 CCTTATTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 18 0.30
58 43 0.70
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (58 bp):
TTTAATAATAATTATATTAAAATGTGATTAAATTATATATTATTTTTATTAAAATATA
Found at i:136261 original size:13 final size:13
Alignment explanation
Indices: 136243--136291 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
136233 AATCTCAAAC
*
136243 ATCAATATATATA
1 ATCAAAATATATA
*
136256 ATCAATATATATA
1 ATCAAAATATATA
136269 ATCAAAATATCA-A
1 ATCAAAATAT-ATA
136282 ATCAAAATAT
1 ATCAAAATAT
136292 CAAACCCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 33 0.97
14 1 0.03
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (13 bp):
ATCAAAATATATA
Found at i:137022 original size:21 final size:21
Alignment explanation
Indices: 136998--137037 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
136988 AGTCATTAGT
* *
136998 AGATGTTTGAGAGTATTTTAA
1 AGATATTTGAAAGTATTTTAA
*
137019 AGATATTTGAAAGTGTTTT
1 AGATATTTGAAAGTATTTT
137038 CATTAAGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
AGATATTTGAAAGTATTTTAA
Found at i:137344 original size:24 final size:24
Alignment explanation
Indices: 137307--137359 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
137297 TTTCTAGAAT
*
137307 ATTTAGTAGTATAATATA-TTTAGC
1 ATTTAGTAGCATAATATATTTTA-C
*
137331 ATTTATTAGCATAATATATTTTAC
1 ATTTAGTAGCATAATATATTTTAC
137355 ATTTA
1 ATTTA
137360 CTAGAATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTTAGTAGCATAATATATTTTAC
Found at i:141189 original size:18 final size:18
Alignment explanation
Indices: 141140--141181 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
141130 TTGGAAAGCC
141140 GCTTTGCAAACTACAGTT
1 GCTTTGCAAACTACAGTT
141158 GCTTTGCAAACTACAGTT
1 GCTTTGCAAACTACAGTT
141176 GCTTTG
1 GCTTTG
141182 TATACTACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (18 bp):
GCTTTGCAAACTACAGTT
Found at i:146199 original size:20 final size:20
Alignment explanation
Indices: 146161--146239 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
146151 CTTGCACGGG
*
146161 TTTGCACTTCGGTGCCTCTA
1 TTTGCACTTCGATGCCTCTA
* *
146181 TTTGTACTTCGATGGCTCTGA
1 TTTGCACTTCGATGCCTCT-A
* *
146202 -TTGCACTAC-AGTTCCTCTA
1 TTTGCACTTCGA-TGCCTCTA
*
146221 CTTGCACATTCG-TGCCTCT
1 TTTGCAC-TTCGATGCCTCT
146240 TTGATGCTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.04
20 40 0.89
21 3 0.07
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (20 bp):
TTTGCACTTCGATGCCTCTA
Found at i:153472 original size:5 final size:6
Alignment explanation
Indices: 153458--153490 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
153448 ATTTTAAATC
153458 TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
153491 CTTTCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:156577 original size:25 final size:26
Alignment explanation
Indices: 156527--156588 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
156517 CTTTCCAATG
*
156527 TGCAAGCTCAGCAAAAATGTGCAAGC
1 TGCAAGCTTAGCAAAAATGTGCAAGC
*
156553 TGCAAGCTTAGC-AAGATGT-CAAAGC
1 TGCAAGCTTAGCAAAAATGTGC-AAGC
*
156578 TGCAAGATTAG
1 TGCAAGCTTAG
156589 TGAGAAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.62
26 11 0.34
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (26 bp):
TGCAAGCTTAGCAAAAATGTGCAAGC
Found at i:157330 original size:25 final size:27
Alignment explanation
Indices: 157297--157368 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 27
157287 TAGCTCGCAC
* *
157297 TTCTCGCTAAGTTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGCTTTGTACA
*
157323 -TCTTGCTAAGCTTGTAGC-TTGTACA
1 TTCTTGCTAAGCTTGCAGCTTTGTACA
* *
157348 TTTTTGCTGAGCTTGCAGCTT
1 TTCTTGCTAAGCTTGCAGCTT
157369 GCACATTGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 3 0.08
25 18 0.49
26 15 0.41
27 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (27 bp):
TTCTTGCTAAGCTTGCAGCTTTGTACA
Found at i:157360 original size:26 final size:26
Alignment explanation
Indices: 157302--157375 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
157292 CGCACTTCTC
* *
157302 GCTAAGTTTGCAGCTTTG-ACA-TCTT
1 GCTAAGCTTGCAGC-TTGCACATTTTT
* *
157327 GCTAAGCTTGTAGCTTGTACATTTTT
1 GCTAAGCTTGCAGCTTGCACATTTTT
*
157353 GCTGAGCTTGCAGCTTGCACATT
1 GCTAAGCTTGCAGCTTGCACATT
157376 GGAAAGATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 3 0.07
25 15 0.37
26 23 0.56
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GCTAAGCTTGCAGCTTGCACATTTTT
Found at i:165881 original size:6 final size:6
Alignment explanation
Indices: 165870--165908 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
165860 GTTAGCGAAC
**
165870 AAATAT AAATAT AAATAT AAATAT TTATATT AAATAT AA
1 AAATAT AAATAT AAATAT AAATAT AAATA-T AAATAT AA
165909 GATCTAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AAATAT
Found at i:167067 original size:31 final size:32
Alignment explanation
Indices: 167032--167105 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
167022 AGCTATTTAC
**
167032 TTGGTCACCCAATTTTAT-GGGTGCTTTTA-TT
1 TTGGTCACCCAATTTT-TCGGACGCTTTTATTT
*
167063 TTGGTCACTCAATTTTTCGGACGCTTTTATTT
1 TTGGTCACCCAATTTTTCGGACGCTTTTATTT
167095 TTGGTCACCCA
1 TTGGTCACCCA
167106 GAATGAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 1 0.03
31 24 0.65
32 12 0.32
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (32 bp):
TTGGTCACCCAATTTTTCGGACGCTTTTATTT
Found at i:178428 original size:3 final size:3
Alignment explanation
Indices: 178422--178455 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
178412 TTTTTATATG
178422 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
178456 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:182188 original size:20 final size:20
Alignment explanation
Indices: 182160--182199 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
182150 TTCATCTCAT
182160 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
* *
182180 GCATTGCATTATATGCATTA
1 GCATCGCATCATATGCATTA
182200 AAGACCTTTA
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:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:190390 original size:92 final size:90
Alignment explanation
Indices: 190207--190513 Score: 447
Period size: 89 Copynumber: 3.4 Consensus size: 90
190197 CAGGTTGAAG
* * *
190207 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCA-AAGAAAGCAGGTCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAGAAGAAAGCAGATCTTATCTT
190271 CATGTACTGGCGTGAAGTAGATCAA
66 CATGTACTGGCGTGAAGTAGATCAA
* *
190296 AGATAGCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGGTCGAAGAAGAAAGCAGATCTTATC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC--AGAAGAAAGCAGATCTTATC
*
190361 TTCATGTACTGGCGTGAAGTAGATTAA
64 TTCATGTACTGGCGTGAAGTAGATCAA
* *
190388 AGATAACAGATCTTGTCTTCCCATACTAGTGGCGAAGCAGATC-GAAGAAAGCAGATCTTATCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAGAAGAAAGCAGATCTTATCTT
190452 CATGTACTGGCGTGAAGTAGATCAA
66 CATGTACTGGCGTGAAGTAGATCAA
* * * * * * *
190477 AGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAG
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
190514 TGGATCGAAC
Statistics
Matches: 197, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
89 115 0.58
91 1 0.01
92 81 0.41
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (90 bp):
AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAGAAGAAAGCAGATCTTATCTT
CATGTACTGGCGTGAAGTAGATCAA
Found at i:190563 original size:89 final size:89
Alignment explanation
Indices: 190465--190665 Score: 244
Period size: 89 Copynumber: 2.3 Consensus size: 89
190455 GTACTGGCGT
* * * * * *
190465 GAAGTAGATCAAAGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAA-CATA-C
1 GAAGCAGATCAAAGAAAGCAGATCATGTCTTCATATACTGGT-GCGAAGTAGATC-AAGCATACC
*
190528 AGATTTTGCCTTCCCATACTGGTGGC
64 AGATCTTGCCTTCCCATACTGGTGGC
* * * * *
190554 GAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAGGATACCAG
1 GAAGCAGATCAAAGAAAGCAGATCATGTCTTCATATACTGGTGCGAAGTAGATCAAGCATACCAG
190619 ATCTTGCCTTCCCATACTGGTGGC
66 ATCTTGCCTTCCCATACTGGTGGC
* *
190643 AAAGCAGATTAAAGAAAGCAGAT
1 GAAGCAGATCAAAGAAAGCAGAT
190666 TTCGTTTTCA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 2 0.02
88 13 0.14
89 80 0.84
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (89 bp):
GAAGCAGATCAAAGAAAGCAGATCATGTCTTCATATACTGGTGCGAAGTAGATCAAGCATACCAG
ATCTTGCCTTCCCATACTGGTGGC
Found at i:190636 original size:222 final size:222
Alignment explanation
Indices: 190247--190837 Score: 727
Period size: 222 Copynumber: 2.6 Consensus size: 222
190237 GGCGAAGCAA
* * * * * * * * * * *
190247 ATCAAAGAAAGCAGGTCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGCAGATCTTG
1 ATCAAAGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAACATA-CAGATTTTG
* *
190311 CCTTCCCATACTGGTGGCGAAGCAGGTCGAAGAAGAAAGCAGATCTTATCTTCATGTACTGGCGT
65 CCTTCCCATACTGGTGGCGAAGCAGATC---GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
* * * *
190376 GAAGTAGATTAAAGATAACAGATCTTGTCTTCCCATACTAGTGGCGAAGCAGATCGAAGAAAGCA
127 GAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTAGTGGCAAAGCAGATCAAAGAAAGCA
* **
190441 GATCTT-ATCTTCATGTACTGGCGTGAAGTAG
192 GAT-TTCATCTTCATGTACCGGCGTGAAACAG
190472 ATCAAAGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAACATACAGATTTTGC
1 ATCAAAGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAACATACAGATTTTGC
*
190537 CTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGTGTGAAG
66 CTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
* * * *
190602 TAGATCAAGGATACCAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATTAAAGAAAGCAGATT
131 TAGATCAAAGATAACAGATCTTGCCTTCCCATACTAGTGGCAAAGCAGATCAAAGAAAGCAGATT
* *
190667 TCGTTTTCATGTACCGGCGTGAAACAG
196 TCATCTTCATGTACCGGCGTGAAACAG
* * * * **
190694 ATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAATATACAGATTTTAT
1 ATCAAAGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAACATACAGATTTTGC
* * * * * * * *
190759 CTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAAACAGATCTTGCCTTCCTATACTGACAGAGA
66 CTTCCCATACTGGTGGCGAAGCAGATCGAAG-AAAGCAGATCTTGTCTTCATGTACTGGC-GTGA
*
190824 AGCAGATCAAAGAT
129 AGTAGATCAAAGAT
190838 GGTAGATTTT
Statistics
Matches: 318, Mismatches: 44, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
221 2 0.01
222 200 0.63
223 22 0.07
224 15 0.05
225 64 0.20
226 15 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (222 bp):
ATCAAAGATAGCAGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAACATACAGATTTTGC
CTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAG
TAGATCAAAGATAACAGATCTTGCCTTCCCATACTAGTGGCAAAGCAGATCAAAGAAAGCAGATT
TCATCTTCATGTACCGGCGTGAAACAG
Found at i:190678 original size:89 final size:89
Alignment explanation
Indices: 190527--190703 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 89
190517 ATCGAACATA
* * *
190527 CAGATTTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
* * ** *
190592 TGGTGTGAAGTAGATCAAGGATAC
66 CGGCGTGAAACAGATCAAAGATAC
* *
190616 CAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATTAAAGAAAGCAGAT-TTCGTTTTCATGTA
1 CAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGCAGATCTT-GTCTTCATGTA
190680 CCGGCGTGAAACAGATCAAAGATA
65 CCGGCGTGAAACAGATCAAAGATA
190704 GTAGGTCCTG
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 2 0.03
89 75 0.97
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
CAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
CGGCGTGAAACAGATCAAAGATAC
Found at i:190695 original size:133 final size:133
Alignment explanation
Indices: 190419--190701 Score: 289
Period size: 133 Copynumber: 2.1 Consensus size: 133
190409 CATACTAGTG
* *
190419 GCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGC
1 GCGAAACAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACC
* * * * * ** * * * * *
190484 AGGTCATGTCTTCCTATATTGGTAGCGAAGTGGATCGAACATACAGATTTTGCCTTCCCATACTG
66 AGATCATGCCTTCCCATACTGGTAGCAAAGCAGATCAAACAAACAGATTTCGCCTTCACATACCG
*
190549 GTG
131 GTC
* * * *
190552 GCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAGGATACC
1 GCGAAACAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACC
* * * * ** **
190617 AGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATTAAAGAAAGCAGATTTCGTTTTCATGTACC
66 AGATCATGCCTTCCCATACTGGTAGCAAAGCAGATCAAACAAA-CAGATTTCGCCTTCACATACC
190682 GG-C
130 GGTC
* *
190685 GTGAAACAGATCAAAGA
1 GCGAAACAGATCGAAGA
190702 TAGTAGGTCC
Statistics
Matches: 121, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
133 105 0.87
134 16 0.13
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (133 bp):
GCGAAACAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATACC
AGATCATGCCTTCCCATACTGGTAGCAAAGCAGATCAAACAAACAGATTTCGCCTTCACATACCG
GTC
Found at i:192113 original size:93 final size:94
Alignment explanation
Indices: 191954--192141 Score: 360
Period size: 93 Copynumber: 2.0 Consensus size: 94
191944 AAACGCCGTG
191954 CCACCGCCATCTCCGTCGTGATCGGAGTTTTGGTGAGAGGGCCGGTCGAGCGGCGGCGCAAGGAC
1 CCACCGCCATCTCCGTCGTGATCGGAGTTTTGGTGAGAGGGCCGGTCGAGCGGCGGCGCAAGGAC
192019 GCTAGGGTTCCAAACCCT-CAGAGCAAAC
66 GCTAGGGTTCCAAACCCTACAGAGCAAAC
192047 CCACCGCCATCTCCGTCGTGATCGGAGTTTTGGTGAGAGGGCCGGTCGAGCGGCGGCGCAAGGAC
1 CCACCGCCATCTCCGTCGTGATCGGAGTTTTGGTGAGAGGGCCGGTCGAGCGGCGGCGCAAGGAC
192112 GCTAGGGTTCCAAACCCTAGCAGAGCAAAC
66 GCTAGGGTTCCAAACCCTA-CAGAGCAAAC
192142 AAAAGGGGGG
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
93 83 0.89
95 10 0.11
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.16
Consensus pattern (94 bp):
CCACCGCCATCTCCGTCGTGATCGGAGTTTTGGTGAGAGGGCCGGTCGAGCGGCGGCGCAAGGAC
GCTAGGGTTCCAAACCCTACAGAGCAAAC
Found at i:192586 original size:3 final size:3
Alignment explanation
Indices: 192580--192619 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
192570 TTTTTATATG
192580 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
192620 AGGAATTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:195557 original size:63 final size:64
Alignment explanation
Indices: 195472--195593 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 64
195462 ATATATAACA
* * ** *
195472 TATAATTTATTAAGAAACTAAAAATTAAATTGTAAATATACATGTG-AAAATATTTAAATATAT
1 TATAATTTATCAAGAAACTAAAAATTAAACTACAAATATACATATGAAAAATATTTAAATATAT
* * * * *
195535 TATAATTTATCGAGGAATTAAAAATTAGACTACAAATATATATATGAAAAATATTTAAA
1 TATAATTTATCAAGAAACTAAAAATTAAACTACAAATATACATATGAAAAATATTTAAA
195594 ATTATCGATA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
63 36 0.75
64 12 0.25
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.36
Consensus pattern (64 bp):
TATAATTTATCAAGAAACTAAAAATTAAACTACAAATATACATATGAAAAATATTTAAATATAT
Found at i:198881 original size:43 final size:43
Alignment explanation
Indices: 198818--199173 Score: 457
Period size: 43 Copynumber: 8.3 Consensus size: 43
198808 TTTTTTCTAA
*
198818 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
198861 AAATGCCGCCAAAGACCAAGACCATTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
198904 AAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * **
198947 AAACACCGCTAAAGACCAAGATCATTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
198990 AAACGCCGCTAAAGACCAAGACCATTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
199032 AAACACCGCTAAAGACAAAGACCTTTGGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
**
199075 AAACGCCGCTAAAGACCATA-ACCTTTAGCGGCGCTTTTTGTCAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGC-TTTTCCCAC
* * * * * *
199119 AAACGCCGCTATAGATCAA-ACCTTTAGTGGCGCTTCTCGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
199161 AAACGCCGCTAAA
1 AAACGCCGCTAAA
199174 AACATAACCT
Statistics
Matches: 271, Mismatches: 39, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
42 53 0.20
43 195 0.72
44 23 0.08
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:199076 original size:171 final size:171
Alignment explanation
Indices: 198810--199177 Score: 499
Period size: 171 Copynumber: 2.2 Consensus size: 171
198800 GCGGCGTTTT
* **
198810 TTTTCTAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCCAAAG
1 TTTTCTAAAAACGCCGCTAAAGAACAAGACCATTAGCGGCGCTTTTCCCACAAACACCGCCAAAG
* * * *
198875 ACCAAGACCATTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGTGGCGC-T
66 ACAAAGACCATTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTT
*
198939 TTTCCCACAAACACCGCTAAAGACCAAGATCATTAGCGGCGC
131 TTTCCCACAAACACCGCTAAAGACCAA-ACCATTAGCGGCGC
* *
198981 TTTTCTAACAAACGCCGCTAAAGACCAAGACCATTAGCGGCGC-TTTCCCACAAACACCGCTAAA
1 TTTTCTAA-AAACGCCGCTAAAGAACAAGACCATTAGCGGCGCTTTTCCCACAAACACCGCCAAA
* *
199045 GACAAAGACCTTTGGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCT
65 GACAAAGACCATTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCT
** * * * * *
199110 TTTTGTCACAAACGCCGCTATAGATCAAACCTTTAGTGGCGC
130 TTTTCCCACAAACACCGCTAAAGACCAAACCATTAGCGGCGC
* *
199152 TTCTCGCAAAAACGCCGCTAAA-AACA
1 TTTTC-TAAAAACGCCGCTAAAGAACA
199178 TAACCTTTAA
Statistics
Matches: 172, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
170 3 0.02
171 112 0.65
172 57 0.33
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.20
Consensus pattern (171 bp):
TTTTCTAAAAACGCCGCTAAAGAACAAGACCATTAGCGGCGCTTTTCCCACAAACACCGCCAAAG
ACAAAGACCATTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTT
TTTCCCACAAACACCGCTAAAGACCAAACCATTAGCGGCGC
Found at i:204420 original size:17 final size:17
Alignment explanation
Indices: 204398--204448 Score: 74
Period size: 15 Copynumber: 3.2 Consensus size: 17
204388 CATAACCCAT
204398 AACCCCTAAATCCCCTA
1 AACCCCTAAATCCCCTA
204415 AACCCCTAAAT-CCCT-
1 AACCCCTAAATCCCCTA
204430 AACCCCT-AA-CCCCTA
1 AACCCCTAAATCCCCTA
204445 AACC
1 AACC
204449 TCAATCCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.19
15 11 0.34
16 4 0.12
17 11 0.34
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (17 bp):
AACCCCTAAATCCCCTA
Found at i:204422 original size:8 final size:8
Alignment explanation
Indices: 204398--204448 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
204388 CATAACCCAT
204398 AACCCCTA
1 AACCCCTA
204406 AATCCCCTA
1 AA-CCCCTA
204415 AACCCCTA
1 AACCCCTA
*
204423 AATCCCT-
1 AACCCCTA
204430 AACCCCT-
1 AACCCCTA
204437 AACCCCTA
1 AACCCCTA
204445 AACC
1 AACC
204449 TCAATCCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 13 0.33
8 18 0.46
9 8 0.21
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (8 bp):
AACCCCTA
Found at i:204438 original size:7 final size:7
Alignment explanation
Indices: 204372--204445 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 7
204362 ACACCTTAAA
204372 CCCTAGAC
1 CCCTA-AC
*
204380 CCTTAAC
1 CCCTAAC
*
204387 CCATAAC
1 CCCTAAC
*
204394 CCATAAC
1 CCCTAAC
204401 CCCTAAATC
1 CCCT-AA-C
204410 CCCTAAAC
1 CCCT-AAC
*
204418 CCCTAAAT
1 CCCT-AAC
204426 CCCTAAC
1 CCCTAAC
204433 CCCTAAC
1 CCCTAAC
204440 CCCTAA
1 CCCTAA
204446 ACCTCAATCC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
7 33 0.56
8 18 0.31
9 8 0.14
ACGTcount: A:0.34, C:0.47, G:0.01, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:204719 original size:33 final size:33
Alignment explanation
Indices: 204677--204748 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
204667 AATCTAAATT
** *
204677 CTAAACCCTAACCCGACCCTGAATCCCTAATCC
1 CTAAACCCTAACCCGACCCAAAATCCCTAACCC
**
204710 CTAAACCCTAACTTGACCCAAAATCCCTAACCC
1 CTAAACCCTAACCCGACCCAAAATCCCTAACCC
204743 CTAAAC
1 CTAAAC
204749 ATTATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.43, G:0.04, T:0.18
Consensus pattern (33 bp):
CTAAACCCTAACCCGACCCAAAATCCCTAACCC
Found at i:204832 original size:15 final size:16
Alignment explanation
Indices: 204807--204838 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
204797 CCTAACCTCT
204807 AACCTCTAAATCCATA
1 AACCTCTAAATCCATA
204823 AACC-CTAAATCCATA
1 AACCTCTAAATCCATA
204838 A
1 A
204839 CTATCTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
AACCTCTAAATCCATA
Found at i:204857 original size:115 final size:114
Alignment explanation
Indices: 204610--204840 Score: 284
Period size: 115 Copynumber: 2.0 Consensus size: 114
204600 TTAATCCCAA
* *
204610 ACCCCTAACCACTAACCCCTAAACCTTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAA
1 ACCCATAACC-CTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAA
* * * * * *
204675 TTCTAAACCCTAACCCGACCCTGAATCCCTAATCCCTAAACCCTAACTTG
65 TCCTAAACCCTAACCCAACCCTAAATCCATAAACCCTAAACCATAACTTG
* * * *
204725 ACCCAAAATCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACATTAATTAATCTAAA
1 ACCCATAA-CCCTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAA
*
204790 -CCTAACCCCTAACCTCTAACCTCTAAATCCATAAACCCTAAATCCATAACT
65 TCCTAAACCCTAACC-C-AACC-CTAAATCCATAAACCCTAAA-CCATAACT
204841 ATCTTAACCT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
114 12 0.12
115 57 0.58
116 5 0.05
117 17 0.17
118 7 0.07
ACGTcount: A:0.42, C:0.30, G:0.01, T:0.26
Consensus pattern (114 bp):
ACCCATAACCCTAACCCCTAAACATTATTTAATAAATAAATTAAAAAACACTAATTAATCTAAAT
CCTAAACCCTAACCCAACCCTAAATCCATAAACCCTAAACCATAACTTG
Found at i:205659 original size:40 final size:39
Alignment explanation
Indices: 205565--205699 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
205555 TGGGCTTAGG
* *
205565 TTTTTTGCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTCA-AAAAGCGCCGCTAATGCTCGA
*
205604 TTTTTAGTGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTT-CAAAAAGCGCCGCTAATGCTCGA
* ** *
205644 TCTTTAGCGGCGTTTTTTTAAAAGCGCCACTAATGCTCGA
1 TTTTTAGCGGCG-TTTTCAAAAAGCGCCGCTAATGCTCGA
* *
205684 TTTTTCGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
205700 TTGTCCAAAC
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 8 0.10
39 29 0.36
40 40 0.49
41 4 0.05
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCAAAAAGCGCCGCTAATGCTCGA
Found at i:205700 original size:40 final size:40
Alignment explanation
Indices: 205585--205701 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 40
205575 CGCTTTTCAG
* **
205585 AAAA-CGCCGCTAATGCT-TATTTTTAGTGGCGTTTTCCA
1 AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTTA
* * *
205623 AAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTTT
1 AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTTA
* *
205663 AAAAGCGCCACTAATGCTCGATTTTTCGTGGCGTTTTTT
1 AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTT
205702 GTCCAAACGC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
38 4 0.06
39 13 0.19
40 50 0.75
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTTA
Found at i:207299 original size:26 final size:28
Alignment explanation
Indices: 207235--207300 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 28
207225 AATACCCACC
207235 TCCATTC-CTCATTTTAATCATCTCTCAT
1 TCCATTCTCTCA-TTTAATCATCTCTCAT
* *
207263 T-CATCCT-TCATTTAA-CATTTCTC-T
1 TCCATTCTCTCATTTAATCATCTCTCAT
207287 TCCATTCTCTCATT
1 TCCATTCTCTCATT
207301 CCCTCTCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 2 0.06
25 12 0.38
26 10 0.31
27 7 0.22
28 1 0.03
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (28 bp):
TCCATTCTCTCATTTAATCATCTCTCAT
Found at i:212680 original size:988 final size:951
Alignment explanation
Indices: 210593--212595 Score: 2870
Period size: 988 Copynumber: 2.0 Consensus size: 951
210583 GAGTTTGGTG
* * * * * *
210593 AGATTACCCAACGTTGGTGGCACTGACCCTGTGAAGTAGCATTTAGGTACAACCTTCAACTTCAA
1 AGATTACCCAACGTAGATGGCACTGACCCTGAGAAGTAGCAGTGAAGTACAA-----AA-TTCAA
* * * **
210658 CCATATACTCCATTCAAATAAATCAATAATATGGCACAAAGATAAAGCTAGCCTTTGATGCTAAT
60 CAATATACTCCATTCAAATAAAGCAAT-A-AT-GCACAAAGATAAAGCTAGCATTCAATGCTAAT
*
210723 TCATATTTTCACCTTAGTCATAATTTTCTTTTATCATTTTAATAAATTTTAAGATTTAAATATTT
122 TCATATTTTCACCTTAGTCATAAGTTTCTTTTATCATTTTAATAAATTTTAAGATTTAAATATTT
210788 TTTTTTTGTTAAAAAATTAACTCAAGTATTCTTCACTATTAACATAGAAACTTTTTCTAAAAATT
187 TTTTTTTGTTAAAAAATTAACTCAAGTATTCTTCACTATTAACATAGAAACTTTTTCTAAAAATT
* * *
210853 TTGTGAGTTGTTTAATTGTTGAAACCTAAAAATACTTATTATTATTTTTAAATTTTCTAAAATAA
252 TTGTGAGCTGTTAAATTGTTAAAACCTAAAAATACTTATTATTATTTTTAAATTTTCTAAAATAA
* *
210918 AAATGAGTTGTCACGTGAGTGATCGCATCAATATCATTAAAAATCAATTCGATTACTTTTAAAAT
317 AAATGAATTGTCACGTGAGTGATCGCATCAATATCATTAAAAATCAATTCGATTAATTTTAAAAT
210983 TTTAGGGCCAAACTAAAGAAATAATTAAAATTATCATTAAGCCTAGGGGTGTAATCGAGCCAAGC
382 TTTAGGGCCAAACTAAAGAAATAATTAAAATTATCATTAAGCCTAGGGGTGTAATCGAGCCAAGC
*
211048 TAAGCTCGAGCTCGAATTGAAATTCAGAGCTCGATACTCAGCACAAACTCGATCGAACATCTATT
447 TAAGCTCGAGCTCGAATTGAAATTCAGAGCTCGAAACTCAGCACAAACTCGATCGAACATCTATT
* *
211113 TTTAAGCTCGAGCTCAGCTCAAGATATAATCAAGCTACTCGAGCTCAAGTTCAATTAAGCTCGTT
512 TTTAAGCTCGAGCTCAGCTCAAGATATAATCAAGCTACTCGAGCTCAAATTCAATTAAGCTCGCT
*
211178 TACTAATTTTTGTACTCAAGCTCGAACTTAAACTTGAGCTCGAGCTTAACTCAATGATTAAGCTT
577 TACTAATTTTTGTACTCAAGCTCAAACTTAAACTTGAGCTCGAGCTTAACTCAATGATTAAGCTT
*
211243 AAGGTTAATAATATATATTAAGGGCAATAAAGTAATTGAATAATATAAAAATATAAAAAAACTCG
642 AAAGTTAATAATATATATTAAGGGCAATAAAGTAATTGAATAATATAAAAATAT-AAAAAACTC-
* * **
211308 ATAAAGCTCATAAGCTATTCTAATAAAGTGTTACTAAGTTTGAATTCGGCTCAATTGATAGCTAG
705 ATAAAGCTCATAAGCTATTCTAATAAAGTATTACTAAATTTGAATTCGGCTCAATCAATAGCTAG
211373 AACTATTCGAGCTCGATCTTGAGCTCAATAATTATTTAATCAAGTTCAAATCTTTTTTCAATTAA
770 AACTATTCGAGCTCGATCTTGAGCTCAATAATTATTTAATCAAGTTCAAATCTTTTTTCAATTAA
* * *
211438 ATTTGAGTAGCTTGTGAATGCCGGTGTCTCCTTACCTGTTGTTGTGCTTAAATAAATAGAGTAGG
835 ATTTGAGTAGCTTGTGAA--------------TACCTGTAGTTGTGCCTAAATAAAAAGAGTAGG
*
211503 AATTATTTGGAAGGCAACTCACCCGTAAAATAATTGGTTGCTAGATCCAGAAATTTGAGATTGGG
886 AATTATTTGGAAGGCAACTCACCCGTAAAAGAATTGGTTGCTAGATCCAGAAATTTGAGATTGGG
211568 A
951 A
* * * * * ** *
211569 AGATTACCCAACGTTGGTGGCACTGACCCTGTGAAGTAGCATTTAAGTACAACCTTCAACCATAT
1 AGATTACCCAACGTAGATGGCACTGACCCTGAGAAGTAGCAGTGAAGTACAAAATTCAACAATAT
* * **
211634 ACTCCATTCAAATAAATCAATAATAGGCACAAAGATAAAGCTAGCCTTTGATGCTAATTCATATT
66 ACTCCATTCAAATAAAGCAATAAT--GCACAAAGATAAAGCTAGCATTCAATGCTAATTCATATT
211699 TTCACCTTAGTCATAAGTTTCTTTTATCATTTTAATAAATTTTAAGATTTAAATAAATTAATTTT
129 TTCACCTTAGTCATAAGTTTCTTTTATCATTTTAATAAATTTTAAGATTTAAAT--A-T--TTTT
211764 TTTTTGTTAAAAAATTAACTCAACTGTTAAGATCTATGTATTCTTCACTATTAACATAGAAACTT
189 TTTTTGTTAAAAAATTAACT---C-------A---A-GTATTCTTCACTATTAACATAGAAACTT
211829 TTTCTAAAAATTTTGTGAGCTGTTAAATTGTTAAAACCTAAAAATACTTATTATT-TTTTTAAAA
240 TTTCTAAAAATTTTGTGAGCTGTTAAATTGTTAAAACCTAAAAATACTTATTATTATTTTT-AAA
* *
211893 TTTTCTAAAATATATATGAATTGTCACGTGAGTGATCGCATCAATATCATTAAAAATCAATTCGA
304 TTTTCTAAAATAAAAATGAATTGTCACGTGAGTGATCGCATCAATATCATTAAAAATCAATTCGA
*
211958 TTAATTTTAAAATTTTGGGGCCAAACTAAAGAAATAATTAAAATTATCATTAAGCCTAGGGGTGT
369 TTAATTTTAAAATTTTAGGGCCAAACTAAAGAAATAATTAAAATTATCATTAAGCCTAGGGGTGT
212023 AATCGAGCCAAGCTAAGCTCGAATACTATCGAGCTCGAGCCCGAATTGAAATTCAGAGCTCGAAA
434 AATCGAGCCAAGCTAA----G----C--TCGAGCT------CGAATTGAAATTCAGAGCTCGAAA
** * *
212088 CTTTGCACAAACTTGATCGAACATCTATTTTTAAGCTCGAGCTTAGCTCAAGATATAATCAAGCT
483 CTCAGCACAAACTCGATCGAACATCTATTTTTAAGCTCGAGCTCAGCTCAAGATATAATCAAGCT
212153 ACTCGAGCTCAAATTCAATTAAGCTCGCTTACTAATTTTTGTACTCAAGCTCAAACTTAAACTTG
548 ACTCGAGCTCAAATTCAATTAAGCTCGCTTACTAATTTTTGTACTCAAGCTCAAACTTAAACTTG
*
212218 AGCTCGAGCTTAACTCGATGATTAAGCTTAAAGTTAATAATATATA-T-AGGGCAATAAAGTAAT
613 AGCTCGAGCTTAACTCAATGATTAAGCTTAAAGTTAATAATATATATTAAGGGCAATAAAGTAAT
* *
212281 TTAATAATATAAAAATAT-AAAAA-T-ATAAAGACTCATAAGCTATTCTAATCAAGTATTACTAA
678 TGAATAATATAAAAATATAAAAAACTCATAAAG-CTCATAAGCTATTCTAATAAAGTATTACTAA
*
212343 ATTTGAATTCGGCTCAATCAATAGTTAGAACTATTCGAGCTCGATCTTGAGCTCAATAATTATTT
742 ATTTGAATTCGGCTCAATCAATAGCTAGAACTATTCGAGCTCGATCTTGAGCTCAATAATTATTT
*
212408 AATCAAGTTCAAATCTTTTTTCGATTAAATTTGAGTAGCTTGTGAA-ACC-GTAGTTGTGCCTAA
807 AATCAAGTTCAAATCTTTTTTCAATTAAATTTGAGTAGCTTGTGAATACCTGTAGTTGTGCCTAA
*
212471 ATAAAAAGAGTAGGAATTATTTGGAAGGCAACTCACCCGTAAAAGAATTGGTTGTTAGATCCAGA
872 ATAAAAAGAGTAGGAATTATTTGGAAGGCAACTCACCCGTAAAAGAATTGGTTGCTAGATCCAGA
212536 AATTTGAGATTGGGA
937 AATTTGAGATTGGGA
*
212551 AGATTACCCAACGTAGATGGCACTGACCCTGAGAAGTTGCAGTGA
1 AGATTACCCAACGTAGATGGCACTGACCCTGAGAAGTAGCAGTGA
212596 CCGAGTCCCA
Statistics
Matches: 948, Mismatches: 41, Indels: 70
0.90 0.04 0.07
Matches are distributed among these distances:
968 2 0.00
969 94 0.10
970 32 0.03
971 1 0.00
972 1 0.00
974 24 0.03
976 51 0.05
977 1 0.00
982 128 0.14
983 3 0.00
984 1 0.00
987 6 0.01
988 224 0.24
992 1 0.00
996 1 0.00
997 6 0.01
998 142 0.15
999 1 0.00
1000 5 0.01
1002 33 0.03
1003 1 0.00
1004 190 0.20
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (951 bp):
AGATTACCCAACGTAGATGGCACTGACCCTGAGAAGTAGCAGTGAAGTACAAAATTCAACAATAT
ACTCCATTCAAATAAAGCAATAATGCACAAAGATAAAGCTAGCATTCAATGCTAATTCATATTTT
CACCTTAGTCATAAGTTTCTTTTATCATTTTAATAAATTTTAAGATTTAAATATTTTTTTTTTGT
TAAAAAATTAACTCAAGTATTCTTCACTATTAACATAGAAACTTTTTCTAAAAATTTTGTGAGCT
GTTAAATTGTTAAAACCTAAAAATACTTATTATTATTTTTAAATTTTCTAAAATAAAAATGAATT
GTCACGTGAGTGATCGCATCAATATCATTAAAAATCAATTCGATTAATTTTAAAATTTTAGGGCC
AAACTAAAGAAATAATTAAAATTATCATTAAGCCTAGGGGTGTAATCGAGCCAAGCTAAGCTCGA
GCTCGAATTGAAATTCAGAGCTCGAAACTCAGCACAAACTCGATCGAACATCTATTTTTAAGCTC
GAGCTCAGCTCAAGATATAATCAAGCTACTCGAGCTCAAATTCAATTAAGCTCGCTTACTAATTT
TTGTACTCAAGCTCAAACTTAAACTTGAGCTCGAGCTTAACTCAATGATTAAGCTTAAAGTTAAT
AATATATATTAAGGGCAATAAAGTAATTGAATAATATAAAAATATAAAAAACTCATAAAGCTCAT
AAGCTATTCTAATAAAGTATTACTAAATTTGAATTCGGCTCAATCAATAGCTAGAACTATTCGAG
CTCGATCTTGAGCTCAATAATTATTTAATCAAGTTCAAATCTTTTTTCAATTAAATTTGAGTAGC
TTGTGAATACCTGTAGTTGTGCCTAAATAAAAAGAGTAGGAATTATTTGGAAGGCAACTCACCCG
TAAAAGAATTGGTTGCTAGATCCAGAAATTTGAGATTGGGA
Found at i:223919 original size:43 final size:43
Alignment explanation
Indices: 223845--223945 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
223835 GATTTTTCTC
223845 TAAGCTAACTCAAAG--TACAGAACCTAATGAATGAATGCTTT
1 TAAGCTAACTCAAAGTATACAGAACCTAATGAATGAATGCTTT
223886 TAAGCTAACTCAAAGTATACAGAACCTAATGAATGAATGCTTT
1 TAAGCTAACTCAAAGTATACAGAACCTAATGAATGAATGCTTT
223929 TAAGCTAACTCAAAGTA
1 TAAGCTAACTCAAAGTA
223946 CAATTACGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
41 15 0.26
43 43 0.74
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (43 bp):
TAAGCTAACTCAAAGTATACAGAACCTAATGAATGAATGCTTT
Found at i:225798 original size:30 final size:30
Alignment explanation
Indices: 225762--225819 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
225752 GTTTTAAACA
*
225762 AAAAAAAAACTTGCAACTTCAGGTGCATCT
1 AAAAAAAAACATGCAACTTCAGGTGCATCT
225792 AAAAAAAAACATGCAACTTCAGGTGCAT
1 AAAAAAAAACATGCAACTTCAGGTGCAT
225820 ATAACCACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (30 bp):
AAAAAAAAACATGCAACTTCAGGTGCATCT
Found at i:227120 original size:25 final size:23
Alignment explanation
Indices: 227083--227128 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
227073 TTTTACTGAT
227083 ATTTTTATGTATACAATTATGTAAA
1 ATTTTTATGTATA-AATT-TGTAAA
227108 ATTTTTACT-TATAAATTTGTA
1 ATTTTTA-TGTATAAATTTGTA
227129 TATATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 11 0.55
26 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTTTTATGTATAAATTTGTAAA
Found at i:228261 original size:31 final size:30
Alignment explanation
Indices: 228224--228293 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
228214 AAAACACTAG
228224 TATCTTTAAA-AATACAAACAAAAATTTCTTA
1 TATCTTTAAACAATAC--ACAAAAATTTCTTA
* * *
228255 TATCTTTCAAACCATTCACAAAATTTTCTTA
1 TATCTTT-AAACAATACACAAAAATTTCTTA
228286 TATCTTTA
1 TATCTTTA
228294 GAACCATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 1 0.03
31 27 0.79
32 3 0.09
33 3 0.09
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (30 bp):
TATCTTTAAACAATACACAAAAATTTCTTA
Found at i:228299 original size:31 final size:31
Alignment explanation
Indices: 228241--228301 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
228231 AAAAATACAA
228241 ACAAAAATTTCTTATATCTTTCAAACCATTC
1 ACAAAAATTTCTTATATCTTTCAAACCATTC
*
228272 ACAAAATTTTCTTATATCTTT-AGAACCATT
1 ACAAAAATTTCTTATATCTTTCA-AACCATT
228302 GATGACAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (31 bp):
ACAAAAATTTCTTATATCTTTCAAACCATTC
Found at i:234109 original size:46 final size:46
Alignment explanation
Indices: 234040--234131 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
234030 ATGGCAAATC
* *
234040 GTGAAAAGTAGGTATGGTGTTTCATTGAAGAAAACCATACTGAGTT
1 GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
234086 GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
1 GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
234132 ATAGCAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
Found at i:238984 original size:15 final size:16
Alignment explanation
Indices: 238951--238984 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
238941 GAGTTAGTAT
*
238951 AAAAGTTTTGTTAGAA
1 AAAAGTTTCGTTAGAA
238967 AAAAGTTTCGTTAGAA
1 AAAAGTTTCGTTAGAA
238983 AA
1 AA
238985 TTTTAACGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (16 bp):
AAAAGTTTCGTTAGAA
Found at i:240164 original size:46 final size:46
Alignment explanation
Indices: 240095--240186 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
240085 ATGGCAAATC
* *
240095 GTGAAAAGTAGGTATGGTGTTTCATTGAAGAAAACCATACTGAGTT
1 GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
240141 GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
1 GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
240187 ATAGCAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
GTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGAGTT
Found at i:245948 original size:40 final size:40
Alignment explanation
Indices: 245898--245977 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
245888 TTGGCTTGCA
245898 TGGCATGTAGACAACGCCTTTGTGGTATAATATATGCTTG
1 TGGCATGTAGACAACGCCTTTGTGGTATAATATATGCTTG
245938 TGGCATGTAGACAACGCCTTTGTGGTATAATATATGCTTG
1 TGGCATGTAGACAACGCCTTTGTGGTATAATATATGCTTG
245978 CACTCATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (40 bp):
TGGCATGTAGACAACGCCTTTGTGGTATAATATATGCTTG
Found at i:248429 original size:17 final size:17
Alignment explanation
Indices: 248409--248474 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
248399 ATATTTTATA
248409 ATTTTAA-ATATTTTAAT
1 ATTTTAATA-ATTTTAAT
*
248426 ATTTTTATAATTTTAAT
1 ATTTTAATAATTTTAAT
*
248443 GATTTTTTATAAATTTTAAT
1 -A-TTTTAAT-AATTTTAAT
*
248463 -TTTTTATAATTT
1 ATTTTAATAATTT
248475 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 5 0.11
17 21 0.48
18 2 0.05
19 7 0.16
20 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTTTAATAATTTTAAT
Found at i:248457 original size:20 final size:17
Alignment explanation
Indices: 248418--248474 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 17
248408 AATTTTAAAT
248418 ATTTTAATATTTTTATA
1 ATTTTAATATTTTTATA
248435 ATTTTAATGATTTTTTATAA
1 ATTTTAAT-A-TTTTTAT-A
248455 ATTTTAAT-TTTTTATA
1 ATTTTAATATTTTTATA
248471 ATTT
1 ATTT
248475 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.14
17 15 0.41
18 1 0.03
19 7 0.19
20 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTAATATTTTTATA
Found at i:252578 original size:44 final size:43
Alignment explanation
Indices: 252468--252583 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
252458 TACAATGCGT
*
252468 ACGTCCCAAACGAGGTCTTACATGT-AAT-CAAATATCGATGCC
1 ACGTCCCAAACG-GGTCTTACACGTAAATCCAAATATCGATGCC
* * * *
252510 ACTGTCCCAGACAGGGCCTCACACGTAAATCCCAAT-TCGATGCC
1 AC-GTCCCAAAC-GGGTCTTACACGTAAATCCAAATATCGATGCC
252554 GACGTCCCAAACGTGGTCTTACACG-AAATC
1 -ACGTCCCAAACG-GGTCTTACACGTAAATC
252584 ACATATCAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.03
43 23 0.38
44 29 0.48
45 6 0.10
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (43 bp):
ACGTCCCAAACGGGTCTTACACGTAAATCCAAATATCGATGCC
Found at i:254642 original size:25 final size:21
Alignment explanation
Indices: 254614--254663 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 21
254604 ATAAGTTGCT
254614 TATATATAAAATTTGAATAAATGAA
1 TATATAT-AAATTT-AA-AAAT-AA
254639 TATATATAAATTTAAAAATAA
1 TATATATAAATTTAAAAATAA
254660 TATA
1 TATA
254664 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 4 0.16
23 2 0.08
24 6 0.24
25 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
TATATATAAATTTAAAAATAA
Found at i:256280 original size:38 final size:39
Alignment explanation
Indices: 256229--256306 Score: 149
Period size: 38 Copynumber: 2.0 Consensus size: 39
256219 AATTTAAAAG
256229 TTATTATATGCTTCAAGTTTCTATATTTC-TTATATATT
1 TTATTATATGCTTCAAGTTTCTATATTTCTTTATATATT
256267 TTATTATATGCTTCAAGTTTCTATATTTCTTTATATATT
1 TTATTATATGCTTCAAGTTTCTATATTTCTTTATATATT
256306 T
1 T
256307 GGAATTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 29 0.74
39 10 0.26
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (39 bp):
TTATTATATGCTTCAAGTTTCTATATTTCTTTATATATT
Found at i:256883 original size:14 final size:13
Alignment explanation
Indices: 256856--256905 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 13
256846 AATAAATAAA
*
256856 AATATATAATTATT
1 AATAT-TAAATATT
256870 AAATATTAAATATT
1 -AATATTAAATATT
256884 AA-ATTAAA-ATT
1 AATATTAAATATT
256895 AATA-TAAATAT
1 AATATTAAATAT
256906 ATTTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.28
12 9 0.28
13 2 0.06
14 7 0.22
15 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AATATTAAATATT
Found at i:258884 original size:23 final size:23
Alignment explanation
Indices: 258858--258932 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
258848 ATAAGTGCAA
*
258858 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
258881 CACTGAAATGTAGCCGAAGCTAA
1 CACTGAAATGTAGCCGAAGCTAC
*
258904 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
258927 CACTGA
1 CACTGA
258933 TCAATAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:259033 original size:8 final size:8
Alignment explanation
Indices: 259020--259048 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
259010 ACCCGGGACT
259020 CACTGTAA
1 CACTGTAA
259028 CACTGTAA
1 CACTGTAA
259036 CACTGTAA
1 CACTGTAA
259044 CACTG
1 CACTG
259049 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:260144 original size:50 final size:50
Alignment explanation
Indices: 260075--260178 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
260065 CGGCTATGTG
* * *
260075 ATGGATTGTGTATGACACACAATATGGGCTATTTGGGTCGTGTAGGCTAC
1 ATGGACTGTGTATCACACACAATATGGGCCATTTGGGTCGTGTAGGCTAC
*
260125 ATGGACTGTGTGTCACACACAATATGGGCCATTTGGGTCGTGTAGGCTAC
1 ATGGACTGTGTATCACACACAATATGGGCCATTTGGGTCGTGTAGGCTAC
260175 ATGG
1 ATGG
260179 GTGTGTGAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (50 bp):
ATGGACTGTGTATCACACACAATATGGGCCATTTGGGTCGTGTAGGCTAC
Found at i:262572 original size:101 final size:101
Alignment explanation
Indices: 262426--262622 Score: 286
Period size: 101 Copynumber: 2.0 Consensus size: 101
262416 ACGTTAGGCA
*
262426 CTCTCAATGCAAAAATAGGTACCGTGAGAAGGGTAAGAGTAAGAGGGATTTTGAGCCATCTAATT
1 CTCTCAATGCAAAAATAGGTACCGTGAGAAGGGTAAGAGTAAGAGGGATTTAGAGCCATCTAATT
* * *
262491 CTATTTAAAGGCCTAAGAAACTAGCCAGGTTAAGCG
66 CTATTCAAAGGACTAAGAAACAAGCCAGGTTAAGCG
* * * * *
262527 CTCTCAATGCGAAAATAGGTACCGTGAGAGGGGTAAGAGTAAGAGGGGTTTAGAGCCCTCTAGTT
1 CTCTCAATGCAAAAATAGGTACCGTGAGAAGGGTAAGAGTAAGAGGGATTTAGAGCCATCTAATT
* * *
262592 TTGTTCAGAGGACTAAGAAACAAGCCAGGTT
66 CTATTCAAAGGACTAAGAAACAAGCCAGGTT
262623 TGATAGGCCT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (101 bp):
CTCTCAATGCAAAAATAGGTACCGTGAGAAGGGTAAGAGTAAGAGGGATTTAGAGCCATCTAATT
CTATTCAAAGGACTAAGAAACAAGCCAGGTTAAGCG
Found at i:269352 original size:19 final size:19
Alignment explanation
Indices: 269331--269390 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
269321 TTTAAAAACT
269331 TTTTATAAA-TATTTTGAA
1 TTTTATAAATTATTTTGAA
* *
269349 TTTTAAAAATTATTTTTAA
1 TTTTATAAATTATTTTGAA
* *
269368 TCTTATAAATTAATTTGAA
1 TTTTATAAATTATTTTGAA
269387 TTTT
1 TTTT
269391 TTCTTTTTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 8 0.24
19 26 0.76
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTATAAATTATTTTGAA
Found at i:269491 original size:9 final size:9
Alignment explanation
Indices: 269477--269514 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
269467 CACCAATCTG
269477 TTATTCGAA
1 TTATTCGAA
269486 TTATTCGAA
1 TTATTCGAA
*
269495 TTA-TCTAA
1 TTATTCGAA
269503 GTTATTCGAA
1 -TTATTCGAA
269513 TT
1 TT
269515 GTGAAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:271866 original size:9 final size:9
Alignment explanation
Indices: 271852--271889 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
271842 CACCAATCTG
271852 TTATTCGAA
1 TTATTCGAA
271861 TTATTCGAA
1 TTATTCGAA
*
271870 TTA-TCTAA
1 TTATTCGAA
271878 GTTATTCGAA
1 -TTATTCGAA
271888 TT
1 TT
271890 GTGAAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:277910 original size:40 final size:39
Alignment explanation
Indices: 277862--277990 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 39
277852 CTGCTATTGC
* * *
277862 TTTATTTTTAGCGGCATTTATGAAAAACGCTATTATTAT
1 TTTATTTTTTGTGGCATTTATGAAAAACGCCATTATTAT
* *
277901 TTTATTTTTTGTGGCGTTTATGGAAAAACGCCATTACTT-C
1 TTTATTTTTTGTGGCATTTAT-GAAAAACGCCATTA-TTAT
* * * *
277941 TTTATCTTTTGTTGCCTTTATGCAAAAACGCCATTAATAT
1 TTTATTTTTTGTGGCATTTATG-AAAAACGCCATTATTAT
*
277981 TTTAATTTTT
1 TTTATTTTTT
277991 ACAGCGTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
39 20 0.27
40 52 0.70
41 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.48
Consensus pattern (39 bp):
TTTATTTTTTGTGGCATTTATGAAAAACGCCATTATTAT
Found at i:280006 original size:188 final size:189
Alignment explanation
Indices: 279689--280065 Score: 747
Period size: 188 Copynumber: 2.0 Consensus size: 189
279679 AATTAAACCT
279689 TCAATTTTGAAAATTGCATCAATTAAGTTTTTTTTTTTTTATCAATAAAAACAGTCATTGATTGA
1 TCAATTTTGAAAATTGCATCAATTAAGTTTTTTTTTTTTTATCAATAAAAACAGTCATTGATTGA
279754 TATTACGCTAACGTGATAGTTAATATTAATGAGCTAGCATTGTGATCCAAGTTAGAAACAAAATT
66 TATTACGCTAACGTGATAGTTAATATTAATGAGCTAGCATTGTGATCCAAGTTAGAAACAAAATT
279819 CAAATTACTACAATATTATAAAGTTTTAAAAAACTATTAAAAACTTTT-AAATATTAAA
131 CAAATTACTACAATATTATAAAGTTTTAAAAAACTATTAAAAACTTTTAAAATATTAAA
279877 TCAATTTTGAAAATTGCATCAATTAAGTTTTTTTTTTTTTATCAATAAAAACAGTCATTGATTGA
1 TCAATTTTGAAAATTGCATCAATTAAGTTTTTTTTTTTTTATCAATAAAAACAGTCATTGATTGA
279942 TATTACGCTAACGTGATAGTTAATATTAATGAGCTAGCATTGTGATCCAAGTTAGAAACAAAATT
66 TATTACGCTAACGTGATAGTTAATATTAATGAGCTAGCATTGTGATCCAAGTTAGAAACAAAATT
280007 CAAATTACTACAATATTATAAAGTTTTAAAAAACTATTAAAAACTTTTAAAATATTAAA
131 CAAATTACTACAATATTATAAAGTTTTAAAAAACTATTAAAAACTTTTAAAATATTAAA
280066 AGTTTAAAAA
Statistics
Matches: 188, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
188 178 0.95
189 10 0.05
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (189 bp):
TCAATTTTGAAAATTGCATCAATTAAGTTTTTTTTTTTTTATCAATAAAAACAGTCATTGATTGA
TATTACGCTAACGTGATAGTTAATATTAATGAGCTAGCATTGTGATCCAAGTTAGAAACAAAATT
CAAATTACTACAATATTATAAAGTTTTAAAAAACTATTAAAAACTTTTAAAATATTAAA
Found at i:280103 original size:27 final size:28
Alignment explanation
Indices: 280073--280130 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
280063 AAAAGTTTAA
280073 AAATTAT-A-AAAAAGTAAAAATATTACT
1 AAATTATAATAAAAAGTAAAAATATTA-T
* *
280100 AAATTATAATAAAAATTCAAAATATTAT
1 AAATTATAATAAAAAGTAAAAATATTAT
280128 AAA
1 AAA
280131 AACTTACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 5 0.19
29 15 0.56
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (28 bp):
AAATTATAATAAAAAGTAAAAATATTAT
Found at i:281463 original size:17 final size:17
Alignment explanation
Indices: 281419--281465 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
281409 GGGTTACTAT
281419 TTTTTAATTTTTTGAAA
1 TTTTTAATTTTTTGAAA
*
281436 TTCTTATATTTTTT-AAA
1 TTTTTA-ATTTTTTGAAA
281453 CTTTTTAATTTTT
1 -TTTTTAATTTTT
281466 ATAATTTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTAATTTTTTGAAA
Found at i:281541 original size:19 final size:20
Alignment explanation
Indices: 281517--281558 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
281507 TAATATTTTT
281517 ATTTTTAT-TACTTTTGAAA
1 ATTTTTATCTACTTTTGAAA
**
281536 ATTTTTATCTTTTTTTGAAA
1 ATTTTTATCTACTTTTGAAA
281556 ATT
1 ATT
281559 ACTATAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTTTTATCTACTTTTGAAA
Found at i:296326 original size:25 final size:24
Alignment explanation
Indices: 296285--296378 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 24
296275 AGCCATAATT
*
296285 GGTAAGCTTTTCTGAGCTGAAATAC
1 GGTAAGCTTTAC-GAGCTGAAATAC
296310 GGTAAGCTTATACGAGCTGAGAAT-C
1 GGTAAGCTT-TACGAGCTGA-AATAC
* * *
296335 AGTAAGCTCTCACGGGCTGTAAATA-
1 GGTAAGCT-TTACGAGCTG-AAATAC
*
296360 GGTAAGCTCATACGAGCTG
1 GGTAAGCT-TTACGAGCTG
296379 TGGCGAGTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
25 49 0.88
26 7 0.12
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (24 bp):
GGTAAGCTTTACGAGCTGAAATAC
Found at i:296379 original size:25 final size:24
Alignment explanation
Indices: 296298--296378 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 24
296288 AAGCTTTTCT
*
296298 GAGCTGAAATACGGTAAGCTTATAC
1 GAGCTGAAATA-GGTAAGCTCATAC
296323 GAGCTGAGAATCA-GTAAGCTC-TCAC
1 GAGCTGA-AAT-AGGTAAGCTCAT-AC
*
296348 GGGCTGTAAATAGGTAAGCTCATAC
1 GAGCTG-AAATAGGTAAGCTCATAC
296373 GAGCTG
1 GAGCTG
296379 TGGCGAGTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 2 0.04
25 39 0.83
26 5 0.11
27 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (24 bp):
GAGCTGAAATAGGTAAGCTCATAC
Found at i:298522 original size:7 final size:7
Alignment explanation
Indices: 298510--298543 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
298500 TAAGGAATAA
298510 AGGGATG
1 AGGGATG
298517 AGGGATG
1 AGGGATG
298524 AGGGATG
1 AGGGATG
298531 AGGGATG
1 AGGGATG
298538 AGGGAT
1 AGGGAT
298544 AAAGTAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
AGGGATG
Found at i:304736 original size:3 final size:3
Alignment explanation
Indices: 304728--304766 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
304718 AAATAGAAAT
* * *
304728 ATA ATA ATA GTA ATA ATA ACA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
304767 TCAAACCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:304746 original size:15 final size:15
Alignment explanation
Indices: 304719--304766 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
304709 CATAAATATA
*
304719 AATAGAAAT-ATAAT
1 AATAGTAATAATAAT
*
304733 AATAGTAATAATAAC
1 AATAGTAATAATAAT
304748 AATAGTAATAATAAT
1 AATAGTAATAATAAT
304763 AATA
1 AATA
304767 TCAAACCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (15 bp):
AATAGTAATAATAAT
Found at i:306183 original size:27 final size:27
Alignment explanation
Indices: 306145--306197 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
306135 AGAGAGACTA
306145 AGAAAGACCAATCTTGCCCGGTCTCAC
1 AGAAAGACCAATCTTGCCCGGTCTCAC
306172 AGAAAGACCAATCTTGCCCGGTCTCA
1 AGAAAGACCAATCTTGCCCGGTCTCA
306198 TAGATTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (27 bp):
AGAAAGACCAATCTTGCCCGGTCTCAC
Found at i:306969 original size:44 final size:44
Alignment explanation
Indices: 306554--307032 Score: 219
Period size: 44 Copynumber: 10.7 Consensus size: 44
306544 TCATCGTTTT
* *
306554 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* * ** * *
306598 AATCTGATCCACCGCAACTTCAGGGAGATAATATT-GTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* * *
306641 AA-CTTGCTTCACTGCAACTTCAGGAAGATAAGGTTTGCAAT---TTC
1 AATC-TGCTCCACTGCAACTTCAGGGAGAT-AGGATT--AATAGCTTC
* * * * * *
306685 AACCTGC-CCTACTGCAACTTTAGGGGGATAAGTTTGATA---T-
1 AATCTGCTCC-ACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* * * * *
306725 GATCTGTTCTACTGCAACTTCAGAGAGATAAGATTTGTAGTGTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA--T-TA----ATAGCTTC
* * * * ** *
306776 AATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-AATAGCTTC
* * * * *
306821 AGTCTGCTCCGCTGCAATTTCAGGGAGATAAGATTTGCCATGATGACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TT--AAT-A-G-CTTC
* * * * * *
306871 AATC--CATCCCACTGGAACTTTAGGG-GTATAGGATTTATCGTTTT
1 AATCTGC-T-CCACTGCAACTTCAGGGAG-ATAGGATTAATAGCTTC
** * *
306915 AATCCACTCCACTACAACTTTAGGGAGATAGGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* ** *
306959 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
* *
307003 AACCTGCTCCACTGTAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
307033 AAGTTGGTTA
Statistics
Matches: 331, Mismatches: 72, Indels: 64
0.71 0.15 0.14
Matches are distributed among these distances:
40 23 0.07
41 4 0.01
42 2 0.01
43 36 0.11
44 154 0.47
45 37 0.11
46 3 0.01
47 8 0.02
48 3 0.01
49 5 0.02
50 26 0.08
51 30 0.09
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTC
Found at i:307169 original size:89 final size:89
Alignment explanation
Indices: 307053--307225 Score: 301
Period size: 89 Copynumber: 1.9 Consensus size: 89
307043 TCTTTAGTTA
*
307053 GCTCCACTGAAAACTCAAGGAGGCGAGGTTGGTGTCTTCGATCTACTTCGCTGCCAATAGAGGAA
1 GCTCCACTGAAAACTCAAGGAGGCGAGGTTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAA
307118 GACAAGATCTGCTATCTTCAGTCT
66 GACAAGATCTGCTATCTTCAGTCT
* * * *
307142 GCTCCGCTGCAAACTCAGGGAGGCGAGGTTGGTGTCTTCGATCTACTTCTCTGCCAATACAGGAA
1 GCTCCACTGAAAACTCAAGGAGGCGAGGTTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAA
307207 GACAAGATCTGCTATCTTC
66 GACAAGATCTGCTATCTTC
307226 TTCAATCCAT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (89 bp):
GCTCCACTGAAAACTCAAGGAGGCGAGGTTGGTGTCTTCGATCTACTTCGCTGCCAATACAGGAA
GACAAGATCTGCTATCTTCAGTCT
Done.