Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002277.1 Hibiscus syriacus cultivar Beakdansim tig00004632_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: 171917
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:2134 original size:46 final size:45
Alignment explanation
Indices: 2015--2158 Score: 193
Period size: 46 Copynumber: 3.2 Consensus size: 45
2005 GAGTATTTAT
*
2015 TTTATTTTTCGAACAGGCATGCGAACTAGATATC--GCGGTTAGG
1 TTTATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGG
*
2058 TTTATTTTTCGAACAGGCATGCGAACTAGATATCATGCGGTTAGG
1 TTTATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGG
* * * *
2103 TTATTTTTTTTGAATAAGCATGCGAATTAGATATCATGCGGTTAGG
1 TT-TATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGG
*
2149 ATTTCTTTTT
1 -TTTATTTTT
2159 GTGGATAACA
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
43 34 0.37
45 11 0.12
46 44 0.48
47 2 0.02
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (45 bp):
TTTATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGG
Found at i:11746 original size:13 final size:12
Alignment explanation
Indices: 11728--11773 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
11718 TCGCTTGAAG
11728 AAGAAATAAAAAA
1 AAGAAA-AAAAAA
11741 AAGAAAAAGAAAA
1 AAGAAAAA-AAAA
11754 AAGAAAAAGAAAA
1 AAGAAAAA-AAAA
*
11767 AGGAAAA
1 AAGAAAA
11774 TTGAGGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 2 0.06
13 29 0.94
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:11749 original size:6 final size:6
Alignment explanation
Indices: 11728--11773 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
11718 TCGCTTGAAG
*
11728 AAGAAA TAAAAAA AAGAAA AAGAAAA AAGAAA AAGAAA AAGGAAA A
1 AAGAAA -AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA AA-GAAA A
11774 TTGAGGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 19 0.54
7 16 0.46
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:11752 original size:19 final size:19
Alignment explanation
Indices: 11728--11773 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
11718 TCGCTTGAAG
11728 AAGAAATAAA-AAAAAGAAA
1 AAGAAA-AAAGAAAAAGAAA
11747 AAGAAAAAAGAAAAAGAAA
1 AAGAAAAAAGAAAAAGAAA
11766 AAGGAAAA
1 AA-GAAAA
11774 TTGAGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAGAAAAAGAAA
Found at i:11793 original size:26 final size:27
Alignment explanation
Indices: 11759--11842 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 27
11749 GAAAAAAGAA
* *
11759 AAAGAAAAAGGAAAATTGAGGAAAATG
1 AAAGAAAAAGGAAAAATGAGAAAAATG
*
11786 AAAG-AAAATGAAAAATGAGAAAAA--
1 AAAGAAAAAGGAAAAATGAGAAAAATG
*
11810 AAATGAAAAATGGTGAAAAA-AAGAAAAATG
1 AAA-GAAAAA--G-GAAAAATGAGAAAAATG
11840 AAA
1 AAA
11843 AATGAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.07
25 1 0.02
26 21 0.47
27 4 0.09
28 7 0.16
29 6 0.13
30 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (27 bp):
AAAGAAAAAGGAAAAATGAGAAAAATG
Found at i:11800 original size:27 final size:26
Alignment explanation
Indices: 11726--11809 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
11716 TTTCGCTTGA
11726 AGAAGAAAT-AAA-AAAAAGAAAAA-G
1 AGAA-AAATGAAAGAAAAAGAAAAATG
** *
11750 A-AAAAAGAAAAAGAAAAAGGAAAATTG
1 AGAAAAA-TGAAAGAAAAA-GAAAAATG
* *
11777 AGGAAAATGAAAGAAAATGAAAAATG
1 AGAAAAATGAAAGAAAAAGAAAAATG
11803 AGAAAAA
1 AGAAAAA
11810 AAATGAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
22 3 0.07
23 2 0.04
24 4 0.09
25 5 0.11
26 18 0.39
27 10 0.22
28 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (26 bp):
AGAAAAATGAAAGAAAAAGAAAAATG
Found at i:11802 original size:7 final size:7
Alignment explanation
Indices: 11737--11852 Score: 69
Period size: 7 Copynumber: 15.9 Consensus size: 7
11727 GAAGAAATAA
*
11737 AAAAAAG
1 AAAAATG
11744 AAAAA-G
1 AAAAATG
*
11750 AAAAAAG
1 AAAAATG
11757 AAAAA-G
1 AAAAATG
*
11763 AAAAAGG
1 AAAAATG
*
11770 AAAATTG
1 AAAAATG
11777 AGGAAAATG
1 A--AAAATG
11786 AAAGAAAATG
1 --A-AAAATG
11796 AAAAATG
1 AAAAATG
*
11803 AGAAA--
1 AAAAATG
11808 AAAAATG
1 AAAAATG
11815 AAAAATGGTG
1 AAAAA---TG
*
11825 AAAAAAAG
1 -AAAAATG
11833 AAAAATG
1 AAAAATG
11840 AAAAATG
1 AAAAATG
11847 AAAAAT
1 AAAAAT
11853 ATAAAACGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
5 4 0.04
6 12 0.13
7 52 0.58
8 2 0.02
9 5 0.06
10 9 0.10
11 6 0.07
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:11828 original size:18 final size:19
Alignment explanation
Indices: 11785--11844 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
11775 TGAGGAAAAT
*
11785 GAAAGAAAATGAAAAATGA
1 GAAAAAAAATGAAAAATGA
11804 GAAAAAAAATGAAAAATG-
1 GAAAAAAAATGAAAAATGA
*
11822 GTGAAAAAAA-GAAAAATGA
1 G-AAAAAAAATGAAAAATGA
11841 -AAAA
1 GAAAA
11845 TGAAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.08
18 9 0.25
19 24 0.67
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (19 bp):
GAAAAAAAATGAAAAATGA
Found at i:11850 original size:19 final size:19
Alignment explanation
Indices: 11745--11850 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 19
11735 AAAAAAAAGA
*
11745 AAAAGAAAAAAGAAAAA-G
1 AAAAGAAAAATGAAAAATG
*
11763 AAAAAGGAAAATTGAGGAAAATG
1 -AAAA-GAAAAATGA--AAAATG
11786 -AAAG-AAAATGAAAAATG
1 AAAAGAAAAATGAAAAATG
11803 AGAAA-AAAAATGAAAAATGGTG
1 A-AAAGAAAAATGAAAAA---TG
11825 AAAAAAAGAAAAATGAAAAATG
1 ---AAAAGAAAAATGAAAAATG
11847 AAAA
1 AAAA
11851 ATATAAAACG
Statistics
Matches: 70, Mismatches: 3, Indels: 28
0.69 0.03 0.28
Matches are distributed among these distances:
17 6 0.09
19 28 0.40
20 8 0.11
21 3 0.04
22 8 0.11
23 1 0.01
24 3 0.04
25 13 0.19
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (19 bp):
AAAAGAAAAATGAAAAATG
Found at i:11858 original size:14 final size:14
Alignment explanation
Indices: 11737--11891 Score: 61
Period size: 14 Copynumber: 10.4 Consensus size: 14
11727 GAAGAAATAA
11737 AAAAAAGAAAAA-G
1 AAAAAAGAAAAATG
11750 AAAAAAGAAAAA-G
1 AAAAAAGAAAAATG
* *
11763 AAAAAGGAAAATTG
1 AAAAAAGAAAAATG
*
11777 AGGAAAATGAAAGAAAATG
1 A--AAAA--AGA-AAAATG
* *
11796 AAAAATGAGAAA--
1 AAAAAAGAAAAATG
*
11808 AAAAATGAAAAATGGTG
1 AAAAAAGAAAAA---TG
11825 AAAAAAAGAAAAATG
1 -AAAAAAGAAAAATG
*
11840 AAAAATGAAAAAT-
1 AAAAAAGAAAAATG
*
11853 ATAAAACGTAGGAAAAA-C
1 A-AAAA---A-GAAAAATG
11871 AAAAAGAGAAAAATG
1 AAAAA-AGAAAAATG
11886 AAAAAA
1 AAAAAA
11892 AAGAGAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 37
0.68 0.09 0.23
Matches are distributed among these distances:
12 11 0.10
13 24 0.22
14 28 0.26
15 9 0.08
16 4 0.04
17 8 0.07
18 19 0.17
19 6 0.06
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAAAAGAAAAATG
Found at i:13796 original size:55 final size:53
Alignment explanation
Indices: 13215--13846 Score: 611
Period size: 51 Copynumber: 11.9 Consensus size: 53
13205 GAAGCAAATT
*
13215 CGTTTGTTGAAGA--TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
13266 AGTTCGTTGAAGA--TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * **
13317 AGTTCGTTGAAGA--TTGAGTCCAATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
13368 AGTTCGTTGAAGA--TTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
13419 AGTTCGTTGAAGA--TTGAGTCATATACTCTCTGAAGGAATAGGGAGTGGACA
1 CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * *
13470 AGTTCGTTGAAGA--TTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* *
13521 CGTTTTGTTGAAGATTGTTCGAGT-TCTATACTCCCTGAACGG-ATAGGGAGCGGACC
1 CG-TTTGTTGAAGATT-TT-GAGTCT-TATACTCTCTGAA-GGAATAGGGAGCGGACA
* *
13577 CGTTT-TATGAAGATTGTTCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGT-TGAAGATT-TT-GAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACA
* * * *
13632 CCTTT-TATGAAGATCGTTCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CGTTTGT-TGAAGAT--TTTGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
13687 CGTTTGTTGAAGATTATTCGAGTCTTATACTCTCTGAACGAATAAGGAGCAGACA
1 CGTTTGTTGAAGATT-TT-GAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * **
13742 CGTTTGTTGAAGATTGTTTGAGTCTTATACTCCCTGAATGAATAGGGAGAAGACA
1 CGTTTGTTGAAGA-T-TTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
**
13797 CGTTTG-CAAAGGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 CGTTTGTTGAA-GATT-TT-GAGTCTTATACTCT-CTGAAGGAATAGGGAGC
13847 AGGCTCGTCA
Statistics
Matches: 524, Mismatches: 36, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
51 245 0.47
52 10 0.02
53 2 0.00
54 9 0.02
55 217 0.41
56 37 0.07
57 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (53 bp):
CGTTTGTTGAAGATTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
Found at i:13876 original size:55 final size:53
Alignment explanation
Indices: 13230--13879 Score: 234
Period size: 55 Copynumber: 12.2 Consensus size: 53
13220 GTTGAAGATT
* * * *
13230 GAGTCCTATAC-TCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACGTT--TTGAAGATTTTTC
* * * *
13281 GAGTCCTATAC-TCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACGTT--TTGAAGATTTTTC
** * * *
13332 GAGTCCAATAC-TCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACGTT--TTGAAGATTTTTC
* * *
13383 GAGTCTTATAC-TCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACGTT--TTGAAGATTTTTC
* * ** *
13434 GAGTCATATAC-TCTCTGAAGGAATAGGGAGTGGACAAGTTCGTTGAAGA---TT-
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACGTT--TTGAAGATTTTTC
* * * * * *
13485 GAGTCCTATAC-TCTCTGAAGGAATAGAGAGCGGACCCGTTTTGTTGAAGATTGTTC
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACG--TT-TTGAAGATTTTTC
* * * * *
13541 GAGT-TCTATACTCCCTGAACGGATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTCT-TATACTTCCTGAACGAATAGGGAGCAGACACG-TTT-TGAAGATTTTTC
* * * * * **
13596 GAGT-TCTATAC-TCTCTGAAGGAATAGAGAGCGGACCCCTTTTATGAAGATCGTTC
1 GAGTCT-TATACTTC-CTGAACGAATAGGGAGCAGA-CACGTTT-TGAAGATTTTTC
* * * * *
13651 GAGT-TCTATAC-TCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTATTC
1 GAGTCT-TATACTTC-CTGAACGAATAGGGAGCAGACACG-TT-TTGAAGATTTTTC
*
13706 GAGTCTTATAC-TCTCTGAACGAATAAGGAGCAGACACGTTTGTTGAAGATTGTTT-
1 GAGTCTTATACTTC-CTGAACGAATAGGGAGCAGACACG-TT-TTGAAGATT-TTTC
* * * *
13761 GAGTCTTATACTCCCTGAATGAATAGGGAGAAGACACG-TTTGCAAAGGATTGTTC
1 GAGTCTTATACTTCCTGAACGAATAGGGAGCAGACACGTTTTG--AA-GATTTTTC
* * *
13816 GAGTCTTATACTTCCTGAAGGAATAGGGAGCAGGCTCGTCATTTGAAGATTTTTC
1 GAGTCTTATACTTCCTGAACGAATAGGGAGCAGACACGT--TTTGAAGATTTTTC
*
13871 AAGTCTTAT
1 GAGTCTTAT
13880 TTATCCTGAC
Statistics
Matches: 534, Mismatches: 42, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
51 232 0.43
52 11 0.02
53 3 0.01
54 9 0.02
55 234 0.44
56 40 0.07
57 1 0.00
58 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (53 bp):
GAGTCTTATACTTCCTGAACGAATAGGGAGCAGACACGTTTTGAAGATTTTTC
Found at i:18591 original size:24 final size:23
Alignment explanation
Indices: 18519--18599 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
18509 GCATGGTCTT
* *
18519 ATGCATCGATGCATATTCAAGGC
1 ATGCATCGATGCACATTCAAGGG
* *
18542 ATGCATCGGTG--CA-TCATGCGG
1 ATGCATCGATGCACATTCAAG-GG
18563 ATGCATCGATGCACATTCAAAGGG
1 ATGCATCGATGCACATTC-AAGGG
18587 ATGCATCGATGCA
1 ATGCATCGATGCA
18600 TTGTTAAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
23 12 0.26
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (23 bp):
ATGCATCGATGCACATTCAAGGG
Found at i:18611 original size:44 final size:42
Alignment explanation
Indices: 18497--18619 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 42
18487 AAAACCCGAC
* * *
18497 GGATGCATCGGTGCATGGTCTTATGCATCGATGCATATTCAAG
1 GGATGCATCGGTGCATTGT-TAATGCATCGATGCACATTCAAG
* ***
18540 GCATGCATCGGTGCATCATGCGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGGTGCAT--TGTTAATGCATCGATGCACATTC-AAG
* *
18585 GGATGCATCGATGCATTGTTAAATGCATCGGTGCA
1 GGATGCATCGGTGCATTGTT-AATGCATCGATGCA
18620 TGAAGCACAA
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
43 17 0.27
44 29 0.45
45 18 0.28
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
GGATGCATCGGTGCATTGTTAATGCATCGATGCACATTCAAG
Found at i:28384 original size:16 final size:16
Alignment explanation
Indices: 28337--28382 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
28327 TGTTGTTCGA
*
28337 AAAG-GAAAAAAAAAG
1 AAAGAGAAAAGAAAAG
28352 AAAGAGAAAAGAAAAG
1 AAAGAGAAAAGAAAAG
*
28368 AAAGAAGAGAAGAAA
1 AAAG-AGAAAAGAAA
28383 GACGTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 14 0.52
17 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAGAAAAG
Found at i:38618 original size:115 final size:115
Alignment explanation
Indices: 38416--38646 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
38406 CTTCCATCTT
38416 CATTCCATATGTATCGCCTTTTGGTTATACTTCAAACTGTAATTTGCGATGGTTGTGCGATTTCA
1 CATTCCATATGTATCGCCTTTTGGTTATACTTCAAACTGTAATTTGCGATGGTTGTGCGATTTCA
38481 GTTTCAAGGAGGCTTTCCTGATGCCTTCTACTACAATTTCGAGGAAGATG
66 GTTTCAAGGAGGCTTTCCTGATGCCTTCTACTACAATTTCGAGGAAGATG
38531 CATTCCATATGTATCGCCTTTTGGTTATACTTCAAACTGTAATTTGCGATGGTTGTGCGATTTCA
1 CATTCCATATGTATCGCCTTTTGGTTATACTTCAAACTGTAATTTGCGATGGTTGTGCGATTTCA
38596 GTTTCAAGGAGGCTTTCCTGATGCCTTCTACTACAATTTCGAGGAAGATG
66 GTTTCAAGGAGGCTTTCCTGATGCCTTCTACTACAATTTCGAGGAAGATG
38646 C
1 C
38647 TTTGCAAGGA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (115 bp):
CATTCCATATGTATCGCCTTTTGGTTATACTTCAAACTGTAATTTGCGATGGTTGTGCGATTTCA
GTTTCAAGGAGGCTTTCCTGATGCCTTCTACTACAATTTCGAGGAAGATG
Found at i:47135 original size:17 final size:18
Alignment explanation
Indices: 47108--47145 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
47098 TTTAAAAGTT
* *
47108 TATTGTCAAATGATTAAA
1 TATTGTCAAATAAATAAA
47126 TATT-TCAAATAAATAAA
1 TATTGTCAAATAAATAAA
47143 TAT
1 TAT
47146 ATTTAATGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
TATTGTCAAATAAATAAA
Found at i:59803 original size:18 final size:18
Alignment explanation
Indices: 59775--59819 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
59765 TTCAAAATTA
*
59775 AATATTATTTTAAATAAT
1 AATATTTTTTTAAATAAT
* *
59793 TATATTTTTTTCAATAAT
1 AATATTTTTTTAAATAAT
59811 AATATTTTT
1 AATATTTTT
59820 CACCAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
AATATTTTTTTAAATAAT
Found at i:60667 original size:12 final size:12
Alignment explanation
Indices: 60650--60677 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
60640 ATATATATTT
60650 AATAAATAGTTA
1 AATAAATAGTTA
60662 AATAAATAGTTA
1 AATAAATAGTTA
60674 AATA
1 AATA
60678 TAAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (12 bp):
AATAAATAGTTA
Found at i:74139 original size:21 final size:21
Alignment explanation
Indices: 74115--74157 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
74105 TGTTTATGAC
74115 ACATTTTTCT-ATATTTTTTAT
1 ACATTTTT-TAATATTTTTTAT
*
74136 ACATTTTTTAATCTTTTTTAT
1 ACATTTTTTAATATTTTTTAT
74157 A
1 A
74158 GGCCATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (21 bp):
ACATTTTTTAATATTTTTTAT
Found at i:75037 original size:23 final size:22
Alignment explanation
Indices: 74989--75037 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
74979 ACAGAATGTC
74989 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
75010 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
75033 AAGGA
1 AAGGA
75038 AAAATGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:75945 original size:31 final size:31
Alignment explanation
Indices: 75902--76026 Score: 180
Period size: 31 Copynumber: 4.0 Consensus size: 31
75892 AGGGTCGAGG
*
75902 GTTTACCTATGTTCTTCGGGACATATGGAAT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
75933 GTTTGCCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
75964 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
75995 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
76026 G
1 G
76027 GTCCTTCGGG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
31 84 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:76515 original size:21 final size:21
Alignment explanation
Indices: 76482--76533 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
76472 GTAATCAAAA
*
76482 GAATATATATTGTATAA-GCTCT
1 GAATA-ATTTTGTA-AATGCTCT
* *
76504 GAATAATTTTGTAAATGTTTT
1 GAATAATTTTGTAAATGCTCT
76525 GAATAATTT
1 GAATAATTT
76534 AAATGTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (21 bp):
GAATAATTTTGTAAATGCTCT
Found at i:80425 original size:31 final size:31
Alignment explanation
Indices: 80382--80491 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
80372 AGGGTCGAGG
80382 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
80413 GTTTGCCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
80444 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
80475 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
80492 AGAATCTATG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:80502 original size:31 final size:31
Alignment explanation
Indices: 80382--80506 Score: 164
Period size: 31 Copynumber: 4.0 Consensus size: 31
80372 AGGGTCGAGG
80382 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1 GTTTACCTATGTTCTTCGGGATC-TATGGACT
*
80413 GTTTGCCTATGTTCTTCGGGA-CATATGGACT
1 GTTTACCTATGTTCTTCGGGATC-TATGGACT
*
80444 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGATCTATGGACT
* * * *
80475 GATTACCTAGGTTCTTCAGAATCTATGGACT
1 GTTTACCTATGTTCTTCGGGATCTATGGACT
80506 G
1 G
80507 GTCCTTCGGG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
31 85 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGATCTATGGACT
Found at i:80994 original size:21 final size:21
Alignment explanation
Indices: 80969--81011 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
80959 AAAGAATATA
80969 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
80990 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
81011 T
1 T
81012 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:81898 original size:29 final size:29
Alignment explanation
Indices: 81865--81923 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
81855 TGGTATGAAT
*
81865 GCTGGCTGGATTAGTCTGATTGCTTATTG
1 GCTGGCTGGACTAGTCTGATTGCTTATTG
* *
81894 GCTGGCTGGACTGGTCTGATTGCTTGTTG
1 GCTGGCTGGACTAGTCTGATTGCTTATTG
81923 G
1 G
81924 TTGTCTATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.10, C:0.15, G:0.36, T:0.39
Consensus pattern (29 bp):
GCTGGCTGGACTAGTCTGATTGCTTATTG
Found at i:82371 original size:16 final size:16
Alignment explanation
Indices: 82352--82382 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82342 AATCATGAAT
82352 AATATATGTAAGTTAA
1 AATATATGTAAGTTAA
*
82368 AATATATTTAAGTTA
1 AATATATGTAAGTTA
82383 TTAATTAAAA
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:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
AATATATGTAAGTTAA
Found at i:82497 original size:21 final size:19
Alignment explanation
Indices: 82477--82513 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
82467 TAATATATAA
82477 AAACTAAATTTAGTAATAT
1 AAACTAAATTTAGTAATAT
*
82496 AAAGTAAATTTAGTAATA
1 AAACTAAATTTAGTAATA
82514 ATATTATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (19 bp):
AAACTAAATTTAGTAATAT
Found at i:85167 original size:30 final size:30
Alignment explanation
Indices: 85132--85213 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
85122 TCAAGTGACT
*
85132 ATTTTGTAATAAATGATAACGTTAGTAACC
1 ATTTTGTAACAAATGATAACGTTAGTAACC
* * ***
85162 ATTTTGTAACAAACGATAATGTTAGTGGTC
1 ATTTTGTAACAAATGATAACGTTAGTAACC
*
85192 ATTTTGTGACAAATGATAACGT
1 ATTTTGTAACAAATGATAACGT
85214 CAACATTCTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTTTGTAACAAATGATAACGTTAGTAACC
Found at i:92124 original size:3 final size:3
Alignment explanation
Indices: 92116--92177 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
92106 GGCTTCATTG
92116 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
92162 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
92178 ATAGAATAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.07
3 53 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:92486 original size:19 final size:20
Alignment explanation
Indices: 92464--92505 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
92454 ATTTTAATAT
92464 AATAATTT-TATAACA-TTTA
1 AATAATTTCT-TAACATTTTA
92483 AATAATTTCTTAACATTTTA
1 AATAATTTCTTAACATTTTA
92503 AAT
1 AAT
92506 CAAGCGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (20 bp):
AATAATTTCTTAACATTTTA
Found at i:94439 original size:20 final size:20
Alignment explanation
Indices: 94416--94467 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
94406 AACGCGATCC
94416 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
94436 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
94456 CCAAAATCGCAA
1 CCAGAATCGCAA
94468 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:94548 original size:20 final size:20
Alignment explanation
Indices: 94523--94716 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
94513 GATTTTCCAT
* *
94523 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
94543 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
94563 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
94583 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
94603 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
94623 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
94643 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
94663 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
94684 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
94704 AATCGCAACGCGA
1 AATCGCAACGCGA
94717 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:94568 original size:40 final size:39
Alignment explanation
Indices: 94519--94716 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
94509 TTGCGATTTT
* ** *
94519 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
94557 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
94598 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
94638 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
94677 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
94717 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:94606 original size:60 final size:60
Alignment explanation
Indices: 94523--94715 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
94513 GATTTTCCAT
* ** * *
94523 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
94583 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
94643 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
94704 AATCGCAACGCG
1 AATCGCAACGCG
94716 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:95136 original size:33 final size:33
Alignment explanation
Indices: 95097--95167 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
95087 TTCACTTAGA
*
95097 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
95130 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
95163 TTTCA
1 TTTCA
95168 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:95307 original size:14 final size:14
Alignment explanation
Indices: 95288--95342 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
95278 AGAATGACTG
95288 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
95302 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
95321 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
95335 TCGCAACG
1 TCGCAACG
95343 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:95325 original size:33 final size:33
Alignment explanation
Indices: 95288--95358 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
95278 AGAATGACTG
**
95288 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
95321 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
95354 TCGCA
1 TCGCA
95359 TTGCGATTTT
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:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:95376 original size:19 final size:19
Alignment explanation
Indices: 95354--95451 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
95344 GAAACCAAAA
*
95354 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
95373 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
95387 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
95406 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
95420 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
95439 TCGCGTTGCGATT
1 TCGCGTTGCGATT
95452 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:95395 original size:14 final size:14
Alignment explanation
Indices: 95376--95465 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
95366 TTTCATTTCG
95376 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
95390 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
95409 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
95423 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
95440 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
95456 CGTTGCGATT
1 CGTTGCGATT
95466 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:95401 original size:33 final size:33
Alignment explanation
Indices: 95359--95473 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
95349 CAAAATCGCA
95359 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
95392 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
95425 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
95458 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
95474 AACAAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:97459 original size:93 final size:93
Alignment explanation
Indices: 97171--97641 Score: 894
Period size: 93 Copynumber: 5.1 Consensus size: 93
97161 TAGATTGCTT
*
97171 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97236 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
97264 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97328 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
97355 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97420 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
97448 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97512 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
97540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTACACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97605 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
97633 AGTAAATTT
1 AGTAAATTT
97642 ATCCATTCAA
Statistics
Matches: 371, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
91 88 0.24
92 95 0.26
93 188 0.51
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:97480 original size:184 final size:185
Alignment explanation
Indices: 97171--97641 Score: 908
Period size: 184 Copynumber: 2.6 Consensus size: 185
97161 TAGATTGCTT
*
97171 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97236 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
97301 GTATATTCTTTAACACTGTGAAATATA-TTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
97355 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97420 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
97485 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
97540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTACACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
97605 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
97642 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
184 155 0.55
185 128 0.45
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:97725 original size:19 final size:19
Alignment explanation
Indices: 97685--97813 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
97675 TAGTTTACTT
* *
97685 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
97705 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
97724 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
97743 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
97757 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
97776 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
97790 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
97809 TCGCA
1 TCGCA
97814 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:97764 original size:33 final size:32
Alignment explanation
Indices: 97721--97813 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
97711 CGCGAAACCA
**
97721 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
97753 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
97786 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
97814 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:97811 original size:52 final size:52
Alignment explanation
Indices: 97685--97813 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
97675 TAGTTTACTT
**
97685 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
97737 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
97790 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
97814 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:97831 original size:19 final size:19
Alignment explanation
Indices: 97809--97943 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
97799 GAAACCAAAA
*
97809 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97828 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
97844 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
97861 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
97877 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
97894 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
97913 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
97933 TCGTGTTGCGA
1 TCGCGTTGCGA
97944 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:97850 original size:14 final size:14
Alignment explanation
Indices: 97831--97887 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
97821 TTTCATTTCG
97831 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
97845 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
97862 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
97878 CGTTGCGATT
1 CGTTGCGATT
97888 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:97856 original size:33 final size:33
Alignment explanation
Indices: 97814--97906 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
97804 CAAAATCGCA
*
97814 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
97847 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
97880 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
97907 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:99867 original size:14 final size:14
Alignment explanation
Indices: 99848--99883 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
99838 ATTGTTTAAT
99848 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
99862 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
99876 TGATTTGT
1 TGATTTGT
99884 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:100006 original size:19 final size:19
Alignment explanation
Indices: 99990--100091 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
99980 AAAAATGACT
99990 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
100009 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
100028 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
100042 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
100061 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
100081 ATCGCAATGCG
1 ATCGCAATGCG
100092 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:100144 original size:19 final size:19
Alignment explanation
Indices: 100120--100374 Score: 316
Period size: 19 Copynumber: 14.4 Consensus size: 19
100110 GATTATCTCG
100120 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
100139 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
100158 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
100172 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
100191 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
100210 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
100229 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
100248 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
100262 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
100281 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
100300 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
100314 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
100334 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
100348 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
100367 TTGCGATT
1 TTGCGATT
100375 GTATTTTCCG
Statistics
Matches: 207, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
14 29 0.14
16 24 0.12
17 20 0.10
18 3 0.01
19 119 0.57
20 12 0.06
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:100160 original size:52 final size:52
Alignment explanation
Indices: 100098--100307 Score: 246
Period size: 52 Copynumber: 3.9 Consensus size: 52
100088 TGCGTTTATA
100098 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
100150 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
100202 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
100261 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT
100308 CTCTCGTTGC
Statistics
Matches: 139, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
52 90 0.65
54 4 0.03
55 5 0.04
56 2 0.01
57 26 0.19
58 3 0.02
59 9 0.06
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:100225 original size:90 final size:90
Alignment explanation
Indices: 100098--100374 Score: 389
Period size: 90 Copynumber: 3.2 Consensus size: 90
100088 TGCGTTTATA
*
100098 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
100158 TTGCGATTCTTTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
100183 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCA
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
100248 TTGCGATTCTGTCGTTGCGATTTTC
66 TTGCGATTCTTTCGTTGCGATTTTC
*
100273 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGC
1 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGC
*
100333 ATTGCGA-T-TTTCATGTTGGGATTTTC
65 ATTGCGATTCTTTC--GTTGCGATTTTC
*
100359 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
100375 GTATTTTCCG
Statistics
Matches: 176, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
84 3 0.02
85 29 0.16
86 36 0.20
87 6 0.03
88 8 0.05
90 94 0.53
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (90 bp):
ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
TTGCGATTCTTTCGTTGCGATTTTC
Found at i:100270 original size:142 final size:139
Alignment explanation
Indices: 100082--100374 Score: 466
Period size: 142 Copynumber: 2.1 Consensus size: 139
100072 GAAATGAAAA
*
100082 TCGCAATGCG-TTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
100146 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCA
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--
100210 TTGCGATTTTCATT
126 TTGCGATTTTCATT
* *
100224 TCGCATTGCGATTT-TAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
100288 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGG
66 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGCG
100353 ATTTTCATT
131 ATTTTCATT
*
100362 TCGCGTTGCGATT
1 TCGCATTGCGATT
100375 GTATTTTCCG
Statistics
Matches: 143, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
138 25 0.17
140 1 0.01
141 1 0.01
142 97 0.68
143 19 0.13
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.46
Consensus pattern (139 bp):
TCGCATTGCGATTTATAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGCG
ATTTTCATT
Found at i:100308 original size:52 final size:55
Alignment explanation
Indices: 100120--100346 Score: 305
Period size: 52 Copynumber: 4.2 Consensus size: 55
100110 GATTATCTCG
100120 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
100172 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCA
* *
100229 TTGCGATTTTAATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCA
*
100281 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTT-CGCA
100334 TTGCGATTTTCAT
1 TTGCGATTTTCAT
100347 GTTGGGATTT
Statistics
Matches: 165, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
52 109 0.66
53 17 0.10
54 7 0.04
55 8 0.05
57 24 0.15
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (55 bp):
TTGCGATTTTCATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCA
Found at i:100318 original size:33 final size:33
Alignment explanation
Indices: 100139--100374 Score: 201
Period size: 33 Copynumber: 6.8 Consensus size: 33
100129 TCATTTCGCA
*
100139 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
100172 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* *
100208 CATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
* * * * *
100246 CATTGCGATTCTGTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
100281 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
100314 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
100348 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
100375 GTATTTTCCG
Statistics
Matches: 174, Mismatches: 15, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.05
32 5 0.03
33 62 0.36
34 29 0.17
35 6 0.03
36 5 0.03
37 2 0.01
38 44 0.25
39 3 0.02
40 9 0.05
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:102675 original size:12 final size:12
Alignment explanation
Indices: 102658--102682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102648 TCTTCGGGGA
102658 CTTTTTCTTCTT
1 CTTTTTCTTCTT
102670 CTTTTTCTTCTT
1 CTTTTTCTTCTT
102682 C
1 C
102683 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:102891 original size:24 final size:24
Alignment explanation
Indices: 102857--102903 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
102847 CTGAAACATC
102857 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
102881 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
102904 GACCAAATTT
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:103614 original size:20 final size:20
Alignment explanation
Indices: 103586--103954 Score: 433
Period size: 20 Copynumber: 18.4 Consensus size: 20
103576 AAATTTAAGT
* * * *
103586 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
103606 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
103626 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
103646 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
103666 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
103686 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
103706 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
103726 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
* *
103746 ATTGCGATTTATGGATACGC
1 GTTGCGATTTACGGATACGC
*
103766 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
103786 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
103806 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
103826 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
103846 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
103866 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
103886 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
103906 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
103926 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
103946 GTTGCGATT
1 GTTGCGATT
103955 ATGGAAAATC
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 6 0.02
20 293 0.96
21 6 0.02
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:112780 original size:2 final size:2
Alignment explanation
Indices: 112773--112797 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112763 TTTTCTTAGT
112773 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
112798 TTGAAGAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119332 original size:14 final size:14
Alignment explanation
Indices: 119311--119347 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
119301 TAATACCCTA
119311 AATAAATTTATTAT
1 AATAAATTTATTAT
*
119325 ATTAAATTTATTAT
1 AATAAATTTATTAT
119339 AATAAATTT
1 AATAAATTT
119348 GATTTTTTAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATAAATTTATTAT
Found at i:121583 original size:28 final size:29
Alignment explanation
Indices: 121517--121585 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
121507 TAAATGGACT
* * *
121517 TAATTGATTTTTTATTAAGTTTGATGGCA
1 TAATTGATTTTTTAGTAAGTTTGAAGACA
*
121546 TCATTGATTTTTTAGTAAGTTTGAAGAC-
1 TAATTGATTTTTTAGTAAGTTTGAAGACA
*
121574 TAATTTATTTTT
1 TAATTGATTTTT
121586 AAAGAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (29 bp):
TAATTGATTTTTTAGTAAGTTTGAAGACA
Found at i:123267 original size:23 final size:22
Alignment explanation
Indices: 123223--123267 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
123213 AATGTCATGG
*
123223 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
123245 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
123268 AAGTTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:123876 original size:2 final size:2
Alignment explanation
Indices: 123869--123898 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
123859 AGATTAATAG
123869 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
123899 TAGGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124875 original size:23 final size:23
Alignment explanation
Indices: 124842--124932 Score: 137
Period size: 23 Copynumber: 4.0 Consensus size: 23
124832 ATTATTATAT
*
124842 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
124865 AGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
124888 GGCACTCTGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
124911 GGCACTTCGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
124933 AGCTGTGGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.24
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:125927 original size:20 final size:19
Alignment explanation
Indices: 125892--125945 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
125882 AAATCGCAAC
125892 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
125911 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
125931 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
125946 AGAAACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:127355 original size:42 final size:42
Alignment explanation
Indices: 127260--127356 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
127250 CCCCCCACTT
* * * * * *
127260 CGAGAGCCATCAACTGATCGAGTCGATTCTACATCTCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
*
127302 CCAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
*
127344 CGAGAGTCATCAC
1 CGAGAGCCATCAC
127357 ATATTCCATC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.19
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAA
Found at i:127491 original size:21 final size:21
Alignment explanation
Indices: 127467--127522 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
127457 GTTAGGGGAG
*
127467 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
*
127488 TTACGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
*
127509 TTACGTGGTGAGGT
1 TTACGTGATGAGGT
127523 ATATGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.12, G:0.36, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:127533 original size:42 final size:41
Alignment explanation
Indices: 127486--127585 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
127476 GAGGTCAGTG
*
127486 CTTTACGTGATGAGGTCGGTACTTTACGTGGTGAGGTATATG
1 CTTTACGTGATGAGGT-GGTACTTTACGTGGTGAGGTATATA
* ** ** *
127528 TTTTACACGATGACAATGGTACTTTACGTGGTGAGGTATCTA
1 CTTTACGTGATGA-GGTGGTACTTTACGTGGTGAGGTATATA
*
127570 CTTTACGTGATAAGGT
1 CTTTACGTGATGAGGT
127586 AGTCGCTCTA
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
41 1 0.02
42 42 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (41 bp):
CTTTACGTGATGAGGTGGTACTTTACGTGGTGAGGTATATA
Found at i:127585 original size:21 final size:21
Alignment explanation
Indices: 127547--127586 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
127537 ATGACAATGG
* *
127547 TACTTTACGTGGTGAGGTATC
1 TACTTTACGTGATAAGGTATC
127568 TACTTTACGTGATAAGGTA
1 TACTTTACGTGATAAGGTA
127587 GTCGCTCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (21 bp):
TACTTTACGTGATAAGGTATC
Found at i:127700 original size:4 final size:4
Alignment explanation
Indices: 127691--127724 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
127681 TTTTTCAGCA
* *
127691 TTAT TTAT TTAT TTAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
127725 TTAGCGGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:127885 original size:21 final size:21
Alignment explanation
Indices: 127857--127954 Score: 135
Period size: 21 Copynumber: 4.7 Consensus size: 21
127847 GATTCACCTG
*
127857 TCATCGTTCAAGATGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
127878 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
127899 TCATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
127920 CCACCGTTCAAGAGGCCTCTA
1 TCATCGTTCAAGAGGCCCCTC
127941 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
127955 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:127917 original size:42 final size:42
Alignment explanation
Indices: 127857--127954 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
127847 GATTCACCTG
* * * *
127857 TCATCGTTCAAGATGCCCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
*
127899 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCTCTA
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
127941 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
127955 CCCGATTCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:131884 original size:256 final size:256
Alignment explanation
Indices: 131429--131940 Score: 1024
Period size: 256 Copynumber: 2.0 Consensus size: 256
131419 AAAAACTTGG
131429 GTTCTTGAACATGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATATTTTATCCT
1 GTTCTTGAACATGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATATTTTATCCT
131494 CTTTGCAATCATACGCCACGTACAATTTTTATCAATCATACACTTTGTTTCGAAACGATCTTTGC
66 CTTTGCAATCATACGCCACGTACAATTTTTATCAATCATACACTTTGTTTCGAAACGATCTTTGC
131559 TTGATTTATTAACTTTTAGTTAATAGCCATCTTCCACACATTTCGTATACAAAACTATCTTCAAG
131 TTGATTTATTAACTTTTAGTTAATAGCCATCTTCCACACATTTCGTATACAAAACTATCTTCAAG
131624 TCTTCATTTGTATCAAAACAATCATTTTTCTTGATACGAATAACTTTTGTGAAACAATCAA
196 TCTTCATTTGTATCAAAACAATCATTTTTCTTGATACGAATAACTTTTGTGAAACAATCAA
131685 GTTCTTGAACATGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATATTTTATCCT
1 GTTCTTGAACATGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATATTTTATCCT
131750 CTTTGCAATCATACGCCACGTACAATTTTTATCAATCATACACTTTGTTTCGAAACGATCTTTGC
66 CTTTGCAATCATACGCCACGTACAATTTTTATCAATCATACACTTTGTTTCGAAACGATCTTTGC
131815 TTGATTTATTAACTTTTAGTTAATAGCCATCTTCCACACATTTCGTATACAAAACTATCTTCAAG
131 TTGATTTATTAACTTTTAGTTAATAGCCATCTTCCACACATTTCGTATACAAAACTATCTTCAAG
131880 TCTTCATTTGTATCAAAACAATCATTTTTCTTGATACGAATAACTTTTGTGAAACAATCAA
196 TCTTCATTTGTATCAAAACAATCATTTTTCTTGATACGAATAACTTTTGTGAAACAATCAA
131941 CTGCTATCTT
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 256 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (256 bp):
GTTCTTGAACATGTATGTTTATCAATAAAAGTCCTAACTTGAAACATTTCGCAATATTTTATCCT
CTTTGCAATCATACGCCACGTACAATTTTTATCAATCATACACTTTGTTTCGAAACGATCTTTGC
TTGATTTATTAACTTTTAGTTAATAGCCATCTTCCACACATTTCGTATACAAAACTATCTTCAAG
TCTTCATTTGTATCAAAACAATCATTTTTCTTGATACGAATAACTTTTGTGAAACAATCAA
Found at i:132415 original size:12 final size:12
Alignment explanation
Indices: 132394--132427 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
132384 GATTGTGGGT
*
132394 TTTGAGATTGTG
1 TTTGATATTGTG
132406 TTTGATATTGTG
1 TTTGATATTGTG
*
132418 TTTGGTATTG
1 TTTGATATTG
132428 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:133046 original size:16 final size:15
Alignment explanation
Indices: 133024--133062 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
133014 GAAATTATTG
133024 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
133040 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
133055 AAAAATTA
1 AAAAATTA
133063 GAGATGAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:133246 original size:20 final size:19
Alignment explanation
Indices: 133199--133347 Score: 79
Period size: 20 Copynumber: 7.5 Consensus size: 19
133189 CAAAACATTT
*
133199 GTGTTGCGAAAATAAAA-C
1 GTGTTGCGAAATTAAAATC
* *
133217 CTGGTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAA-TC
133237 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAATT--AAAATC
* **
133257 GAGTTGCGAAAACAAAATTC
1 GTGTTGCGAAATTAAAA-TC
*
133277 GCGTTG-GAAATTCAGAAATC
1 GTGTTGCGAAATT-A-AAATC
* * *
133297 GAGTTGCGAATTTGAAATTC
1 GTGTTGCGAAATT-AAAATC
* *
133317 AGTGTTGCGAATTTTGAAATC
1 -GTGTTGCGAA-ATTAAAATC
*
133338 GCGTTGCGAA
1 GTGTTGCGAA
133348 TTTGTTGTTC
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
18 14 0.14
19 12 0.12
20 44 0.44
21 28 0.28
22 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (19 bp):
GTGTTGCGAAATTAAAATC
Found at i:133274 original size:40 final size:40
Alignment explanation
Indices: 133221--133347 Score: 134
Period size: 40 Copynumber: 3.1 Consensus size: 40
133211 TAAAACCTGG
133221 TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
1 TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
** *
133261 TGCGAAAACAAAATTCGCGTTG-GAAATTC-AGAAATCGAGT
1 TGCGAAATTAAAATTCGTGTTGCG-AATTCGA-AAATCGAGT
* * * *
133301 TGCGAATTTGAAATTCAGTGTTGCGAATTTTG-AAATCGCGT
1 TGCGAAATTAAAATTC-GTGTTGCGAA-TTCGAAAATCGAGT
133342 TGCGAA
1 TGCGAA
133348 TTTGTTGTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
39 2 0.03
40 45 0.63
41 21 0.30
42 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (40 bp):
TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
Found at i:146275 original size:54 final size:54
Alignment explanation
Indices: 146217--146344 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 54
146207 GTTGATTTTG
* * *
146217 TTCTAGAAATTTGGTTTCCAGTAATGGTGCCACTAGATGCCGAGTTTGAATCCC
1 TTCTAGAAATTTGGTTTCCAGAAATGATGACACTAGATGCCGAGTTTGAATCCC
* * *
146271 TTCTAGAAATTTGATTTCCAGAAATGATGACACTAGTTGCCGAGTTTGATTCCC
1 TTCTAGAAATTTGGTTTCCAGAAATGATGACACTAGATGCCGAGTTTGAATCCC
146325 TTCTAGAAATTTGGTTTCCA
1 TTCTAGAAATTTGGTTTCCA
146345 ATTATGATCC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
TTCTAGAAATTTGGTTTCCAGAAATGATGACACTAGATGCCGAGTTTGAATCCC
Found at i:147014 original size:14 final size:14
Alignment explanation
Indices: 146995--147023 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
146985 TCATCACCTG
146995 ACAATGTAAGAAGA
1 ACAATGTAAGAAGA
147009 ACAATGTAAGAAGA
1 ACAATGTAAGAAGA
147023 A
1 A
147024 ACTAATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
ACAATGTAAGAAGA
Found at i:157547 original size:16 final size:16
Alignment explanation
Indices: 157526--157560 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
157516 CGAAGCTTAA
157526 GCATCAATGCTAATAT
1 GCATCAATGCTAATAT
157542 GCATCAATGCTAATAT
1 GCATCAATGCTAATAT
157558 GCA
1 GCA
157561 CATTACACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (16 bp):
GCATCAATGCTAATAT
Found at i:160741 original size:30 final size:29
Alignment explanation
Indices: 160707--160808 Score: 73
Period size: 31 Copynumber: 3.4 Consensus size: 29
160697 AGTAACTATT
160707 TTGTATTAATTTAATATGATCTAATAATTA
1 TTGTATTAATTTAATA-GATCTAATAATTA
** ***
160737 TTGTACCCAAAAAAATAAGATCTAATAATTA
1 TTGTA-TTAATTTAAT-AGATCTAATAATTA
* *
160768 TTTTATAATAACTTAATAGAT-TAATAATTA
1 TTGTAT--TAATTTAATAGATCTAATAATTA
*
160798 TTTTA-TAATTT
1 TTGTATTAATTT
160809 TCAAAATTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
27 5 0.09
30 19 0.34
31 26 0.46
32 6 0.11
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (29 bp):
TTGTATTAATTTAATAGATCTAATAATTA
Found at i:165604 original size:21 final size:20
Alignment explanation
Indices: 165579--165672 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 20
165569 TAACACGATC
*
165579 TCAAATTTCGCAATACAGTTT
1 TCAAA-TTCGCAATGCAGTTT
* * *
165600 TCAAATTTGTAACT-CAATTT
1 TCAAATTCGCAA-TGCAGTTT
* *
165620 TGAAATTCGCAACGC-GATTT
1 TCAAATTCGCAATGCAG-TTT
165640 TCTAAATTCGCAATGCAGTTT
1 TC-AAATTCGCAATGCAGTTT
165661 TCAAATTCGCAA
1 TCAAATTCGCAA
165673 CACGAACTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
20 34 0.59
21 23 0.40
22 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TCAAATTCGCAATGCAGTTT
Found at i:165639 original size:20 final size:20
Alignment explanation
Indices: 165597--165753 Score: 95
Period size: 20 Copynumber: 7.8 Consensus size: 20
165587 CGCAATACAG
* * * *
165597 TTTTCAAATTTGTAACTCAA
1 TTTTCAAATTCGCAACGCGA
*
165617 TTTTGAAATTCGCAACGCGA
1 TTTTCAAATTCGCAACGCGA
*
165637 TTTTCTAAATTCGCAATGC-A
1 TTTTC-AAATTCGCAACGCGA
*
165657 GTTTTCAAATTCGCAACACGA
1 -TTTTCAAATTCGCAACGCGA
** * *
165678 -ACTCTAATTTCTCAACGC-A
1 TTTTC-AAATTCGCAACGCGA
*
165697 GTTTCCAAATTCGCAACGCGA
1 -TTTTCAAATTCGCAACGCGA
* *** *
165718 ATTTCTTTTTAGCAACGCGA
1 TTTTCAAATTCGCAACGCGA
*
165738 TTTTTAAATTCGCAAC
1 TTTTCAAATTCGCAAC
165754 ATAAGTTTCC
Statistics
Matches: 99, Mismatches: 31, Indels: 14
0.69 0.22 0.10
Matches are distributed among these distances:
19 3 0.03
20 76 0.77
21 20 0.20
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TTTTCAAATTCGCAACGCGA
Found at i:165694 original size:61 final size:60
Alignment explanation
Indices: 165580--165712 Score: 142
Period size: 61 Copynumber: 2.2 Consensus size: 60
165570 AACACGATCT
* * * * * *
165580 CAAATTTCGCAATACAGTTTTCAAATTTGTAACTCAATTTTGAAATTCGCAACGCGATTTTC
1 CAAA-TTCGCAATACAGTTTTCAAATTCGCAACACAACTCTGAAATTCGCAACGC-AGTTTC
* * * *
165642 TAAATTCGCAATGCAGTTTTCAAATTCGCAACACGAACTCT-AATTTCTCAACGCAGTTTC
1 CAAATTCGCAATACAGTTTTCAAATTCGCAACAC-AACTCTGAAATTCGCAACGCAGTTTC
165702 CAAATTCGCAA
1 CAAATTCGCAA
165713 CGCGAATTTC
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 15 0.25
61 37 0.63
62 7 0.12
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (60 bp):
CAAATTCGCAATACAGTTTTCAAATTCGCAACACAACTCTGAAATTCGCAACGCAGTTTC
Found at i:165734 original size:40 final size:41
Alignment explanation
Indices: 165617--165753 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 41
165607 TGTAACTCAA
* * * *
165617 TTTTGAAATTCGCAACGCGATTTTCTAAATTCGCAATGCAG
1 TTTTCAAATTCGCAACGCGAATTTCTAATTTCGCAACGCAG
* * *
165658 TTTTCAAATTCGCAACACGAA-CTCTAATTTCTCAACGCAG
1 TTTTCAAATTCGCAACGCGAATTTCTAATTTCGCAACGCAG
* * *
165698 TTTCCAAATTCGCAACGCGAATTTCT-TTTTAGCAACGC-G
1 TTTTCAAATTCGCAACGCGAATTTCTAATTTCGCAACGCAG
*
165737 ATTTTTAAATTCGCAAC
1 -TTTTCAAATTCGCAAC
165754 ATAAGTTTCC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 57 0.72
41 21 0.27
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (41 bp):
TTTTCAAATTCGCAACGCGAATTTCTAATTTCGCAACGCAG
Found at i:165773 original size:40 final size:40
Alignment explanation
Indices: 165704--165813 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
165694 GCAGTTTCCA
* * * * **
165704 AATTCGCAACGCGAATTTCTTTTTAGCAACGCGATTTT-T
1 AATTCGCAACACAAATTTCATTTTCGCAACAAGATTTTCT
* * *
165743 AAATTCGCAACATAAGTTTCCTTTTCGCAACAAGATTTTCT
1 -AATTCGCAACACAAATTTCATTTTCGCAACAAGATTTTCT
*
165784 AATTCGCAACACAAATTTTATTTTCGCAAC
1 AATTCGCAACACAAATTTCATTTTCGCAAC
165814 TCTATTTCCG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 56 0.98
41 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (40 bp):
AATTCGCAACACAAATTTCATTTTCGCAACAAGATTTTCT
Found at i:165782 original size:20 final size:19
Alignment explanation
Indices: 165746--165813 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
165736 GATTTTTAAA
* *
165746 TTCGCAACATAAGTTTCCTT
1 TTCGCAACACAA-TTTTCTT
*
165766 TTCGCAACA-AGATTTTCTAA
1 TTCGCAACACA-ATTTTCT-T
*
165786 TTCGCAACACAAATTTTATT
1 TTCGCAACAC-AATTTTCTT
165806 TTCGCAAC
1 TTCGCAAC
165814 TCTATTTCCG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.15
20 27 0.68
21 6 0.15
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.37
Consensus pattern (19 bp):
TTCGCAACACAATTTTCTT
Found at i:169082 original size:12 final size:12
Alignment explanation
Indices: 169060--169094 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
169050 AAGCAAAAGG
*
169060 AAATCAAAATCA
1 AAATCGAAATCA
*
169072 AAATCGCAATCA
1 AAATCGAAATCA
169084 AAATCGAAATC
1 AAATCGAAATC
169095 TCAATCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.57, C:0.20, G:0.06, T:0.17
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:169084 original size:18 final size:18
Alignment explanation
Indices: 169061--169101 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
169051 AGCAAAAGGA
169061 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCGC
* *
169079 AATCAAAATCGAAATCTC
1 AATCAAAATCAAAATCGC
169097 AATCA
1 AATCA
169102 TAACCGCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (18 bp):
AATCAAAATCAAAATCGC
Found at i:169381 original size:20 final size:20
Alignment explanation
Indices: 169344--169382 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
169334 CTCGATATTC
* * *
169344 AAATTCGGAACTCGAAAATA
1 AAATTCGCAACACAAAAATA
169364 AAATTCGCAACACAAAAAT
1 AAATTCGCAACACAAAAAT
169383 CGCAACGCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (20 bp):
AAATTCGCAACACAAAAATA
Found at i:169444 original size:20 final size:20
Alignment explanation
Indices: 169389--169444 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
169379 AAATCGCAAC
*
169389 GCGAATTTGATTTTCGCGTT
1 GCGAATTTGATTTTCTCGTT
169409 GCGAATTTGATTTTCTCGTT
1 GCGAATTTGATTTTCTCGTT
*
169429 GTGAATTTGATTTTCT
1 GCGAATTTGATTTTCT
169445 TAAAGGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.12, G:0.21, T:0.50
Consensus pattern (20 bp):
GCGAATTTGATTTTCTCGTT
Found at i:170977 original size:21 final size:21
Alignment explanation
Indices: 170935--171088 Score: 82
Period size: 21 Copynumber: 7.3 Consensus size: 21
170925 AGTATGCCAT
* *
170935 GTGGATCCTGAACGGTGAGAG
1 GTGGATCCTGAACGATGGGAG
170956 GTGGATCCTGAACGATGGGAG
1 GTGGATCCTGAACGATGGGAG
* * * *
170977 G-GGCCTCTTTAACGATGAGAG
1 GTGG-ATCCTGAACGATGGGAG
*
170998 G-GG-TCTCTTGAACAATGGGAG
1 GTGGATC-C-TGAACGATGGGAG
* * * **
171019 G-GGCCTCTTTAACGATGACAG
1 GTGG-ATCCTGAACGATGGGAG
* * **
171040 GTGAATCTTGAATAATGGGAG
1 GTGGATCCTGAACGATGGGAG
* *
171061 GTGGATCCTGAACAATGGTAG
1 GTGGATCCTGAACGATGGGAG
171082 GTGGATC
1 GTGGATC
171089 AAGCTTCTTC
Statistics
Matches: 101, Mismatches: 26, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 94 0.93
22 1 0.01
23 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.23
Consensus pattern (21 bp):
GTGGATCCTGAACGATGGGAG
Found at i:171049 original size:42 final size:42
Alignment explanation
Indices: 170945--171061 Score: 153
Period size: 42 Copynumber: 2.8 Consensus size: 42
170935 GTGGATCCTG
* * * *
170945 AACGGTGAGAGGTGGATCCTGAACGATGGGAGGGGCCTCTTT
1 AACGATGAGAGGTGAATCTTGAACAATGGGAGGGGCCTCTTT
* **
170987 AACGATGAGAGGGGTCTCTTGAACAATGGGAGGGGCCTCTTT
1 AACGATGAGAGGTGAATCTTGAACAATGGGAGGGGCCTCTTT
* *
171029 AACGATGACAGGTGAATCTTGAATAATGGGAGG
1 AACGATGAGAGGTGAATCTTGAACAATGGGAGG
171062 TGGATCCTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (42 bp):
AACGATGAGAGGTGAATCTTGAACAATGGGAGGGGCCTCTTT
Found at i:171391 original size:21 final size:20
Alignment explanation
Indices: 171367--171411 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
171357 TCTCACGCAT
*
171367 AGCAGCTACCACATCACATAA
1 AGCAGATACCACA-CACATAA
* *
171388 AGCAGATACCTCACACGTAA
1 AGCAGATACCACACACATAA
171408 AGCA
1 AGCA
171412 CATTGTCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.42, C:0.31, G:0.13, T:0.13
Consensus pattern (20 bp):
AGCAGATACCACACACATAA
Found at i:171507 original size:21 final size:21
Alignment explanation
Indices: 171483--171528 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
171473 TTGTCGTCAT
*
171483 GTAAAGAACCGACCTCATCAC
1 GTAAAGAACCGAACTCATCAC
* *
171504 GTAAAGCACTGAACTCATCAC
1 GTAAAGAACCGAACTCATCAC
171525 GTAA
1 GTAA
171529 CTCCCCTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.17
Consensus pattern (21 bp):
GTAAAGAACCGAACTCATCAC
Done.