Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005382.1 Hibiscus syriacus cultivar Beakdansim tig00012321_pilon, whole genome shotgun sequence
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: 128595
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:2721 original size:2 final size:2
Alignment explanation
Indices: 2716--2742 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2706 AAAAGAAAAA
2716 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
2743 TTGGTTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12719 original size:23 final size:23
Alignment explanation
Indices: 12693--12769 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
12683 AGGTAAAAAC
12693 CAAAAGAAAAAAATTAAATAAAT
1 CAAAAGAAAAAAATTAAATAAAT
* *
12716 CAAAAG--GAAAAGTAAGATAAAAT
1 CAAAAGAAAAAAATTAA-AT-AAAT
* *
12739 -AAAA-AAAATAGATTAAGTAAAT
1 CAAAAGAAAA-AAATTAAATAAAT
12761 CAAAAGAAA
1 CAAAAGAAA
12770 GGAAAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
21 7 0.17
22 10 0.24
23 16 0.39
24 8 0.20
ACGTcount: A:0.70, C:0.04, G:0.10, T:0.16
Consensus pattern (23 bp):
CAAAAGAAAAAAATTAAATAAAT
Found at i:12798 original size:12 final size:11
Alignment explanation
Indices: 12783--12906 Score: 52
Period size: 12 Copynumber: 10.2 Consensus size: 11
12773 AAATAAAATG
12783 TAAAAGTAAAAA
1 TAAAAG-AAAAA
*
12795 TAAAAATAAAAA
1 T-AAAAGAAAAA
*
12807 GGAAAAGGAAAAAA
1 -TAAAA-G-AAAAA
*
12821 TAAAAAGAAAAT
1 T-AAAAGAAAAA
*
12833 TAAAAGATAAA
1 TAAAAGAAAAA
12844 TCAAAAGAAAAA
1 T-AAAAGAAAAA
*
12856 CAAATGAAGAATAAA
1 -TAA--AAGAA-AAA
*
12871 TAAAAAGGAAAA
1 T-AAAAGAAAAA
*
12883 TAAAA-AATGAA
1 TAAAAGAA-AAA
*
12894 TAAAACAAAAA
1 TAAAAGAAAAA
12905 TA
1 TA
12907 TACATATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 27
0.67 0.11 0.21
Matches are distributed among these distances:
10 1 0.01
11 24 0.28
12 32 0.38
13 9 0.11
14 14 0.16
15 5 0.06
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.13
Consensus pattern (11 bp):
TAAAAGAAAAA
Found at i:12801 original size:25 final size:25
Alignment explanation
Indices: 12772--12843 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
12762 AAAAGAAAGG
12772 AAAATAAAATGTAAAAGTAAAAATA
1 AAAATAAAATGTAAAAGTAAAAATA
* * *
12797 AAAATAAAAAGGAAAAGGAAAAAATA
1 AAAATAAAATGTAAAA-GTAAAAATA
*
12823 AAAAGAAAAT-TAAAAGATAAA
1 AAAATAAAATGTAAAAG-TAAA
12844 TCAAAAGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.55
26 16 0.42
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (25 bp):
AAAATAAAATGTAAAAGTAAAAATA
Found at i:12806 original size:19 final size:18
Alignment explanation
Indices: 12784--12843 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 18
12774 AATAAAATGT
12784 AAAAGTAAAAATAAAAATA
1 AAAAG-AAAAATAAAAATA
12803 AAAAGGAAAAGGA-AAAAATA
1 AAAA-GAAAA--ATAAAAATA
*
12823 AAAAGAAAATTAAAAGATA
1 AAAAGAAAAATAAAA-ATA
12842 AA
1 AA
12844 TCAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 4 0.11
19 18 0.51
20 12 0.34
21 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAGAAAAATAAAAATA
Found at i:12837 original size:11 final size:11
Alignment explanation
Indices: 12771--12888 Score: 60
Period size: 12 Copynumber: 10.0 Consensus size: 11
12761 CAAAAGAAAG
*
12771 GAAAATAAAAT
1 GAAAATAAAAA
12782 GTAAAAGTAAAAA
1 G-AAAA-TAAAAA
*
12795 TAAAAATAAAAA
1 -GAAAATAAAAA
* **
12807 GGAAA-AGGAA
1 GAAAATAAAAA
12817 -AAAATAAAAA
1 GAAAATAAAAA
*
12827 GAAAATTAAAA
1 GAAAATAAAAA
*
12838 GATAAATCAAAA
1 GA-AAATAAAAA
*
12850 GAAAAACAAATGAA
1 G-AAAATAAA--AA
12864 GAATAAATAAAAA
1 G-A-AAATAAAAA
12877 GGAAAATAAAAA
1 -GAAAATAAAAA
12889 ATGAATAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
9 3 0.04
10 6 0.07
11 15 0.18
12 33 0.40
13 13 0.16
14 6 0.07
15 6 0.07
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.13
Consensus pattern (11 bp):
GAAAATAAAAA
Found at i:14407 original size:16 final size:16
Alignment explanation
Indices: 14386--14416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14376 AAAAAGAAAT
14386 AATAATAATAAATACC
1 AATAATAATAAATACC
*
14402 AATAATAATATATAC
1 AATAATAATAAATAC
14417 TATATAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAAATACC
Found at i:14521 original size:36 final size:36
Alignment explanation
Indices: 14464--14817 Score: 283
Period size: 38 Copynumber: 10.0 Consensus size: 36
14454 TTCATATTAT
** *
14464 TTTTCTAAAAAT-TTTCCAAAATTATATATTATATAG
1 TTTTC-AAAAATATTTTTAAAACTATATATTATATAG
14500 TTTTCAAAAATGA---TTAAAA--A-ATATTATATGAG
1 TTTTCAAAAAT-ATTTTTAAAACTATATATTATAT-AG
* * *
14532 TTTTAAAAAAATGTTTTTAAAACTATATATTATATAC
1 TTTT-CAAAAATATTTTTAAAACTATATATTATATAG
* * *
14569 TTTTTAAAAATGTTTTTAAAACTATATATTATATAA
1 TTTTCAAAAATATTTTTAAAACTATATATTATATAG
* *
14605 TCTTTCAAAAAATATTTTTTAAACTATATATTATATAAT
1 T-TTTC-AAAAATATTTTTAAAACTATATATTATAT-AG
*
14644 TTTTCAAAAATATTTTTAAAACCATATA-T-TATA-
1 TTTTCAAAAATATTTTTAAAACTATATATTATATAG
*
14677 TTTT-AAAAATATTTTAAAAACTATATATTATATAAG
1 TTTTCAAAAATATTTTTAAAACTATATATTATAT-AG
* * *
14713 TTTTC-AAAATATTTTAAAAACTATACAATATATAAATG
1 TTTTCAAAAATATTTTTAAAACTATA-TAT-TATATA-G
* * * *
14751 TTTTC-AAAATGTTTTCAAAATTATACA-T-TATA-
1 TTTTCAAAAATATTTTTAAAACTATATATTATATAG
* *
14783 TTTT-AAAAATATTTTCAAAAACTATATAATATATA
1 TTTTCAAAAATATTTT-TAAAACTATATATTATATA
14818 AATTTTGAAA
Statistics
Matches: 267, Mismatches: 26, Indels: 51
0.78 0.08 0.15
Matches are distributed among these distances:
31 9 0.03
32 41 0.15
33 20 0.07
34 12 0.04
35 21 0.08
36 61 0.23
37 34 0.13
38 67 0.25
39 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTCAAAAATATTTTTAAAACTATATATTATATAG
Found at i:14559 original size:69 final size:68
Alignment explanation
Indices: 14481--14721 Score: 233
Period size: 69 Copynumber: 3.4 Consensus size: 68
14471 AAAATTTTCC
*
14481 AAAATTATATATTATAT-AGTTTTCAAAAATGATTAAAA-AATATTATATGAGTTTTAAAAAAAT
1 AAAACTATATATTATATAAGTTTTCAAAAATGATTAAAACAATATTATAT-A-TTTT-AAAAAAT
*
14544 GTTTTT
63 ATTTTT
* * *
14550 AAAACTATATATTATAT-ACTTTTTAAAAATGTTTTTAAAACTATATATTATATAATCTTTCAAA
1 AAAACTATATATTATATAAGTTTTCAAAAATG--ATTAAAAC-A-ATATTATAT-AT-TTT-AAA
14614 AAATATTTTT
59 AAATATTTTT
* * *
14624 TAAACTATATATTATATAATTTTTCAAAAAT-ATTTTTAAAACCATA-TATTATATTTT-AAAAA
1 AAAACTATATATTATATAAGTTTTCAAAAATGA---TTAAAACAATATTA-TATATTTTAAAAAA
*
14686 TATTTTA
62 TATTTTT
14693 AAAACTATATATTATATAAGTTTTCAAAA
1 AAAACTATATATTATATAAGTTTTCAAAA
14722 TATTTTAAAA
Statistics
Matches: 146, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
69 66 0.45
71 9 0.06
72 4 0.03
73 8 0.05
74 41 0.28
75 18 0.12
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (68 bp):
AAAACTATATATTATATAAGTTTTCAAAAATGATTAAAACAATATTATATATTTTAAAAAATATT
TTT
Found at i:14762 original size:11 final size:11
Alignment explanation
Indices: 14746--14771 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14736 TACAATATAT
14746 AAATGTTTTCA
1 AAATGTTTTCA
14757 AAATGTTTTCA
1 AAATGTTTTCA
14768 AAAT
1 AAAT
14772 TATACATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:14776 original size:38 final size:36
Alignment explanation
Indices: 14464--14823 Score: 212
Period size: 36 Copynumber: 10.1 Consensus size: 36
14454 TTCATATTAT
* * *
14464 TTTTCTAAAA-ATTTTCCAAAATTATATATTATAT-AG
1 TTTTC-AAAATATTTT-AAAAACTATACATTATATAAG
* *
14500 TTTTCAAAA-ATGATTAAAAA--AT--ATTATATGAG
1 TTTTCAAAATAT-TTTAAAAACTATACATTATATAAG
* * * * **
14532 TTTTAAAAAAATGTTTTTAAAACTATATATTATATACT
1 TTTT--CAAAATATTTTAAAAACTATACATTATATAAG
* * * *
14570 TTTTAAAAATGTTTTTAAAACTATATATTATATAA-
1 TTTTCAAAATATTTTAAAAACTATACATTATATAAG
** * *
14605 TCTTTCAAAAAATATTTTTTAAACTATATATTATATAAT
1 T-TTTC--AAAATATTTTAAAAACTATACATTATATAAG
* * *
14644 TTTTCAAAAATATTTTTAAAACCATATA-T-TAT-A-
1 TTTTC-AAAATATTTTAAAAACTATACATTATATAAG
* *
14677 TTTTAAAAATATTTTAAAAACTATATATTATATAAG
1 TTTTCAAAATATTTTAAAAACTATACATTATATAAG
*
14713 TTTTCAAAATATTTTAAAAACTATACAATATATAAATG
1 TTTTCAAAATATTTTAAAAACTATACATTATAT-AA-G
* * *
14751 TTTTCAAAATGTTTTCAAAATTATACA-T-TAT-A-
1 TTTTCAAAATATTTTAAAAACTATACATTATATAAG
* * * *
14783 TTTTAAAAATATTTTCAAAAACTATATAATATATAAA
1 TTTTCAAAATATTTT-AAAAACTATACATTATATAAG
14820 TTTT
1 TTTT
14824 GAAAGTCGTT
Statistics
Matches: 271, Mismatches: 29, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
31 7 0.03
32 39 0.14
33 16 0.06
34 16 0.06
35 19 0.07
36 77 0.28
37 28 0.10
38 68 0.25
39 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTTCAAAATATTTTAAAAACTATACATTATATAAG
Found at i:14814 original size:71 final size:72
Alignment explanation
Indices: 14642--14884 Score: 211
Period size: 74 Copynumber: 3.4 Consensus size: 72
14632 ATATTATATA
* * * * *
14642 ATTTTTCAAAAATATTTT-TAAAACCATAT-AT-TAT--ATTTTAAAAAT-ATTTT-AAAAACTA
1 ATTTTT-AAAAATATTTTCAAAAACTATATAATATATAAATTTTCAAAATCGTTTTCAAAAATTA
*
14700 TATATTAT
65 TACATTAT
* *
14708 ATAAGTTTTCAAAATATTTT-AAAAACTATACAATATATAAATGTTTTCAAAAT-GTTTTC-AAA
1 AT---TTTTAAAAATATTTTCAAAAACTATATAATATATAAA--TTTTCAAAATCGTTTTCAAAA
14770 ATTATACATTAT
61 ATTATACATTAT
* *
14782 A-TTTTAAAAATATTTTCAAAAACTATATAATATATAAATTTTGAAAGTCGTTTTCTAAAAATTA
1 ATTTTTAAAAATATTTTCAAAAACTATATAATATATAAATTTTCAAAATCGTTTTC-AAAAATTA
*
14846 TATATTAT
65 TACATTAT
* *
14854 ATTTTGTCAAAAACATTTTCACAAACTATAT
1 ATTTT-T-AAAAATATTTTCAAAAACTATAT
14885 TACTATACAC
Statistics
Matches: 145, Mismatches: 15, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
66 2 0.01
68 18 0.12
69 14 0.10
70 23 0.16
71 20 0.14
72 16 0.11
73 3 0.02
74 28 0.19
75 21 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (72 bp):
ATTTTTAAAAATATTTTCAAAAACTATATAATATATAAATTTTCAAAATCGTTTTCAAAAATTAT
ACATTAT
Found at i:14836 original size:38 final size:37
Alignment explanation
Indices: 14550--14884 Score: 204
Period size: 36 Copynumber: 9.3 Consensus size: 37
14540 AAATGTTTTT
* ** * * *
14550 AAAACTATATATTATATACTTTTTAAAAATGTTTT-T
1 AAAACTATATAATATATAAATTTTCAAAATATTTTCA
* *
14586 AAAACTATATATTATAT-AATCTTTCAAAAAATATTTT-T
1 AAAACTATATAATATATAAAT-TTTC--AAAATATTTTCA
* * * *
14624 TAAACTATATATTATATAATTTTTCAAAAATATTTT-T
1 AAAACTATATAATATATAAATTTTC-AAAATATTTTCA
* *
14661 AAAACCATAT-AT-TAT--ATTTTAAAAATATTTT-A
1 AAAACTATATAATATATAAATTTTCAAAATATTTTCA
* *
14693 AAAACTATATATTATATAAGTTTTCAAAATATTTT-A
1 AAAACTATATAATATATAAATTTTCAAAATATTTTCA
* *
14729 AAAACTATACAATATATAAATGTTTTCAAAATGTTTTC-
1 AAAACTATATAATATATAAA--TTTTCAAAATATTTTCA
*
14767 AAAA-T-TATACAT-TAT--ATTTTAAAAATATTTTCA
1 AAAACTATATA-ATATATAAATTTTCAAAATATTTTCA
* * *
14800 AAAACTATATAATATATAAATTTTGAAAGTCGTTTTCTA
1 AAAACTATATAATATATAAATTTTCAAAAT-ATTTTC-A
* * *
14839 AAAATTATAT-AT-TAT-ATTTTGTCAAAAACATTTTCA
1 AAAACTATATAATATATAAATTT-TC-AAAATATTTTCA
*
14875 CAAACTATAT
1 AAAACTATAT
14885 TACTATACAC
Statistics
Matches: 243, Mismatches: 34, Indels: 44
0.76 0.11 0.14
Matches are distributed among these distances:
32 33 0.14
33 9 0.04
34 7 0.03
35 11 0.05
36 72 0.30
37 41 0.17
38 58 0.24
39 12 0.05
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (37 bp):
AAAACTATATAATATATAAATTTTCAAAATATTTTCA
Found at i:14864 original size:106 final size:104
Alignment explanation
Indices: 14570--14879 Score: 272
Period size: 107 Copynumber: 2.9 Consensus size: 104
14560 ATTATATACT
* * * **
14570 TTTTAAAAATGTTTTTAAAACTATATATTATAT-AATCTTTCAAAAAATATTTTTTAAAC--TAT
1 TTTTAAAAATATTTTAAAAACTATATAATATATAAAT-TTTC--AAAATATTTTAAAAACTATAT
* *
14632 ATATTATATAATTTTTCAAAAATATTTTTAAAACCATATATTATA
63 ATATTATAT-A-TTTTC-AAAATATTTTCAAAACCATACATTATA
* * *
14677 TTTTAAAAATATTTTAAAAACTATATATTATATAAGTTTTCAAAATATTTTAAAAACTATACAAT
1 TTTTAAAAATATTTTAAAAACTATATAATATATAAATTTTCAAAATATTTTAAAAACTATA-TAT
* * * **
14742 ATATAAATGTTTTCAAAATGTTTTCAAAATTATACATTATA
65 AT-TATATATTTTCAAAATATTTTCAAAACCATACATTATA
* * *
14783 TTTTAAAAATATTTTCAAAAACTATATAATATATAAATTTTGAAAGTCGTTTTCTAAAAA-T-TA
1 TTTTAAAAATATTTT-AAAAACTATATAATATATAAATTTTCAAAAT--ATTT-TAAAAACTATA
*
14846 TATATTATAT-TTTGTCAAAAACATTTTCACAAAC
62 TATATTATATATTT-TC-AAAATATTTTCA-AAAC
14880 TATATTACTA
Statistics
Matches: 168, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
105 17 0.10
106 43 0.26
107 83 0.49
108 11 0.07
109 8 0.05
110 6 0.04
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (104 bp):
TTTTAAAAATATTTTAAAAACTATATAATATATAAATTTTCAAAATATTTTAAAAACTATATATA
TTATATATTTTCAAAATATTTTCAAAACCATACATTATA
Found at i:15695 original size:84 final size:83
Alignment explanation
Indices: 15517--16883 Score: 1275
Period size: 84 Copynumber: 16.6 Consensus size: 83
15507 GCTATGATGT
* * * * *
15517 AAATGATATGCCTTGGAGTTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
*
15582 TGACTTAAGTTATGCTGC
66 AGACTTAAGTTATGCTGC
* *
15600 AAATGATATGCCTGGGAGCTGAGCGTACTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
* * *
15665 TAGCCTTGAGTTATGCTGT
65 TAGACTTAAGTTATGCTGC
* * * * * * * *
15684 AAATGATATGCCCTCGATGTTAAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGATATCCCTTC
1 AAATGATATGCCTTGGA-GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
* * *
15746 TCGACTTAAGCTATGATGC
65 TAGACTTAAGTTATGCTGC
** * *
15765 AAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTC
*
15830 TAGACTTAAGTTGTGCTGC
65 TAGACTTAAGTTATGCTGC
* *
15849 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTGGTGACAGATAACCCTTAT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
* * *
15914 AGCCTTGAGTTATGCTGT
66 AGACTTAAGTTATGCTGC
* * * * ** * *
15932 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAAATAGCCCTTC
1 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
* **
15994 TCGACTTAAACTATGCTGC
65 TAGACTTAAGTTATGCTGC
** * * * * *
16013 AAATG--ATG---TGTCGTTGAGCGTAGTCGAACTCAAAGGTCTTATGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGGTGACAGATAACCCTTC
* *
16073 TAGACTTAAGTTGTGCTAC
65 TAGACTTAAGTTATGCTGC
* *
16092 AAATGATATGCTTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
* * * *
16157 GAGCCTTGAGTTATGCTGT
65 TAGACTTAAGTTATGCTGC
* * * * * * * **
16176 AAATGATGTGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGATAGTCCTTC
1 AAATGATATGCCTTGGA-GCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
* * *
16238 TCGACTTAAGCTATACTGC
65 TAGACTTAAGTTATGCTGC
* * * * * *
16257 AAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTGTTTGGCAGACAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG-GTGACAGATAACCCTTC
* **
16322 TAGACTTAAGTTGTGCTAT
65 TAGACTTAAGTTATGCTGC
16341 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
* * *
16406 AGCCTTGAGTTATGCTGT
66 AGACTTAAGTTATGCTGC
* * ** * ** *
16424 AAATGATATGCCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTT-G-G-CAGATAGCCCTTC
1 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
* **
16486 TCGACTTAAACTATGCTGC
65 TAGACTTAAGTTATGCTGC
** * * * * * * *
16505 AAATGACGTACCGTT-GAGCTGAGTGTAATCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTT
1 AAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGGTGACAGATAACCCTT
* *
16569 CTAGACTTAAGTTGTACTGC
64 CTAGACTTAAGTTATGCTGC
* * * *
16589 AAATGATATGCCTTGGAGCTGAGCGAAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACACTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
* * * *
16654 GAGCCTTGAGTTATGCTGT
65 TAGACTTAAGTTATGCTGC
* * * * * * * *
16673 AAATGATCTGCCCTCGATGCT-AACTGTAATTGAACTCGAGGGTCTTT-G-G-CAGATAGCCCTT
1 AAATGATATGCCTTGGA-GCTGAGC-GTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTT
* * *
16734 CTCGACTTAAGCTATACTGC
64 CTAGACTTAAGTTATGCTGC
* * * *
16754 AAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTC
*
16819 TCGACTTAAGTTATGCTGC
65 TAGACTTAAGTTATGCTGC
* *
16838 AAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
1 AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
16884 TGAAAAATGG
Statistics
Matches: 1019, Mismatches: 228, Indels: 73
0.77 0.17 0.06
Matches are distributed among these distances:
75 23 0.02
76 1 0.00
78 1 0.00
79 32 0.03
80 94 0.09
81 182 0.18
82 3 0.00
83 127 0.12
84 492 0.48
85 64 0.06
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
AAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
AGACTTAAGTTATGCTGC
Found at i:16486 original size:492 final size:491
Alignment explanation
Indices: 15534--16883 Score: 2263
Period size: 492 Copynumber: 2.7 Consensus size: 491
15524 ATGCCTTGGA
* * *
15534 GTTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTG
1 GTTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTG
* * *
15599 CAAATGATATGCCTGGGAGCTGAGCGTACTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
66 CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
* *
15664 CTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGATGTTAAGTGTAATCGAACTCGAGGGTCT
131 CGAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCT
* *
15729 TTGGCAGATA-TCCCTTCTCGACTTAAGCTATGA-TGCAAATGACGTGCCTTGGAGCTGAGCGTA
196 TTGGCAGATAGT-CCTTCTCGACTTAAGCTAT-ACTGCAAATGATGTGCCTTGGAGCTGAGCATA
*
15792 GTCGAACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATA
259 GTCGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATA
*
15857 TGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGA
324 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGA
*
15922 GTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAAATA
389 GTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTTGGCAAATA
* **
15987 GCCCTTCTCGACTTAAACTATGCTGCAAATGATGTGTC
454 GCCCTTCTCGACTTAAACTATGCTGCAAATGACGTACC
*
16025 GTTGAGCGTAGTCGAACTCAAAGGTCTTATGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCT
1 GTTGAGCGTAATCGAACTCAAAGGTCTT-TGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCT
* *
16090 ACAAATGATATGCTTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCT
65 GCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCT
*
16155 TCGAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTC
130 TCGAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTC
16220 TTTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAG
195 TTTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAG
* **
16285 TCGAACTCAAAGGTCTTTGTTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTATAAATGATAT
260 TCGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
*
16350 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAG
325 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAG
*
16415 TTATGCTGTAAATGATATGCCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTTGGCAGATAG
390 TTATGCTGTAAATGATATGCCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTTGGCAAATAG
16480 CCCTTCTCGACTTAAACTATGCTGCAAATGACGTACC
455 CCCTTCTCGACTTAAACTATGCTGCAAATGACGTACC
16517 GTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTT
1 GTTGAGC-----GTAATCGAACTCAAAGGTCTT-TGTTGGCAGACAACCCTTCTAGACTTAAGTT
* * *
16582 GTACTGCAAATGATATGCCTTGGAGCTGAGCGAAGTCAAACTCGAAGGTCTTTTGGTCACAGATA
60 GTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATA
* * * *
16647 ACACTTCGAGCCTTGAGTTATGCTGTAAATGATCTGCCCTCGATGCTAACTGTAATTGAACTCGA
125 ACCCTTCGAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGA
*
16712 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
190 GGGTCTTTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
* * *
16777 CATAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
255 CATAGTCGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAAT
* *
16842 GATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
320 GATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT
16884 TGAAAAATGG
Statistics
Matches: 806, Mismatches: 45, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
491 28 0.03
492 442 0.55
493 1 0.00
497 335 0.42
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (491 bp):
GTTGAGCGTAATCGAACTCAAAGGTCTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTG
CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
CGAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCT
TTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAGT
CGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG
CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGT
TATGCTGTAAATGATATGCCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTTGGCAAATAGC
CCTTCTCGACTTAAACTATGCTGCAAATGACGTACC
Found at i:16829 original size:249 final size:249
Alignment explanation
Indices: 15485--16885 Score: 2108
Period size: 248 Copynumber: 5.7 Consensus size: 249
15475 ATTTTATTGA
* * * * * * * *
15485 CAGATAGCCCTTTTTGCCTTGAGCTATGA-TGTAAATGATATGCCTTGGAGTTGAGCGTAATCGA
1 CAGATAGCCCTTCTCGACTTAAGCTAT-ACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* * *
15549 ACTCAAAGGTCTTT-GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATATGCCT
65 ACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCT
* *
15613 GGGAGCTGAGCGTACTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
*
15678 TGCTGTAAATGATATGCCCTCGATGTTAAGTGTAATCGAACTCGAGGGTCTTTGG
195 TGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
* *
15733 CAGATATCCCTTCTCGACTTAAGCTATGA-TGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGA
1 CAGATAGCCCTTCTCGACTTAAGCTAT-ACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
*
15797 ACTCGAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCT
65 ACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCT
* *
15862 TGGAGCTGAGCGTAGTCGAAATCGAAGGTC-TTTGGTGACAGATAACCCTTATAGCCTTGAGTTA
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
* * *
15926 TGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
195 TGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
* * * * *
15981 CAAATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATGTG---T--CGTTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
16041 CTCAAAGGTCTTAT-GTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCTT
66 CTCAAAGGTCTT-TGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCT
* *
16105 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCGAGCCTTGAGTTA
130 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
*
16170 TGCTGTAAATGATGTGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
195 TGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
* *
16225 CAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* **
16290 CTCAAAGGTCTTTGTTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTATAAATGATATGCCTT
66 CTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTT
16355 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * * *
16419 GCTGTAAATGATATGCCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTTGG
196 GCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
* * * * * *
16473 CAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGACGTACCGTT-GAGCTGAGTGTAATCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGA
*
16537 ACTCAAAGGTC-TTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATATGCC
65 ACTCAAAGGTCTTTG-GTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC
* * * * *
16601 TTGGAGCTGAGCGAAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACACTTCGAGCCTTGAGTT
129 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
* * *
16666 ATGCTGTAAATGATCTGCCCTCGATGCTAACTGTAATTGAACTCGAGGGTCTTTGG
194 ATGCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
*
16722 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
16787 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTACCTT
66 CTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTT
16852 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
131 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
16886 AAAAATGGCT
Statistics
Matches: 1042, Mismatches: 96, Indels: 29
0.89 0.08 0.02
Matches are distributed among these distances:
243 103 0.10
244 121 0.12
245 1 0.00
247 4 0.00
248 410 0.39
249 400 0.38
250 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (249 bp):
CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTT
GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
GCTGTAAATGATATGCCCTCGATGCTAAGTGTAATCGAACTCGAGGGTCTTTGG
Found at i:22090 original size:26 final size:24
Alignment explanation
Indices: 22030--22092 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
22020 ACATAAGAAC
*
22030 AAAATAAGGT-AAAAACCAAAAGG
1 AAAATAAGATAAAAAACCAAAAGG
*
22053 AAAA-AA-ATTAAATAAATCAAAAGGG
1 AAAATAAGA-TAAA-AAACCAAAA-GG
22078 AAAATAAGATAAAAA
1 AAAATAAGATAAAAA
22093 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
22 3 0.09
23 6 0.19
24 8 0.25
25 8 0.25
26 6 0.19
27 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAATAAGATAAAAAACCAAAAGG
Found at i:22093 original size:24 final size:23
Alignment explanation
Indices: 22030--22121 Score: 61
Period size: 23 Copynumber: 4.0 Consensus size: 23
22020 ACATAAGAAC
* *
22030 AAAATAAGGTAAAAACCAAAAGG
1 AAAATAAGATAAAAATCAAAAGG
22053 AAAA-AA-ATTAAATAAATCAAAAGGG
1 AAAATAAGA-T-AA-AAATCAAAA-GG
22078 AAAATAAGATAAAAAT-AAAA--
1 AAAATAAGATAAAAATCAAAAGG
22098 AAAAT-AGATTAAGTAAATCAAAAG
1 AAAATAAGA-TAA--AAATCAAAAG
22122 AAAGGAAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 21
0.71 0.03 0.27
Matches are distributed among these distances:
19 3 0.05
20 8 0.14
22 7 0.12
23 14 0.25
24 12 0.21
25 8 0.14
26 3 0.05
27 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.12, T:0.15
Consensus pattern (23 bp):
AAAATAAGATAAAAATCAAAAGG
Found at i:22162 original size:20 final size:20
Alignment explanation
Indices: 22122--22199 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
22112 AAATCAAAAG
**
22122 AAAGGAAAAG--AAAATGTA
1 AAAGGAAAAGAAAAAATAAA
*
22140 AAAGTAAAA-ATAAAAATAAA
1 AAAGGAAAAGA-AAAAATAAA
22160 AAAGGAAAAGGAAAAAAT-AA
1 AAAGGAAAA-GAAAAAATAAA
* *
22180 AAAGGAAATGAAAAGATAAA
1 AAAGGAAAAGAAAAAATAAA
22200 TCAAAAGGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
18 8 0.17
19 7 0.15
20 26 0.54
21 6 0.12
22 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (20 bp):
AAAGGAAAAGAAAAAATAAA
Found at i:22232 original size:27 final size:28
Alignment explanation
Indices: 22185--22237 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
22175 AATAAAAAGG
*
22185 AAATGAAAAGATAAATCAAAAGGAAAAC
1 AAATGAAAAGATAAATAAAAAGGAAAAC
*
22213 AAATGAAGA-ATAAATAAAAAGGAAA
1 AAATGAAAAGATAAATAAAAAGGAAA
22238 TAAAAAAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (28 bp):
AAATGAAAAGATAAATAAAAAGGAAAAC
Found at i:22250 original size:27 final size:26
Alignment explanation
Indices: 22165--22253 Score: 78
Period size: 27 Copynumber: 3.5 Consensus size: 26
22155 ATAAAAAAGG
* *
22165 AAAAGGAAAAAATAAAAAGGAAAT--
1 AAAAAGAATAAATAAAAAGGAAATAA
* *
22189 GAAAAG-ATAAATCAAAAGGAAA-ACA
1 AAAAAGAATAAATAAAAAGGAAATA-A
*
22214 AATGAAGAATAAATAAAAAGGAAATAA
1 AA-AAAGAATAAATAAAAAGGAAATAA
22241 AAAAACGAATAAA
1 AAAAA-GAATAAA
22254 ACAAAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 14 0.28
24 4 0.08
25 1 0.02
26 5 0.10
27 25 0.50
28 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (26 bp):
AAAAAGAATAAATAAAAAGGAAATAA
Found at i:23764 original size:16 final size:16
Alignment explanation
Indices: 23743--23773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23733 AAAAAGAAAT
23743 AATAATAATAAATACC
1 AATAATAATAAATACC
*
23759 AATAATAATATATAC
1 AATAATAATAAATAC
23774 TATATACTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAAATACC
Found at i:23940 original size:36 final size:36
Alignment explanation
Indices: 23812--24251 Score: 240
Period size: 36 Copynumber: 12.2 Consensus size: 36
23802 TTTTTGAACT
**
23812 TTATATTATTTTTCTAAAAAT-TTTCCAAAACTATATA
1 TTATA-TATTTTTC-AAAAATGTTTTTAAAACTATATA
* *
23849 TTATATAGTTTTCAAAAATG---ATAAAA--A-ATA
1 TTATATATTTTTCAAAAATGTTTTTAAAACTATATA
**
23879 TTATGAGT-TTTTAAAAAAATGTTTTTAAAACTATATA
1 TTAT-A-TATTTTTCAAAAATGTTTTTAAAACTATATA
*
23916 TTATATACTTTTCAAAAATGTTTTTAAAACTATATA
1 TTATATATTTTTCAAAAATGTTTTTAAAACTATATA
* * * *
23952 TTATATAATTTTTCAAAAAAAATATTTTTTAAATTATTTA
1 TTATAT-ATTTTTC---AAAAATGTTTTTAAAACTATATA
*
23992 TTATATAATTTTTCAAAAAT-ATTTTAAAA-TCATATA
1 TTATAT-ATTTTTCAAAAATGTTTTTAAAACT-ATATA
*
24028 -T-TATA-TTTT-AAAAATGTTTTAAAAACTATATA
1 TTATATATTTTTCAAAAATGTTTTTAAAACTATATA
* * *
24060 TTATATAAGTTTTC-AAAATGTTTTAAAAACTATACAA
1 TTATAT-ATTTTTCAAAAATGTTTTTAAAACTATA-TA
* * * * *
24097 TATATAAATGTTTTC-AAAATATTTTCAAAATTATACA
1 T-TATATAT-TTTTCAAAAATGTTTTTAAAACTATATA
* *
24134 -T-TATA-TTTT-AAAAATATTTTCAAAAACTATATAA
1 TTATATATTTTTCAAAAATGTTTT-TAAAACTATAT-A
* * * *
24168 TATATAAATTTTT-GAAAGTCGTTTTCTGAAAATTATATA
1 T-TATATATTTTTCAAAAAT-GTTTT-T-AAAACTATATA
* ** * *
24207 TTATAT-TTTATCAAAAACATTTTCACAAATTATATA
1 TTATATATTTTTCAAAAATGTTTTTA-AAACTATATA
24243 TATATATAT
1 T-TATATAT
24252 ATATAATAAT
Statistics
Matches: 321, Mismatches: 44, Indels: 75
0.73 0.10 0.17
Matches are distributed among these distances:
30 7 0.02
31 18 0.06
32 31 0.10
33 15 0.05
34 15 0.05
35 12 0.04
36 88 0.27
37 44 0.14
38 42 0.13
39 7 0.02
40 42 0.13
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (36 bp):
TTATATATTTTTCAAAAATGTTTTTAAAACTATATA
Found at i:23994 original size:76 final size:76
Alignment explanation
Indices: 23891--24033 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
23881 ATGAGTTTTT
* *
23891 AAAAAAATGTTTTTAAAACTATATATTATAT-ACTTTTCAAAAATGTTTTTAAAA-CTATATATT
1 AAAAAAATATTTTTAAAACTATATATTATATAACTTTTCAAAAAT-ATTTTAAAATC-ATATATT
23954 ATATAATTTTTCA
64 ATATAATTTTTCA
* * * *
23967 AAAAAAATATTTTTTAAATTATTTATTATATAATTTTTCAAAAATATTTTAAAATCATATATTAT
1 AAAAAAATATTTTTAAAACTATATATTATATAACTTTTCAAAAATATTTTAAAATCATATATTAT
24032 AT
66 AT
24034 TTTAAAAATG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
76 46 0.78
77 13 0.22
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (76 bp):
AAAAAAATATTTTTAAAACTATATATTATATAACTTTTCAAAAATATTTTAAAATCATATATTAT
ATAATTTTTCA
Found at i:24121 original size:11 final size:11
Alignment explanation
Indices: 24102--24158 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
24092 TACAATATAT
*
24102 AAATGTTTTCA
1 AAATATTTTCA
24113 AAATATTTTCA
1 AAATATTTTCA
* *
24124 AAAT-TATACA
1 AAATATTTTCA
** *
24134 TTATATTTTAA
1 AAATATTTTCA
24145 AAATATTTTCA
1 AAATATTTTCA
24156 AAA
1 AAA
24159 ACTATATAAT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (11 bp):
AAATATTTTCA
Found at i:24160 original size:71 final size:71
Alignment explanation
Indices: 24069--24216 Score: 192
Period size: 71 Copynumber: 2.1 Consensus size: 71
24059 ATTATATAAG
* *
24069 TTTTCAAAATGTTTTAAAAACTATACAATATATAAATGTTTTCAAAAT-ATTTTC-AAAATTATA
1 TTTTAAAAATATTTTAAAAACTATACAATATATAAAT-TTTTCAAAATCATTTTCGAAAATTATA
24132 CATTATA
65 CATTATA
* * * *
24139 TTTTAAAAATATTTTCAAAAACTATATAATATATAAATTTTTGAAAGTCGTTTTCTGAAAATTAT
1 TTTTAAAAATATTTT-AAAAACTATACAATATATAAATTTTTCAAAATCATTTTC-GAAAATTAT
*
24204 ATATTATA
64 ACATTATA
24212 TTTTA
1 TTTTA
24217 TCAAAAACAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
70 21 0.31
71 26 0.39
73 20 0.30
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (71 bp):
TTTTAAAAATATTTTAAAAACTATACAATATATAAATTTTTCAAAATCATTTTCGAAAATTATAC
ATTATA
Found at i:24172 original size:144 final size:141
Alignment explanation
Indices: 23813--24139 Score: 339
Period size: 144 Copynumber: 2.3 Consensus size: 141
23803 TTTTGAACTT
* * * * *
23813 TATATTATTTTTCTAAAAAT-TTTCCAAAACTATATATTATAT-AGTTTTCAAAAATGA---TAA
1 TATATAATTTTTC-AAAAATATTTTCAAAATTATACATTATATAATTTTTCAAAAAT-ATTTTAA
* *
23873 AA-AATATTATGAGT-TTTTAAAAAAATGTTTTTAAAACTATATATTATATACTTTTCAAAAATG
64 AATAATA-TATTA-TATTTT--AAAAATGTTTTAAAAACTATATATTATATACTTTTCAAAAATG
* * *
23936 TTTTTAAAACTATATAT
125 TTTTAAAAACTATACAA
** **
23953 TATATAATTTTTCAAAAAAAATATTTTTTAAATTATTTATTATATAATTTTTCAAAAATATTTTA
1 TATATAATTTTTC---AAAAATATTTTCAAAATTATACATTATATAATTTTTCAAAAATATTTTA
* *
24018 AAATCATATATTATATTTTAAAAATGTTTTAAAAACTATATATTATATAAGTTTTC-AAAATGTT
63 AAATAATATATTATATTTTAAAAATGTTTTAAAAACTATATATTATAT-ACTTTTCAAAAATGTT
24082 TTAAAAACTATACAA
127 TTAAAAACTATACAA
24097 TATATAAATGTTTTC-AAAATATTTTCAAAATTATACATTATAT
1 TATAT-AAT-TTTTCAAAAATATTTTCAAAATTATACATTATAT
24140 TTTAAAAATA
Statistics
Matches: 156, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
140 12 0.08
142 30 0.19
143 18 0.12
144 65 0.42
145 10 0.06
146 18 0.12
147 3 0.02
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (141 bp):
TATATAATTTTTCAAAAATATTTTCAAAATTATACATTATATAATTTTTCAAAAATATTTTAAAA
TAATATATTATATTTTAAAAATGTTTTAAAAACTATATATTATATACTTTTCAAAAATGTTTTAA
AAACTATACAA
Found at i:24206 original size:106 final size:104
Alignment explanation
Indices: 23813--24249 Score: 288
Period size: 108 Copynumber: 4.1 Consensus size: 104
23803 TTTTGAACTT
* ** * *
23813 TATATTATTTTTCTAAAAAT-TTTCCAAAACTATATATTATAT-AGTTTTCAAAAATG--ATAAA
1 TATATTATATTT-TAAAAATATTTTAAAAACTATATAATATATAAGTTTTC-AAAATGTTTTAAA
* * * * * *
23874 AA--AT-AT-TATGAGTTTTTAAAAAAATGTTTTTAAAACTA
64 AACTATAATATATAAATTTTT-CAAAAATATTTTCAAAATTA
* * * * *
23912 TATATTATATACTTTTCAAAAATGTTTTTAAAACTATATATTATATAATTTTTCAAAAAAAATAT
1 TATA-T-TATA-TTTT-AAAAATATTTTAAAAACTATATAATATATAAGTTTTC----AAAATGT
** * * *
23977 TTTTTAAATTAT-TTATTATATAATTTTTCAAAAATATTTT-AAAATCA
58 TTTAAAAACTATAATA-TATA-AATTTTTCAAAAATATTTTCAAAATTA
* *
24024 TATATTATATTTTAAAAATGTTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAA
1 TATATTATATTTTAAAAATATTTTAAAAACTATATAATATATAAGTTTTCAAAATGTTTTAAAAA
24089 CTATACAATATATAAATGTTTTC-AAAATATTTTCAAAATTA
66 CTAT--AATATATAAAT-TTTTCAAAAATATTTTCAAAATTA
* * * *
24130 TACATTATATTTTAAAAATATTTTCAAAAACTATATAATATATAAATTTTTGAAAGTCGTTTTCT
1 TATATTATATTTTAAAAATATTTT-AAAAACTATATAATATAT-AAGTTTTCAAAAT-G-TTT-T
* * * *
24195 GAAAATTAT-ATAT-TATATTTTATCAAAAACATTTTCACAAATTA
61 AAAAACTATAATATATAAATTTT-TCAAAAATATTTTCA-AAATTA
24239 TATATATATAT
1 TATAT-TATAT
24250 ATATATAATA
Statistics
Matches: 274, Mismatches: 34, Indels: 49
0.77 0.10 0.14
Matches are distributed among these distances:
99 4 0.01
100 1 0.00
101 4 0.01
102 9 0.03
103 20 0.07
104 21 0.08
105 13 0.05
106 40 0.15
107 31 0.11
108 60 0.22
109 19 0.07
110 12 0.04
111 12 0.04
112 9 0.03
113 13 0.05
114 6 0.02
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (104 bp):
TATATTATATTTTAAAAATATTTTAAAAACTATATAATATATAAGTTTTCAAAATGTTTTAAAAA
CTATAATATATAAATTTTTCAAAAATATTTTCAAAATTA
Found at i:24244 original size:2 final size:2
Alignment explanation
Indices: 24237--24278 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
24227 TTTCACAAAT
24237 TA TA TA TA TA TA TA TA TA TA -A TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24277 TA
1 TA
24279 ATAATAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:24266 original size:22 final size:22
Alignment explanation
Indices: 24238--24284 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
24228 TTCACAAATT
24238 ATATATATATATATATATAATA
1 ATATATATATATATATATAATA
24260 ATATATATATATATATATAATA
1 ATATATATATATATATATAATA
24282 ATA
1 ATA
24285 AAATAACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATATATATATATATAATA
Found at i:24573 original size:21 final size:21
Alignment explanation
Indices: 24533--24587 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
24523 GATTCTTGAC
24533 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
24553 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
24575 AATCGCAACGCGA
1 AATCGCAATGCGA
24588 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:24709 original size:20 final size:20
Alignment explanation
Indices: 24575--24843 Score: 251
Period size: 20 Copynumber: 13.4 Consensus size: 20
24565 GATTTTACAG
* ** *
24575 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
24595 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
* *
24615 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
* *
24635 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
24655 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
24675 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
24695 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
24715 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
24735 TATCGCAACCCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
24755 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
* *
24775 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTA
*
24795 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
24815 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
24835 AATCACAAC
1 AATCGCAAC
24844 ACTGAAATTT
Statistics
Matches: 217, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.01
20 213 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:25563 original size:24 final size:24
Alignment explanation
Indices: 25536--25582 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
25526 AAATTTGGCC
25536 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
25560 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
25583 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:25774 original size:12 final size:12
Alignment explanation
Indices: 25757--25781 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25747 ATATAATCCT
25757 GAAGAAGAAAAA
1 GAAGAAGAAAAA
25769 GAAGAAGAAAAA
1 GAAGAAGAAAAA
25781 G
1 G
25782 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:28131 original size:34 final size:34
Alignment explanation
Indices: 28044--28275 Score: 210
Period size: 34 Copynumber: 6.8 Consensus size: 34
28034 GCATTTGACT
** * * * *
28044 ATCGCAACACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
*
28078 ATCGCAATGC-GAAATGAAAATCCCAACAAGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
* *
28111 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
28145 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AA-GAAA
* *
28184 ATCGCAA--CGAGAGAATCG-CAAT-GCGAA-ATGAAA
1 ATCGCAATGCG-GA-AAT-GAAAATCGC-AACAAGAAA
* *
28217 ATCGCAATGC-GAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
28249 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
28276 TGCGAAATGA
Statistics
Matches: 164, Mismatches: 18, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
31 6 0.04
32 18 0.11
33 47 0.29
34 65 0.40
35 1 0.01
36 1 0.01
37 2 0.01
38 5 0.03
39 18 0.11
40 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
Found at i:28180 original size:19 final size:19
Alignment explanation
Indices: 28077--28299 Score: 227
Period size: 19 Copynumber: 12.7 Consensus size: 19
28067 GCAACGAGAG
28077 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
28096 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
28110 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
28130 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
28144 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
28164 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
28183 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
28197 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
28216 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
28234 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
28248 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
28268 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
28287 AATCGCATTGCGA
1 AATCGCAATGCGA
28300 TTCTCTCGTT
Statistics
Matches: 171, Mismatches: 9, Indels: 48
0.75 0.04 0.21
Matches are distributed among these distances:
13 1 0.01
14 39 0.23
15 4 0.02
16 7 0.04
17 6 0.04
18 11 0.06
19 66 0.39
20 37 0.22
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:28202 original size:14 final size:15
Alignment explanation
Indices: 28183--28255 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 15
28173 GCGAAATGAA
28183 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
28197 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCG--A-GAG
*
28216 AATCGCAATGCGAAATG
1 AATCGCAA-GCGAGA-G
28233 AAATCGCAA-CGAGAG
1 -AATCGCAAGCGAGAG
28248 AATCGCAA
1 AATCGCAA
28256 TGCGGAAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.33
15 1 0.02
16 7 0.15
17 1 0.02
18 9 0.19
19 14 0.29
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (15 bp):
AATCGCAAGCGAGAG
Found at i:28234 original size:52 final size:53
Alignment explanation
Indices: 28107--28293 Score: 351
Period size: 52 Copynumber: 3.5 Consensus size: 53
28097 ATCCCAACAA
28107 GAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAAT
1 GAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAAT
28161 GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAAT
28213 GAAAATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAAT
28265 GAAAATCGCAATGCGAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCA
28294 TTGCGATTCT
Statistics
Matches: 131, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
51 26 0.20
52 50 0.38
53 41 0.31
54 14 0.11
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAAT
Found at i:28339 original size:19 final size:19
Alignment explanation
Indices: 28308--28394 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
28298 GATTCTCTCG
28308 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
28328 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
28346 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
28360 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28379 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
28395 AACATAATGC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.12
17 7 0.12
18 10 0.17
19 24 0.40
20 6 0.10
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:28355 original size:52 final size:52
Alignment explanation
Indices: 28289--28394 Score: 196
Period size: 52 Copynumber: 2.0 Consensus size: 52
28279 GAAATGAAAA
28289 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
28341 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
28393 TC
1 TC
28395 AACATAATGC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 10 0.19
52 43 0.81
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:28503 original size:14 final size:14
Alignment explanation
Indices: 28484--28520 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
28474 CATCAATTAC
28484 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
28498 ACAAATCATCTTTT
1 ACAAATCAACTTTT
28512 ACAAATCAA
1 ACAAATCAA
28521 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:30032 original size:21 final size:21
Alignment explanation
Indices: 29993--30033 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29983 ACTCTCGAGG
* *
29993 AATGATAGGGGGGGCCTCTTC
1 AATGATAGGAGGGGACTCTTC
*
30014 AATGATAGGAGTGGACTCTT
1 AATGATAGGAGGGGACTCTT
30034 GAGGGATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (21 bp):
AATGATAGGAGGGGACTCTTC
Found at i:30482 original size:19 final size:19
Alignment explanation
Indices: 30440--30593 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
30430 TAGTTTACTT
* *
30440 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
30460 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
30479 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
30498 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
30517 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
30531 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
30550 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
30564 TCGCAACACGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
30583 TCGCAATGCGA
1 TCGCAACGCGA
30594 TTTTGGTTTC
Statistics
Matches: 108, Mismatches: 16, Indels: 21
0.74 0.11 0.14
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 62 0.57
20 12 0.11
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:30542 original size:33 final size:33
Alignment explanation
Indices: 30458--30588 Score: 172
Period size: 33 Copynumber: 3.8 Consensus size: 33
30448 CGAAACTTAA
* *
30458 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
30496 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
30529 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
30562 AATCGCAACACGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
30589 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
33 58 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:30585 original size:52 final size:51
Alignment explanation
Indices: 30457--30593 Score: 134
Period size: 52 Copynumber: 2.6 Consensus size: 51
30447 ACGAAACTTA
* * * * *
30457 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACACGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* * * **
30508 AAAT-G-AAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACA-CGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
30560 AGAATCGCAACACGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACACGAAATGAAAATCGCAATGCGA
30594 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
49 2 0.03
50 7 0.10
51 4 0.06
52 40 0.60
53 4 0.06
54 7 0.10
55 3 0.04
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (51 bp):
AAATCGCAACACGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:30624 original size:14 final size:14
Alignment explanation
Indices: 30605--30663 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
30595 TTTGGTTTCG
30605 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
30619 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
30636 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
*
30652 CGTTGTGATTTT
1 CGTTGCGATTTT
30664 CATTTCGCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.07, C:0.15, G:0.29, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:30631 original size:33 final size:33
Alignment explanation
Indices: 30589--30712 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
30579 AAAATCGCAA
*
30589 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
30622 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* ** *
30655 TGTGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
30688 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
30713 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 69 0.85
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:30643 original size:19 final size:19
Alignment explanation
Indices: 30589--30647 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
30579 AAAATCGCAA
30589 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
30608 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
30622 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
30641 TGCGATT
1 TGCGATT
30648 CTGTCGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:30680 original size:19 final size:18
Alignment explanation
Indices: 30589--30680 Score: 56
Period size: 19 Copynumber: 5.4 Consensus size: 18
30579 AAAATCGCAA
*
30589 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
30608 TGCGA-TTT-TGT--CGT
1 TGCGATTTTCTTTCGCGT
*
30622 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
30641 TGCGA--TTCTGT--CGT
1 TGCGATTTTCTTTCGCGT
*
30655 TGTGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
30674 TGCGATT
1 TGCGATT
30681 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
14 15 0.27
15 3 0.05
16 7 0.12
17 6 0.11
18 3 0.05
19 22 0.39
ACGTcount: A:0.08, C:0.16, G:0.28, T:0.48
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:31215 original size:93 final size:93
Alignment explanation
Indices: 30810--31308 Score: 959
Period size: 92 Copynumber: 5.4 Consensus size: 93
30800 TCAGGGTATT
30810 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
30874 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
30902 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
30966 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
30994 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
31058 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
31086 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
31151 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
31179 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
31244 GACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
31272 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
31309 AAGCAATCTA
Statistics
Matches: 402, Mismatches: 2, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
91 10 0.02
92 224 0.56
93 168 0.42
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:33024 original size:20 final size:20
Alignment explanation
Indices: 32993--33056 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
32983 TTTTGGTTGA
32993 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
33013 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
33033 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
33054 AAT
1 AAT
33057 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:33045 original size:21 final size:21
Alignment explanation
Indices: 32991--33055 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
32981 TCTTTTGGTT
32991 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
33012 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
33032 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
33053 GAA
1 GAA
33056 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:33114 original size:19 final size:19
Alignment explanation
Indices: 33081--33188 Score: 82
Period size: 19 Copynumber: 5.7 Consensus size: 19
33071 AAAATCGCAA
**
33081 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
33100 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
33119 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
33133 TGCGATTTTCATTTTTCTCGT
1 TGCGATTTTCA--TTTCGCGT
** *
33154 TGCAGATAGTCATTTTCACGT
1 TGC-GATTTTCA-TTTCGCGT
33175 TGCGATTTTCATTT
1 TGCGATTTTCATTT
33189 ATCTCGTTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
14 10 0.14
16 3 0.04
17 3 0.04
19 25 0.34
20 6 0.08
21 20 0.27
22 6 0.08
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.48
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:33152 original size:21 final size:21
Alignment explanation
Indices: 33127--33200 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
33117 GTTGCGATTC
33127 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
33148 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
33169 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
33190 TCTCGTTGCGA
1 TCTCGTTGCGA
33201 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:33322 original size:33 final size:33
Alignment explanation
Indices: 33280--33350 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
33270 AATACTAACT
33280 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
33313 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
33346 TGAAA
1 TGAAA
33351 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:33755 original size:20 final size:20
Alignment explanation
Indices: 33730--33902 Score: 251
Period size: 20 Copynumber: 8.7 Consensus size: 20
33720 CTTTAAAAAT
33730 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
33750 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
33771 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
33790 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
33810 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
33830 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
33850 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
33870 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
33890 CGCGTTGCGATTT
1 CGCGTTGCGATTT
33903 TAATATTCGC
Statistics
Matches: 138, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
19 2 0.01
20 133 0.96
21 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:33911 original size:20 final size:21
Alignment explanation
Indices: 33870--33921 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
33860 TTTACGGATA
* *
33870 CGCGTTGCGA-TTTATGTGTT
1 CGCGTTGCGATTTTATATATT
33890 CGCGTTGCGATTTTA-ATATT
1 CGCGTTGCGATTTTATATATT
33910 CGCGTTGCGATT
1 CGCGTTGCGATT
33922 CTTGAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.13, C:0.17, G:0.27, T:0.42
Consensus pattern (21 bp):
CGCGTTGCGATTTTATATATT
Found at i:47964 original size:65 final size:64
Alignment explanation
Indices: 47895--48055 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 64
47885 GAATAAATTG
* * * *
47895 AACATCGAGTGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAGGGT-TTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACA-AGACATACATCGATGCACTCAGGCTATTT-TG
47958 AA
64 -A
* **
47960 AACATCGAATGCATTTGATGCATCGATGCACAAGACATACATCGATGTGCTCAGGCTATTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACAAGACATACATCGATGCACTCAGGCTATTTTGA
*
48024 AACATCGAATGCATTCTATGCATCGATGCACA
1 AACATCGAATGCATTTTATGCATCGATGCACA
48056 CTTAGTGCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 32 0.38
65 50 0.59
66 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAGACATACATCGATGCACTCAGGCTATTTTGA
Found at i:53682 original size:16 final size:17
Alignment explanation
Indices: 53658--53690 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
53648 TCTCTTTAAA
*
53658 GTTTTGGAT-AAAATGG
1 GTTTCGGATCAAAATGG
53674 GTTTCGGATCAAAATGG
1 GTTTCGGATCAAAATGG
53691 TGTAGCTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (17 bp):
GTTTCGGATCAAAATGG
Found at i:57078 original size:21 final size:22
Alignment explanation
Indices: 57049--57107 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
57039 TGCATCTCTT
57049 TGAATGTGCATCGATACA-CCA
1 TGAATGTGCATCGATACACCCA
* *
57070 TGAAGGTGCATCGATACACTCCT
1 TGAATGTGCATCGATACAC-CCA
57093 TGAATGTGCATCGAT
1 TGAATGTGCATCGAT
57108 GCACAAAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 17 0.52
23 16 0.48
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (22 bp):
TGAATGTGCATCGATACACCCA
Found at i:57101 original size:23 final size:23
Alignment explanation
Indices: 57031--57107 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
57021 ACACTTAACA
* *
57031 GTGCATC-ATGCATCTCTTTGAAT
1 GTGCATCGATACA-CTCCTTGAAT
* *
57054 GTGCATCGATACA--CCATGAAG
1 GTGCATCGATACACTCCTTGAAT
57075 GTGCATCGATACACTCCTTGAAT
1 GTGCATCGATACACTCCTTGAAT
57098 GTGCATCGAT
1 GTGCATCGAT
57108 GCACAAAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.40
23 23 0.51
24 4 0.09
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (23 bp):
GTGCATCGATACACTCCTTGAAT
Found at i:59791 original size:65 final size:64
Alignment explanation
Indices: 59722--59883 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 64
59712 TAAATAAATT
* * * * *
59722 AAACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGTACTCAGGGT-TTTAT
1 AAACATCGAATGCATTTTATGCATCGATGCACA-AGACATGCATCAATGCACTCAAGCTATTT-T
59785 G
64 G
* * *
59786 AAAACATTGAATACATTTGATGCATCGATGCACAAGACATGCATCAATGCACTCAAGCTATTTTG
1 -AAACATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCAATGCACTCAAGCTATTTTG
* *
59851 AAACATCGAATGCATTCTATGTATCGATGCACA
1 AAACATCGAATGCATTTTATGCATCGATGCACA
59884 CTTAGTGCAC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 29 0.35
65 50 0.61
66 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (64 bp):
AAACATCGAATGCATTTTATGCATCGATGCACAAGACATGCATCAATGCACTCAAGCTATTTTG
Found at i:62948 original size:2 final size:2
Alignment explanation
Indices: 62941--63024 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
62931 TTTCATTTTA
62941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63025 TTAATTTTAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64711 original size:40 final size:37
Alignment explanation
Indices: 64635--64725 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 37
64625 TTATTTATAT
* *
64635 ATATATATATATTATAGTTTGCAAATGTTTTTGAAATAC
1 ATATA-ATATA-TATAGTTTGAAAAGGTTTTTGAAATAC
*
64674 ATATAATATATATAGTTTTGAAAACGGTTTTTGGAAATAT
1 ATATAATATATATAG-TTTGAAAA-GGTTTTT-GAAATAC
*
64714 ATATAACATATA
1 ATATAATATATA
64726 GTTTTTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
37 5 0.11
38 12 0.27
39 11 0.24
40 17 0.38
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (37 bp):
ATATAATATATATAGTTTGAAAAGGTTTTTGAAATAC
Found at i:64783 original size:34 final size:34
Alignment explanation
Indices: 64663--65012 Score: 255
Period size: 34 Copynumber: 9.8 Consensus size: 34
64653 TTGCAAATGT
* * *
64663 TTTTGAAATACATATAATATATATAGTTTTGAAAACGGT
1 TTTTGAAA-ATATAT-A-ATATATAGTTTTTAAAAC--A
* *
64702 TTTTGGAAATATATATAACATATAGTTTTTTAAAAAATA
1 TTTT-GAAA-ATATATAATATATAG-TTTTT--AAAACA
*
64741 TTTTGAAAATATATATTATATAGTTTTTAAAACA
1 TTTTGAAAATATATAATATATAGTTTTTAAAACA
* *
64775 TTTTGAAAACTTATATAATATATAGTATTGAAATA-A
1 TTTTGAAAA--TATATAATATATAGTTTTTAAA-ACA
64811 TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
1 TTTTG-AAA-ATATATAATATATAG-TTTTTAAAACA
64848 TTTTGAAAAATTTATATAATATATAG-TTTTAAAACCA
1 TTTTG-AAAA--TATATAATATATAGTTTTTAAAA-CA
*
64885 TTTTGGAAAACTTATATAATAT-T--TTTTTAAATCA
1 TTTT-GAAAA--TATATAATATATAGTTTTTAAAACA
* ***
64919 TTTTGAAAACTATATAATATATAG-TTTTGAATTT
1 TTTTGAAAA-TATATAATATATAGTTTTTAAAACA
* * ** *
64953 TTTTAAAAAAATATAATATATAGTTTAAAAAATA
1 TTTTGAAAATATATAATATATAGTTTTTAAAACA
*
64987 TTTTTG-AAATATATATTATATAGTTT
1 -TTTTGAAAATATATAATATATAGTTT
65013 ATTTTATAAT
Statistics
Matches: 261, Mismatches: 29, Indels: 47
0.77 0.09 0.14
Matches are distributed among these distances:
32 10 0.04
33 19 0.07
34 58 0.22
35 11 0.04
36 55 0.21
37 54 0.21
38 27 0.10
39 13 0.05
40 10 0.04
41 4 0.02
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (34 bp):
TTTTGAAAATATATAATATATAGTTTTTAAAACA
Found at i:64790 original size:36 final size:36
Alignment explanation
Indices: 64663--64946 Score: 266
Period size: 36 Copynumber: 7.8 Consensus size: 36
64653 TTGCAAATGT
* * *
64663 TTTTGAAATACATATA-ATATATATAGTTTTGAAAACGGT
1 TTTTGAAA-ACTTATATA-ATATATAGTTTTTAAAAC--A
* * *
64702 TTTTGGAAA-TATATATAACATATAGTTTTTTAAAAAATA
1 TTTTGAAAACT-TATATAATATATAG-TTTTT--AAAACA
*
64741 TTTTGAAAA--TATATATTATATAGTTTTTAAAACA
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACA
* *
64775 TTTTGAAAACTTATATAATATATAGTATTGAAATA-A
1 TTTTGAAAACTTATATAATATATAGTTTTTAAA-ACA
64811 TTTTGAAAA-TATATATAATATATAGTTTTTTAAAACA
1 TTTTGAAAACT-TATATAATATATAG-TTTTTAAAACA
*
64848 TTTTGAAAAATTTATATAATATATAG-TTTTAAAACCA
1 TTTTG-AAAACTTATATAATATATAGTTTTTAAAA-CA
*
64885 TTTTGGAAAACTTATATAATAT-T--TTTTTAAATCA
1 TTTT-GAAAACTTATATAATATATAGTTTTTAAAACA
64919 TTTTGAAAAC-TATATAATATATAGTTTT
1 TTTTGAAAACTTATATAATATATAGTTTT
64947 GAATTTTTTT
Statistics
Matches: 209, Mismatches: 17, Indels: 42
0.78 0.06 0.16
Matches are distributed among these distances:
32 10 0.05
33 7 0.03
34 20 0.10
35 12 0.06
36 58 0.28
37 46 0.22
38 31 0.15
39 21 0.10
41 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTTGAAAACTTATATAATATATAGTTTTTAAAACA
Found at i:64834 original size:109 final size:107
Alignment explanation
Indices: 64702--64946 Score: 320
Period size: 109 Copynumber: 2.3 Consensus size: 107
64692 TGAAAACGGT
* * * *
64702 TTTTGGAAATATATATAACATATAGTTTTTTAAAAAATATTTTG-AAAA-TATATATTATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTT--AAAACATTTTGAAAAATTATATAATATATAG-
64765 TTTTAAAA-CATTTT-GAAAACTTATATAATATATAGTATTGAAATAA
63 TTTTAAAACCATTTTGGAAAACTTATATAATAT-T--TATTGAAATAA
64811 TTTTGAAAATATATATAATATATAGTTTTTTAAAACATTTTGAAAAATTTATATAATATATAGTT
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAACATTTTGAAAAA-TTATATAATATATAGTT
* * *
64876 TTAAAACCATTTTGGAAAACTTATATAATATTTTTTTAAATCA
65 TTAAAACCATTTTGGAAAACTTATATAATATTTATTGAAATAA
*
64919 TTTTGAAAA-CTATATAATATATAGTTTT
1 TTTTGAAAATATATATAATATATAGTTTT
64947 GAATTTTTTT
Statistics
Matches: 123, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
107 28 0.23
108 21 0.17
109 37 0.30
110 20 0.16
111 17 0.14
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (107 bp):
TTTTGAAAATATATATAATATATAGTTTTTTAAAACATTTTGAAAAATTATATAATATATAGTTT
TAAAACCATTTTGGAAAACTTATATAATATTTATTGAAATAA
Found at i:65008 original size:36 final size:36
Alignment explanation
Indices: 64633--65012 Score: 222
Period size: 37 Copynumber: 10.6 Consensus size: 36
64623 ATTTATTTAT
** *
64633 ATATATATATATATTATAG-TTTGCAAATGTTTTTGAA
1 ATATATATA-ATA-TATAGTTTTAAAAATATTTTTGAA
* ***
64670 ATACATATAATATATATAGTTTTGAAAACGGTTTTTGGAA
1 ATATATAT-A-ATATATAGTTTT-AAAAATATTTTT-GAA
*
64710 ATATATATAACATATAGTTTTTTAAAAA-ATATTTTGAA
1 ATATATATAATATATAG--TTTTAAAAATAT-TTTTGAA
* * *
64748 A-ATATATATTATATAGTTTTTAAAACA-TTTTGAA
1 ATATATATAATATATAGTTTTAAAAATATTTTTGAA
* * *
64782 A-ACTTATATAATATATAGTATT-GAAATAATTTTGAAA
1 ATA--TATATAATATATAGTTTTAAAAATATTTTTG-AA
* *
64819 ATATATATAATATATAGTTTTTTAAAACA-TTTTGAAAA
1 ATATATATAATATATAG-TTTTAAAAATATTTTTG--AA
* ** *
64857 ATTTATATAATATATAGTTTTAAAACCATTTTGGAA
1 ATATATATAATATATAGTTTTAAAAATATTTTTGAA
*
64893 A-ACTTATATAATAT-T--TTTT-TAAATCA-TTTTGAA
1 ATA--TATATAATATATAGTTTTAAAAAT-ATTTTTGAA
* *
64926 A-ACTATATAATATATAGTTTT--GAAT-TTTTTTAA
1 ATA-TATATAATATATAGTTTTAAAAATATTTTTGAA
* * *
64959 AAAAATATAATATATAGTTTAAAAAATATTTTTGAA
1 ATATATATAATATATAGTTTTAAAAATATTTTTGAA
64995 ATATATAT--TATATAGTTT
1 ATATATATAATATATAGTTT
65013 ATTTTATAAT
Statistics
Matches: 278, Mismatches: 37, Indels: 59
0.74 0.10 0.16
Matches are distributed among these distances:
32 10 0.04
33 34 0.12
34 28 0.10
35 19 0.07
36 53 0.19
37 55 0.20
38 48 0.17
39 17 0.06
40 14 0.05
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTAAAAATATTTTTGAA
Found at i:65013 original size:34 final size:34
Alignment explanation
Indices: 64702--65012 Score: 231
Period size: 37 Copynumber: 8.8 Consensus size: 34
64692 TGAAAACGGT
*
64702 TTTTGGAAATATATATAACATATAGTTTTTTAAAAAATA
1 TTTT-GAAA-ATATATAATATATAG--TTTT-AAAAATA
* * *
64741 TTTTGAAAATATATATTATATAGTTTTTAAAACA
1 TTTTGAAAATATATAATATATAGTTTTAAAAATA
* *
64775 TTTTGAAAACTTATATAATATATAGTATT-GAAATAA
1 TTTTGAAAA--TATATAATATATAGTTTTAAAAAT-A
* *
64811 TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
1 TTTTG-AAA-ATATATAATATATAG-TTTTAAAAATA
**
64848 TTTTGAAAAATTTATATAATATATAGTTTTAAAACCA
1 TTTTG-AAAA--TATATAATATATAGTTTTAAAAATA
*
64885 TTTTGGAAAACTTATATAATAT-T--TTTT-TAAATCA
1 TTTT-GAAAA--TATATAATATATAGTTTTAAAAAT-A
* * *
64919 TTTTGAAAACTATATAATATATAGTTTT-GAATTT
1 TTTTGAAAA-TATATAATATATAGTTTTAAAAATA
* * *
64953 TTTTAAAAAAATATAATATATAGTTTAAAAAATA
1 TTTTGAAAATATATAATATATAGTTTTAAAAATA
*
64987 TTTTTG-AAATATATATTATATAGTTT
1 -TTTTGAAAATATATAATATATAGTTT
65013 ATTTTATAAT
Statistics
Matches: 226, Mismatches: 30, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
32 10 0.04
33 24 0.11
34 52 0.23
35 18 0.08
36 38 0.17
37 57 0.25
38 23 0.10
39 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (34 bp):
TTTTGAAAATATATAATATATAGTTTTAAAAATA
Found at i:65020 original size:21 final size:19
Alignment explanation
Indices: 64996--65069 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 19
64986 ATTTTTGAAA
64996 TATATATTATATAGTTTATTT
1 TATA-ATTATATA-TTTATTT
65017 TATAA-TA-ATA-TTATTT
1 TATAATTATATATTTATTT
65033 TATAATTAT-TATTTATTT
1 TATAATTATATATTTATTT
* *
65051 GT-TTATTATATATTAATTT
1 -TATAATTATATATTTATTT
65070 CTTTTTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 11 0.24
17 4 0.09
18 15 0.33
19 11 0.24
20 1 0.02
21 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TATAATTATATATTTATTT
Found at i:65037 original size:13 final size:14
Alignment explanation
Indices: 65011--65046 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
65001 ATTATATAGT
65011 TTATTTTATAATAATA
1 TTATTTTATAAT--TA
65027 TTATTTTATAATTA
1 TTATTTTATAATTA
65041 TTATTT
1 TTATTT
65047 ATTTGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTTATAATTA
Found at i:66876 original size:10 final size:10
Alignment explanation
Indices: 66861--66917 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
66851 CATTTTTTAA
66861 AAAAATCAAT
1 AAAAATCAAT
66871 AAAAATGCAAT
1 AAAAAT-CAAT
**
66882 AAAAAAGAATT
1 AAAAATCAA-T
* *
66893 AAAAGTGAAT
1 AAAAATCAAT
*
66903 AAAATTCAAT
1 AAAAATCAAT
66913 AAAAA
1 AAAAA
66918 AAGAATGTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 21 0.55
11 17 0.45
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.19
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:66881 original size:11 final size:11
Alignment explanation
Indices: 66861--66917 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
66851 CATTTTTTAA
66861 AAAAAT-CAAT
1 AAAAATGCAAT
66871 AAAAATGCAAT
1 AAAAATGCAAT
*
66882 AAAAAAG-AATT
1 AAAAATGCAA-T
*
66893 AAAAGTG-AAT
1 AAAAATGCAAT
*
66903 -AAAATTCAAT
1 AAAAATGCAAT
66913 AAAAA
1 AAAAA
66918 AAGAATGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
11 22 0.58
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.19
Consensus pattern (11 bp):
AAAAATGCAAT
Found at i:66886 original size:21 final size:20
Alignment explanation
Indices: 66861--66917 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
66851 CATTTTTTAA
66861 AAAAATCAATAAAAATGCAAT
1 AAAAATCAATAAAAATG-AAT
** *
66882 AAAAAAGAATTAAAAGTGAAT
1 AAAAATCAA-TAAAAATGAAT
*
66903 AAAATTCAATAAAAA
1 AAAAATCAATAAAAA
66918 AAGAATGTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.18
21 16 0.57
22 7 0.25
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAAATCAATAAAAATGAAT
Found at i:70698 original size:21 final size:21
Alignment explanation
Indices: 70656--70698 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
70646 TTTATGGGCT
* *
70656 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
70677 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
70698 A
1 A
70699 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:71430 original size:23 final size:23
Alignment explanation
Indices: 71386--71430 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
71376 ATTATTATAT
*
71386 GGCACTACGATGCAATTCTACGC
1 GGCACTACGATGCAATTATACGC
* * *
71409 GGCACTTCGGTGCATTTATACG
1 GGCACTACGATGCAATTATACG
71431 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGC
Found at i:74140 original size:707 final size:714
Alignment explanation
Indices: 72421--74177 Score: 3161
Period size: 722 Copynumber: 2.5 Consensus size: 714
72411 CATAAAAGAG
*
72421 CTTCCTTTTAGTCCATTAGTGATGTATCAACTAGTAGAGTATTACAATTGATCCATATAAATCTT
1 CTTCCTTTTAGTCCATTAATGATGTATCAACTAGTAGAGTATTACAATTGATCCATATAAATCTT
72486 TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTGTATTGGTAGATGACTA
66 TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTGTATTGGTAGATGACTA
*
72551 TTCTAAATATACTTGGGTTCTATTCTTAAGTACTAAAGATGAAGCATTAGAAAAATTCATCACGT
131 TTCTAGATATACTTGGGTTCTATTCTTAAGTACTAAAGATGAAGCATTAGAAAAATTCATCACGT
72616 TTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCCATAACTAGTGTTAGGAGTGATCATGATACT
196 TTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCCATAACTAGTGTTAGGAGTGATCATGATACT
*
72681 GAATTTGAAAATATTGGATTTACTGATTTTTGTAATTCTAATAGTATTAGCCATATCAGCACCTA
261 GAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATAGTATTAGCCATATCAGCACCTA
72746 AAACCCCTCAACAAAACAGAGTTTTGAGAGGAAAAATCAAACTTTAGAAGAAATGGTTAGAACCA
326 AAACCCCTCAACAAAACAGAGTTTTGAGAGGAAAAATCAAACTTTAGAAGAAATGGTTAGAACCA
* *
72811 TGCTTTGTGAAAACAATTTGCCAAAATATTTTTGGGTAGAAGCCATAAATACCGCTTGTTATGTT
391 TGCTTTGTGAAAACAATTTGCCAAAATATTTTTGGGCAGAAGCCACAAATACCGCTTGTTATGTT
72876 ATAAACCGAGTAATGATTAGGCCAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAA
456 ATAAACCGAGTAATGATTAGGCCAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAA
72941 GCCTAACATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACGATAAAGAAA
521 GCCTAACATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACGATAAAGAAA
73006 ATATTGGCAAATTTGATGCTAAAAGTGATGAAGGAATTTTTCTGGGTTATTCCTTAAATTCTAAA
586 ATATTGGCAAA-TTGA--CT--AA--GA-GAAGGAATTTTTCTGGGTTATTCCTTAAATTCTAAA
* *
73071 GCTTATAGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAGTCTATACATGTTGTTTTCGATGA
643 GCTTATAGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAATCTATACATATTGTTTTCGATGA
73136 TAATCCC
708 TAATCCC
*
73143 CTTCCTTTTAGTCCATTAATGATGTATCAACTAGTAGAGTATTACAATTAATCCATATAAATCTT
1 CTTCCTTTTAGTCCATTAATGATGTATCAACTAGTAGAGTATTACAATTGATCCATATAAATCTT
73208 TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTGTATTGGTAGATGACTA
66 TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTGTATTGGTAGATGACTA
* *
73273 TTATAGATATACTTGGGGTTCTATTCTTAAGTACTAATGATGAAGCATTAG-AAAATTCATCACG
131 TTCTAGATATACTT-GGGTTCTATTCTTAAGTACTAAAGATGAAGCATTAGAAAAATTCATCACG
*
73337 TTTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCAATAACTAGTGTTAGGAGTGATCATGATAC
195 TTTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCCATAACTAGTGTTAGGAGTGATCATGATAC
* *
73402 TGAATTTGAAAATCTTGGATTTACAGATTTTTGTAATTCTAATAGTATTAGCCATATCAACACCT
260 TGAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATAGTATTAGCCATATCAGCACCT
*
73467 AAAACCCCTCAACAAATCAGAGTTTTGAGAGGAAAAATCAAACTTTAGAAGAAATGGTTAGAACC
325 AAAACCCCTCAACAAAACAGAGTTTTGAGAGGAAAAATCAAACTTTAGAAGAAATGGTTAGAACC
73532 ATGCTTTGTGAAAACAATTTGCCAAAATATTTTTGGGCAGAAGCCACAAATACCGCTTGTTATGT
390 ATGCTTTGTGAAAACAATTTGCCAAAATATTTTTGGGCAGAAGCCACAAATACCGCTTGTTATGT
*
73597 TATAAACCGTGTAATGATTAGGCCAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAA
455 TATAAACCGAGTAATGATTAGGCCAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAA
73662 AGCCTAACATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACGATAAAGAA
520 AGCCTAACATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACGATAAAGAA
* * *
73727 AATCTTGGCAAA-T-A-T-A-A-AA-GAATTTTTCTGGGTTATTCCTTAAATTCTAATGCTTATC
585 AATATTGGCAAATTGACTAAGAGAAGGAATTTTTCTGGGTTATTCCTTAAATTCTAAAGCTTATA
*
73785 GGGTATTTAATAAAAGAAATTTAGTTGTAGAAGAATCTATACATATTGTTTTCGATGATAATCCC
650 GAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAATCTATACATATTGTTTTCGATGATAATCCC
73850 CTTCCTTTTAGTCCATTAATGATGTATCAACTAGTAGAGTATTACAATTGATCCATATAAATCTT
1 CTTCCTTTTAGTCCATTAATGATGTATCAACTAGTAGAGTATTACAATTGATCCATATAAATCTT
*
73915 TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTATATTGGTAGATGACTA
66 TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTGTATTGGTAGATGACTA
* *
73980 TTCTAGATATACTTGGGTTCCATTCTTAAGTACTAAAGATGAAGCATTAGAAAAATTCATCTCGT
131 TTCTAGATATACTTGGGTTCTATTCTTAAGTACTAAAGATGAAGCATTAGAAAAATTCATCACGT
74045 TTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCCATAACTAGTGTTAGGAGTGATCATGATACT
196 TTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCCATAACTAGTGTTAGGAGTGATCATGATACT
* *
74110 AAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATAGTATTAGTCATATCAGCACCTA
261 GAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATAGTATTAGCCATATCAGCACCTA
74175 AAA
326 AAA
74178 TGTAACACCC
Statistics
Matches: 1003, Mismatches: 30, Indels: 19
0.95 0.03 0.02
Matches are distributed among these distances:
706 34 0.03
707 381 0.38
708 2 0.00
710 1 0.00
713 1 0.00
716 1 0.00
719 1 0.00
720 1 0.00
722 546 0.54
723 35 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (714 bp):
CTTCCTTTTAGTCCATTAATGATGTATCAACTAGTAGAGTATTACAATTGATCCATATAAATCTT
TTTGGGCCAATTAGGACTGTTAGCTTGGGTGGAAAACAATATTGTTTTGTATTGGTAGATGACTA
TTCTAGATATACTTGGGTTCTATTCTTAAGTACTAAAGATGAAGCATTAGAAAAATTCATCACGT
TTTCAAAAGTAATCCAAAACGAAAAAGGTTACTCCATAACTAGTGTTAGGAGTGATCATGATACT
GAATTTGAAAATCTTGGATTTACTGATTTTTGTAATTCTAATAGTATTAGCCATATCAGCACCTA
AAACCCCTCAACAAAACAGAGTTTTGAGAGGAAAAATCAAACTTTAGAAGAAATGGTTAGAACCA
TGCTTTGTGAAAACAATTTGCCAAAATATTTTTGGGCAGAAGCCACAAATACCGCTTGTTATGTT
ATAAACCGAGTAATGATTAGGCCAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAA
GCCTAACATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACGATAAAGAAA
ATATTGGCAAATTGACTAAGAGAAGGAATTTTTCTGGGTTATTCCTTAAATTCTAAAGCTTATAG
AGTATTTAATAAAAGAAATTTAGTTGTAGAAGAATCTATACATATTGTTTTCGATGATAATCCC
Found at i:74869 original size:23 final size:23
Alignment explanation
Indices: 74843--74887 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
74833 CACCACAGCT
*
74843 CGTATAAACGCACCGAAGTGCCC
1 CGTAGAAACGCACCGAAGTGCCC
** *
74866 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAACGCACCGAAGTGCC
74888 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (23 bp):
CGTAGAAACGCACCGAAGTGCCC
Found at i:75125 original size:149 final size:149
Alignment explanation
Indices: 74866--75169 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
74856 CGAAGTGCCC
*
74866 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
74931 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
74996 CATAAT-TCCCGAAGAACCG
131 CAT-ATGTCCCGAAGAACCG
75015 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
75080 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGGCTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
75145 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
75164 CGTAGA
1 CGTAGA
75170 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
148 2 0.01
149 150 0.99
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:76073 original size:18 final size:18
Alignment explanation
Indices: 76052--76086 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
76042 TCCCATCTAG
76052 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
76070 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
76087 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:76693 original size:21 final size:21
Alignment explanation
Indices: 76663--76707 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76653 ATTTTGTCGT
* *
76663 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
76684 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
76705 TTG
1 TTG
76708 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:79999 original size:23 final size:23
Alignment explanation
Indices: 79973--80017 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
79963 CACCACAGCT
*
79973 CGTATAAACGCACCGAAGTGCCC
1 CGTAGAAACGCACCGAAGTGCCC
** *
79996 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAACGCACCGAAGTGCC
80018 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (23 bp):
CGTAGAAACGCACCGAAGTGCCC
Found at i:81048 original size:18 final size:18
Alignment explanation
Indices: 81027--81061 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
81017 TCCCATCTAG
81027 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
81045 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
81062 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:81672 original size:21 final size:21
Alignment explanation
Indices: 81642--81686 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
81632 ATTTTGTCGT
* *
81642 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
81663 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
81684 TTG
1 TTG
81687 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:88949 original size:13 final size:13
Alignment explanation
Indices: 88927--88961 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
88917 AAGGGGATTA
*
88927 ATTTTCAAAATTG
1 ATTTTCAAAAATG
88940 A-TTTCAAAAATG
1 ATTTTCAAAAATG
88952 ATTTTCAAAA
1 ATTTTCAAAA
88962 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:90694 original size:334 final size:335
Alignment explanation
Indices: 90079--90710 Score: 993
Period size: 334 Copynumber: 1.9 Consensus size: 335
90069 TTAACTCAAC
* *
90079 AATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAATTTGTTTTAATAT
1 AATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAAGTTATTTTAATAT
*
90144 TTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAATTTTTCAAAAATATATGAAATTTATA
66 TTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAAATTTTCAAAAATATATGAAATTTATA
* * *
90209 ATTTTTAAAATTATAAAATATTTATCATCATCACCATAATCATCATTTTTTAAAAGAAATATTGG
131 ATTTTTAAAATTATAAAATATTTAT-ATCAT--CC--AATCATCATTTTATAAAAGAAATACTAG
* *
90274 TTATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAG
191 TTATAAAACTTTTACAAAATTATTCATATTTTAAAATACTCACCCTCAAAGTTTTCCTATACTAG
*
90339 ATTATACGTATTGTGTAATTTCATGCAAAAATCAAAATAATTTTATTAAAAATGAATAAACATTA
256 ATTATACGTATTGTGTAATTTCATGCAAAAATAAAAATAATTTTATTAAAAATGAATAAACATTA
90404 TTAATTATTGTTAAA
321 TTAATTATTGTTAAA
*
90419 AATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGGTTATTTTAATAT
1 AATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAAGTTATTTTAATA-
* * *
90484 TTTTTTTATATTTTTCAACAATTAATTTTAAAAGTTAATAAAATTTTCAAAAATATATGAGATTT
65 --TTTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAAATTTTCAAAAATATATGAAATTT
*
90549 ATAATTTTTTAAATTATAAAATATTTAT-T-AT-C-ATCATCATTTTATAAAAGAAATACTAGTT
128 ATAATTTTTAAAATTATAAAATATTTATATCATCCAATCATCATTTTATAAAAGAAATACTAGTT
* * *
90610 ATAAAACTTTTACAAAATTATTCATATTTTAAAATACTCACCCTCAATGTTTTTCTATATTAGAT
193 ATAAAACTTTTACAAAATTATTCATATTTTAAAATACTCACCCTCAAAGTTTTCCTATACTAGAT
* *
90675 TATACGTATTGTGTAATTTCATTCAACAATAAAAAT
258 TATACGTATTGTGTAATTTCATGCAAAAATAAAAAT
90711 TTATCGAGTT
Statistics
Matches: 270, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
334 119 0.44
337 1 0.00
340 63 0.23
341 1 0.00
343 86 0.32
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (335 bp):
AATAATAATTAATGAATAATAATTCATTTGATCCCTCAATTGTAATTAAAAAGTTATTTTAATAT
TTTTATATTTTTAAACAATTAATTTTAAAAGTCAATAAAATTTTCAAAAATATATGAAATTTATA
ATTTTTAAAATTATAAAATATTTATATCATCCAATCATCATTTTATAAAAGAAATACTAGTTATA
AAACTTTTACAAAATTATTCATATTTTAAAATACTCACCCTCAAAGTTTTCCTATACTAGATTAT
ACGTATTGTGTAATTTCATGCAAAAATAAAAATAATTTTATTAAAAATGAATAAACATTATTAAT
TATTGTTAAA
Found at i:92978 original size:45 final size:44
Alignment explanation
Indices: 92921--93050 Score: 165
Period size: 45 Copynumber: 3.0 Consensus size: 44
92911 TGAATAGCTG
*
92921 TTTTTAATGTTGTGTTATAGGCATTTATGCATGAAAATATGTTTT
1 TTTTTAATGTTGTGTTATAGGCATTTATGCATGATAATATG-TTT
* * *
92966 TTTTTCATGTTGTGTTATAGACATTTATGCATGCTAATATG--T
1 TTTTTAATGTTGTGTTATAGGCATTTATGCATGATAATATGTTT
* * * *
93008 TTTTTAATCTTGTGTTAAAAGCATTTATGCGTGATAATATGTT
1 TTTTTAATGTTGTGTTATAGGCATTTATGCATGATAATATGTT
93051 ATCATGATTA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 35 0.49
45 37 0.51
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (44 bp):
TTTTTAATGTTGTGTTATAGGCATTTATGCATGATAATATGTTT
Found at i:93432 original size:18 final size:17
Alignment explanation
Indices: 93409--93455 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
93399 TCCTTCTTCC
*
93409 TTCTTCATTCTTCCTTT
1 TTCTTCATTCTTCATTT
93426 ATTCTTCATTCTTCATTT
1 -TTCTTCATTCTTCATTT
93444 TTCTTC-TTCTTC
1 TTCTTCATTCTTC
93456 TTCTGACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 16 0.57
ACGTcount: A:0.09, C:0.28, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCTTCATTCTTCATTT
Found at i:93436 original size:7 final size:7
Alignment explanation
Indices: 93402--93458 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
93392 TTCTTTTTCC
*
93402 TTCTTCC
1 TTCTTCA
93409 TTCTTCA
1 TTCTTCA
93416 TTCTTC-
1 TTCTTCA
*
93422 --CTTTA
1 TTCTTCA
93427 TTCTTCA
1 TTCTTCA
93434 TTCTTCA
1 TTCTTCA
*
93441 TTTTTC-
1 TTCTTCA
93447 TTCTTC-
1 TTCTTCA
93453 TTCTTC
1 TTCTTC
93459 TGACACACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
4 3 0.07
6 11 0.26
7 28 0.67
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (7 bp):
TTCTTCA
Found at i:94687 original size:23 final size:22
Alignment explanation
Indices: 94661--94728 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
94651 ATCCTAATAA
94661 ATAACTCCTAACAAATTGCAAAG
1 ATAACTCCTAA-AAATTGCAAAG
* *
94684 ATAATTCCTAAAAATTACAAAAG
1 ATAACTCCTAAAAATTGC-AAAG
*
94707 ATAACTCATAATAAATTGCAAA
1 ATAACTCCTAA-AAATTGCAAA
94729 ATATAATTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 6 0.16
23 26 0.68
24 6 0.16
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (22 bp):
ATAACTCCTAAAAATTGCAAAG
Found at i:98086 original size:16 final size:16
Alignment explanation
Indices: 98045--98087 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
98035 AACATCGAAT
* *
98045 ACAAATTCAAGCATCC
1 ACAAATTTAAACATCC
98061 ACAAATTTAAACATCC
1 ACAAATTTAAACATCC
98077 A-AAATGTTAAA
1 ACAAAT-TTAAA
98088 ACAATAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (16 bp):
ACAAATTTAAACATCC
Found at i:100051 original size:23 final size:23
Alignment explanation
Indices: 100022--100080 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
100012 CCTCAAGTGG
* * *
100022 GGGTATCAATACCCATTCAAATA
1 GGGTATCGATACCCATGCAAAGA
* *
100045 GGGTATCGGTACCCATGCAAAGG
1 GGGTATCGATACCCATGCAAAGA
100068 GGGTATCGATACC
1 GGGTATCGATACC
100081 TAGCGCTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
GGGTATCGATACCCATGCAAAGA
Found at i:121791 original size:3 final size:3
Alignment explanation
Indices: 121783--121830 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
121773 TGCAAATGAA
*
121783 AAT AAT AAT AAT AAAT AAT AAAT AAT AAT GAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
121829 AA
1 AA
121831 AACAGGTCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:122217 original size:135 final size:134
Alignment explanation
Indices: 122010--122277 Score: 367
Period size: 135 Copynumber: 2.0 Consensus size: 134
122000 TCGAGAAACA
* * * **
122010 TTGATTCATTCAACTGTTCTTCAGGGAAGATTAAATCGATGTAGACTTGTTCCACTGTCACTTGG
1 TTGATTCATTCAACTGTTCTTCAGGGAAGATTAAATCGAGGCAAACTTGTTCCACTGTCACTCAG
* * * * * *
122075 GGGATATCAAATTTGGAAAAGAGGGGGATCTATTCTGCTTTTTCTTGAGGGAAAATCAGATCTGG
66 GGAATATCAAATCT-GAAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGGAAAATCAGATCTAG
122140 GGACG
130 GGACG
* ** *
122145 TTGATTCATTCCACTGTTAC-TCAGGGAAGATTAAATCGAGGCAAACTTGTTCTGCTGTTACTCA
1 TTGATTCATTCAACTGTT-CTTCAGGGAAGATTAAATCGAGGCAAACTTGTTCCACTGTCACTCA
*
122209 GGGAATATCAAATCTGAAAAGAGAGGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAG
65 GGGAATATCAAATCTGAAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGGAAAATCAGATCTAG
122274 GGAC
130 GGAC
122278 CACTATAGCA
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
134 49 0.42
135 66 0.57
136 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (134 bp):
TTGATTCATTCAACTGTTCTTCAGGGAAGATTAAATCGAGGCAAACTTGTTCCACTGTCACTCAG
GGAATATCAAATCTGAAAAGAGAGGGATCTATTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGG
GACG
Found at i:122371 original size:41 final size:41
Alignment explanation
Indices: 122326--122453 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 41
122316 TAAAAGCCGG
*
122326 TAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTAAC
1 TAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGCAAC
* * * * * * * **
122367 TAAATA-TTGTACTTTAGTGTCATTTTTGTACAAACACCTC
1 TAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGCAAC
* * * **
122407 TAAAGACTCGTATTTTAGTGGTGTTTTGATATAAACGCCGC
1 TAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGCAAC
122448 TAAATA
1 TAAATA
122454 TTATACTTTA
Statistics
Matches: 64, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
40 29 0.45
41 35 0.55
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (41 bp):
TAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGCAAC
Found at i:122410 original size:40 final size:41
Alignment explanation
Indices: 122366--122482 Score: 98
Period size: 41 Copynumber: 2.9 Consensus size: 41
122356 ATAAACGTAA
*
122366 CTAAATATTGTACTTTAGTGTCATTTTTG-TACAAACACCT
1 CTAAATATTGTACTTTAGTGTCATTTTTGATACAAACACCG
* * * * * *
122406 CTAAAGACTCGTATTTTAGTGGT--GTTTTGATATAAACGCCG
1 CTAAATA-TTGTACTTTAGT-GTCATTTTTGATACAAACACCG
* *
122447 CTAAATATTATACTTTAGTGACATTTTTTGA-ACAAA
1 CTAAATATTGTACTTTAGTGTCA-TTTTTGATACAAA
122483 TGTCGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
39 1 0.02
40 20 0.35
41 28 0.49
42 8 0.14
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (41 bp):
CTAAATATTGTACTTTAGTGTCATTTTTGATACAAACACCG
Found at i:122433 original size:81 final size:81
Alignment explanation
Indices: 122326--122474 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
122316 TAAAAGCCGG
* * * * *
122326 TAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTAACTAAATATTGTACTTTAGTGTCATT
1 TAAAGACTCGTATTTTAGTGGCGTTTTGATATAAACGCAACTAAATATTATACTTTAGTGACATT
122391 TTTGTACAAACACCTC
66 TTTGTACAAACACCTC
* **
122407 TAAAGACTCGTATTTTAGTGGTGTTTTGATATAAACGCCGCTAAATATTATACTTTAGTGACATT
1 TAAAGACTCGTATTTTAGTGGCGTTTTGATATAAACGCAACTAAATATTATACTTTAGTGACATT
122472 TTT
66 TTT
122475 TGAACAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (81 bp):
TAAAGACTCGTATTTTAGTGGCGTTTTGATATAAACGCAACTAAATATTATACTTTAGTGACATT
TTTGTACAAACACCTC
Found at i:122516 original size:41 final size:40
Alignment explanation
Indices: 122448--122675 Score: 155
Period size: 41 Copynumber: 5.7 Consensus size: 40
122438 TAAACGCCGC
* * *
122448 TAAATA-TTATACTTTAGTGACATTTTTTGAACAAATGTCGG
1 TAAATACTCATACTTTAGTGGC-GTTTTT-AACAAATGTCGG
* * *
122489 AAAATACTCATACTTTAGTGGCGTTTTTATATAAA---CGC
1 TAAATACTCATACTTTAGTGGCGTTTTTA-ACAAATGTCGG
* *
122527 TAAATA-TTATA-TTGTAGTGGCGTTTTTTAACAAATGCCGG
1 TAAATACTCATACTT-TAGTGGCG-TTTTTAACAAATGTCGG
* * * * * *
122567 TAAATAGTCATACTTTAGTGGTGATTTTATATAAATGTAGC
1 TAAATACTCATACTTTAGTGGCGTTTTTA-ACAAATGTCGG
* * *
122608 TAGAA-CCTCATACTTTAGTGGCATACTTTTAACAAACGTCGG
1 TA-AATACTCATACTTTAGTGGCGT--TTTTAACAAATGTCGG
* *
122650 TAAATACTCGTACTTTAGCGGCGTTT
1 TAAATACTCATACTTTAGTGGCGTTT
122676 AAATATAAAC
Statistics
Matches: 143, Mismatches: 30, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
36 2 0.01
37 16 0.11
38 13 0.09
40 16 0.11
41 50 0.35
42 41 0.29
43 5 0.03
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (40 bp):
TAAATACTCATACTTTAGTGGCGTTTTTAACAAATGTCGG
Found at i:122666 original size:161 final size:161
Alignment explanation
Indices: 122309--122685 Score: 395
Period size: 161 Copynumber: 2.3 Consensus size: 161
122299 TAGCGGCGTT
* * * *
122309 TTTTGAATAAAAGCCGGTAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTAACTAAATAT
1 TTTTGAACAAACGTCGGTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACG--ACTAAATAT
* * * * *
122374 TGTACTTTAGTGTCATTTTTGTACAAACACCTCTAAAGACTCGTATTTTAGTGGTGTTTTGATAT
64 TATACTTTAGTGGCATTTTTGTACAAACACCGCTAAAGACTCATACTTTAGTGGTGTTTTGATAT
* * * *
122439 AAACGCCGCTAAATATTATACTTTAGTGACATT
129 AAACGCAGCTAAACATCATACTTTAGTGACATC
* * *
122472 TTTTGAACAAATGTCGGAAAATACTCATACTTTAGTGGCGTTTTTATATAAACG-CTAAATATTA
1 TTTTGAACAAACGTCGGTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACGACTAAATATTA
* ** * * *
122536 TA-TTGTAGTGGCGTTTTT-TAACAAATGCCGGTAAATAGTCATACTTTAGTGGTGATTTT-ATA
66 TACTT-TAGTGGCATTTTTGT-ACAAACACCGCTAAAGACTCATACTTTAGTGGTG-TTTTGATA
* * * *
122598 TAAATGTAGCTAGAACCTCATACTTTAGTGGCATAC
128 TAAACGCAGCTA-AACATCATACTTTAGTGACAT-C
* **
122634 TTTT-AACAAACGTCGGTAAATACTCGTACTTTAGCGGCGTTTAAATATAAAC
1 TTTTGAACAAACGTCGGTAAATACTCGTACTTTAGTGGCGTTTTTATATAAAC
122686 ATCGCTAAAG
Statistics
Matches: 178, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
159 3 0.02
160 60 0.34
161 63 0.35
162 4 0.02
163 48 0.27
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (161 bp):
TTTTGAACAAACGTCGGTAAATACTCGTACTTTAGTGGCGTTTTTATATAAACGACTAAATATTA
TACTTTAGTGGCATTTTTGTACAAACACCGCTAAAGACTCATACTTTAGTGGTGTTTTGATATAA
ACGCAGCTAAACATCATACTTTAGTGACATC
Done.