Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold238
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: 1453955
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 9
Found at i:9440 original size:20 final size:21
Alignment explanation
Indices: 9411--9485 Score: 93
Period size: 20 Copynumber: 3.7 Consensus size: 21
9401 AAAAAGACAT
9411 AATGTATCGATACATT-ATAA
1 AATGTATCGATACATTCATAA
*
9431 AATATATCGATACATTCAT-A
1 AATGTATCGATACATTCATAA
* * *
9451 CATGTATCGATATATTGA-AA
1 AATGTATCGATACATTCATAA
9471 AATGTATCGATACAT
1 AATGTATCGATACAT
9486 CGGGGTATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTCATAA
Found at i:9473 original size:40 final size:39
Alignment explanation
Indices: 9408--9485 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
9398 GGTAAAAAGA
9408 CATAATGTATCGATACATTATAAAATATATCGATACATT
1 CATAATGTATCGATACATTATAAAATATATCGATACATT
* *
9447 CATACATGTATCGATATATTGA-AAAATGTATCGATACAT
1 CATA-ATGTATCGATACATT-ATAAAATATATCGATACAT
9486 CGGGGTATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 4 0.11
40 30 0.86
41 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTATAAAATATATCGATACATT
Found at i:10206 original size:15 final size:16
Alignment explanation
Indices: 10177--10209 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10167 AATTAGATTT
*
10177 TATTTCATTTTAAAAA
1 TATTTCATTTAAAAAA
10193 TATTT-ATTTAAAAAA
1 TATTTCATTTAAAAAA
10208 TA
1 TA
10210 AAATGATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTCATTTAAAAAA
Found at i:12164 original size:27 final size:27
Alignment explanation
Indices: 12107--12164 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
12097 ACACAACATG
* * ** *
12107 AAAAATAATTAAAATATAATATGATAT
1 AAAAAAAATTAAAATACAATAACATAA
12134 AAAAAAAATTAAAATACAATAACATAA
1 AAAAAAAATTAAAATACAATAACATAA
12161 AAAA
1 AAAA
12165 TAACATGATC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (27 bp):
AAAAAAAATTAAAATACAATAACATAA
Found at i:12678 original size:17 final size:17
Alignment explanation
Indices: 12641--12680 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
12631 TCATTAAATT
*
12641 TTAAAATTTAAAGTATT
1 TTAAAATTTAAAGTATA
12658 TTAAAATTTAAA-TATAA
1 TTAAAATTTAAAGTAT-A
12675 TTAAAA
1 TTAAAA
12681 AATATAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAAATTTAAAGTATA
Found at i:12741 original size:20 final size:19
Alignment explanation
Indices: 12719--12896 Score: 75
Period size: 20 Copynumber: 9.2 Consensus size: 19
12709 TTACAATTTC
12719 AAAAAAATATATAAAAATT
1 AAAAAAATATATAAAAATT
*
12738 CAAAAAAATAAAAATAAAAATT
1 -AAAAAAAT--ATATAAAAATT
*
12760 ATAAAAAATTTA-AAAAACTT
1 A-AAAAAATATATAAAAA-TT
*
12780 -ACAAAATAT-TAAAAATT
1 AAAAAAATATATAAAAATT
* *
12797 AATTAAAAA-CT-TAAAATTT
1 AA--AAAAATATATAAAAATT
* * * *
12816 CAAATATATAAATAAAATTATC
1 -AAAAAAATATATAAAA--ATT
12838 AAAAAAAT-TA-AAAAATT
1 AAAAAAATATATAAAAATT
* * *
12855 GAAAATATATAATTAAAATT
1 AAAAAAATAT-ATAAAAATT
* *
12875 AATAAAGTAT-TAAAAATT
1 AAAAAAATATATAAAAATT
12893 AAAA
1 AAAA
12897 TATTAAATCT
Statistics
Matches: 115, Mismatches: 27, Indels: 34
0.65 0.15 0.19
Matches are distributed among these distances:
17 10 0.09
18 27 0.23
19 18 0.16
20 35 0.30
21 7 0.06
22 18 0.16
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (19 bp):
AAAAAAATATATAAAAATT
Found at i:12754 original size:22 final size:20
Alignment explanation
Indices: 12716--12768 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
12706 AATTTACAAT
*
12716 TTCAAAAAAATATATAAAAA
1 TTCAAAAAAATAAATAAAAA
12736 TTCAAAAAAATAAAAATAAAAA
1 TTCAAAAAAAT--AAATAAAAA
12758 TT-ATAAAAAAT
1 TTCA-AAAAAAT
12769 TTAAAAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.38
21 1 0.03
22 17 0.59
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (20 bp):
TTCAAAAAAATAAATAAAAA
Found at i:12795 original size:9 final size:9
Alignment explanation
Indices: 12721--12903 Score: 52
Period size: 9 Copynumber: 20.3 Consensus size: 9
12711 ACAATTTCAA
12721 AAAAATATAT
1 AAAAATAT-T
*
12731 AAAAAT-TC
1 AAAAATATT
*
12739 AAAAA-AAT
1 AAAAATATT
12747 AAAAATA--
1 AAAAATATT
* *
12754 AAAATTATA
1 AAAAATATT
12763 AAAAAT-TT
1 AAAAATATT
12771 AAAAA-ACTT
1 AAAAATA-TT
12780 ACAAAATATT
1 A-AAAATATT
12790 AAAAATTAATT
1 AAAAA-T-ATT
*
12801 AAAAA-CTT
1 AAAAATATT
12809 -AAAAT-TT
1 AAAAATATT
*
12816 CAAATATATAAAT
1 -AAA-A-AT-ATT
* *
12829 AAAATTATC
1 AAAAATATT
*
12838 AAAAAAATT
1 AAAAATATT
12847 AAAAA-ATT
1 AAAAATATT
*
12855 GAAAATATAT
1 AAAAATAT-T
12865 AATTAAA-ATT
1 AA--AAATATT
12875 AATAAAGTATT
1 AA-AAA-TATT
12886 -AAAA-ATT
1 AAAAATATT
12893 -AAAATATT
1 AAAAATATT
12901 AAA
1 AAA
12904 TCTGAAAAGA
Statistics
Matches: 132, Mismatches: 16, Indels: 51
0.66 0.08 0.26
Matches are distributed among these distances:
7 19 0.14
8 28 0.21
9 39 0.30
10 22 0.17
11 17 0.13
12 6 0.05
13 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATATT
Found at i:12833 original size:38 final size:40
Alignment explanation
Indices: 12791--12904 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 40
12781 CAAAATATTA
* * **
12791 AAAATTAAT-TAAAAACTT-AAAATTTCAAATATATAAAT
1 AAAATTAATCAAAAAAATTAAAAATTGAAAATATATAAAT
*
12829 AAAATT-ATCAAAAAAATTAAAAAATTGAAAATATATAATT
1 AAAATTAATCAAAAAAATT-AAAAATTGAAAATATATAAAT
**
12869 AAAATTAAT--AAAGTATTAAAAATT-AAAATAT-TAAAT
1 AAAATTAATCAAAAAAATTAAAAATTGAAAATATATAAAT
12905 CTGAAAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
36 4 0.06
37 9 0.14
38 20 0.31
39 6 0.09
40 23 0.36
41 2 0.03
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (40 bp):
AAAATTAATCAAAAAAATTAAAAATTGAAAATATATAAAT
Found at i:12864 original size:40 final size:38
Alignment explanation
Indices: 12719--12904 Score: 125
Period size: 38 Copynumber: 4.8 Consensus size: 38
12709 TTACAATTTC
* *
12719 AAAAAAATATATAAAAATTCAAAAAAATAAAAATAAAAATTAT
1 AAAAAAAT-TA-AAAAATT--AAAATATATAAAT-AAAATTAT
* *
12762 AAAAAATTTAAAAAACTTACAAA-ATAT-TA-AAAATTAAT
1 AAAAAAATTAAAAAA-TTA-AAATATATAAATAAAATT-AT
* * * *
12800 TAAAAACTT-AAAATTTCAAATATATAAATAAAATTAT
1 AAAAAAATTAAAAAATTAAAATATATAAATAAAATTAT
*
12837 CAAAAAAATTAAAAAATTGAAAATATATAATTAAAATTA-
1 -AAAAAAATTAAAAAATT-AAAATATATAAATAAAATTAT
**
12876 ATAAAGTATT-AAAAATTAAAATAT-TAAAT
1 A-AAAAAATTAAAAAATTAAAATATATAAAT
12905 CTGAAAAGAA
Statistics
Matches: 117, Mismatches: 16, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
35 3 0.03
36 10 0.09
37 20 0.17
38 30 0.26
39 13 0.11
40 22 0.19
41 8 0.07
42 4 0.03
43 7 0.06
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (38 bp):
AAAAAAATTAAAAAATTAAAATATATAAATAAAATTAT
Found at i:12895 original size:7 final size:8
Alignment explanation
Indices: 12866--13050 Score: 55
Period size: 8 Copynumber: 22.8 Consensus size: 8
12856 AAAATATATA
12866 ATTAAAATT
1 ATTAAAA-T
* *
12875 AATAAAGT
1 ATTAAAAT
12883 ATTAAAA-
1 ATTAAAAT
12890 ATTAAAAT
1 ATTAAAAT
12898 ATT-AAAT
1 ATTAAAAT
* * *
12905 CTGAAAAG
1 ATTAAAAT
*
12913 A--AAAAGA
1 ATTAAAA-T
12920 ATTAAAA-
1 ATTAAAAT
*
12927 ATAAAAAAT
1 AT-TAAAAT
12936 ATTTAAAAT
1 A-TTAAAAT
* *
12945 CTTTAAAT
1 ATTAAAAT
*
12953 -TTCAAAT
1 ATTAAAAT
12960 ATATATAAAT
1 AT-TA-AAAT
*
12970 A--ACAAT
1 ATTAAAAT
* *
12976 ATCAAAAA
1 ATTAAAAT
*
12984 ATTAAAAA
1 ATTAAAAT
12992 ATTGAAAAT
1 ATT-AAAAT
13001 AATTGAAAACT
1 -ATT-AAAA-T
13012 ATATAAAATT
1 AT-TAAAA-T
*
13022 AATAAAAT
1 ATTAAAAT
13030 ATTAAAAT
1 ATTAAAAT
*
13038 -TAAAAAT
1 ATTAAAAT
13045 ATTAAA
1 ATTAAA
13051 TCCGAAAAGA
Statistics
Matches: 133, Mismatches: 25, Indels: 37
0.68 0.13 0.19
Matches are distributed among these distances:
6 8 0.06
7 28 0.21
8 48 0.36
9 25 0.19
10 22 0.17
11 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (8 bp):
ATTAAAAT
Found at i:12897 original size:139 final size:137
Alignment explanation
Indices: 12789--13051 Score: 325
Period size: 147 Copynumber: 1.9 Consensus size: 137
12779 TACAAAATAT
*
12789 TAAAAATTAATTAAAAACTTAAAATTTC-AA-ATATATAAATAA-AATTATCAAAAAAATTAAAA
1 TAAAAAATAATTAAAAACTTAAAATTTCAAATATATATAAATAACAA-TATC-AAAAAATTAAAA
*
12851 AATTGAAAATATATAATTAAAATTAATAAAGTATTAAAAATTAAAATATTAAATCTGAAAAGAAA
64 AATTGAAAATATATAATTAAAATTAATAAAGTATTAAAAATAAAAATATTAAA--T-AAAAGAAA
12916 AAGAATTAAAAA
126 AAGAATTAAAAA
* * *
12928 TAAAAAATATTTAAAATCTTTAAATTTCAAATATATATAAATAACAATATCAAAAAATTAAAAAA
1 TAAAAAATAATTAAAAACTTAAAATTTCAAATATATATAAATAACAATATCAAAAAATTAAAAAA
* * *
12993 TTGAAAATAATTGAAAACTATATAAAATTAATAAAATATTAAAATTAAAAATATTAAAT
66 TTGAAAAT-A-T--ATA--AT-TAAAATTAATAAAGTATTAAAAATAAAAATATTAAAT
13052 CCGAAAAGAA
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
139 24 0.23
140 24 0.23
141 17 0.16
142 3 0.03
144 2 0.02
145 1 0.01
146 2 0.02
147 33 0.31
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (137 bp):
TAAAAAATAATTAAAAACTTAAAATTTCAAATATATATAAATAACAATATCAAAAAATTAAAAAA
TTGAAAATATATAATTAAAATTAATAAAGTATTAAAAATAAAAATATTAAATAAAAGAAAAAGAA
TTAAAAA
Found at i:13021 original size:17 final size:15
Alignment explanation
Indices: 13001--13050 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 15
12991 AATTGAAAAT
*
13001 AATTGAAAACTATATAA
1 AATT-AAAAATAT-TAA
13018 AATTAATAAAATATTAA
1 AATT-A-AAAATATTAA
13035 AATTAAAAATATTAA
1 AATTAAAAATATTAA
13050 A
1 A
13051 TCCGAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 12 0.40
18 6 0.20
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AATTAAAAATATTAA
Found at i:13354 original size:16 final size:17
Alignment explanation
Indices: 13333--13364 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13323 CCTTTTTCCC
13333 TTTTTCC-TTTTCTCTT
1 TTTTTCCTTTTTCTCTT
13349 TTTTTCCTTTTTCTCT
1 TTTTTCCTTTTTCTCT
13365 ACTTCAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCCTTTTTCTCTT
Found at i:13655 original size:19 final size:18
Alignment explanation
Indices: 13613--13683 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
13603 TTTACATATA
* *
13613 TTTTTAAAATTTTAAGACT
1 TTTTTATAATTTTTAGA-T
*
13632 ATTTTAATAATTTTTAGAT
1 -TTTTTATAATTTTTAGAT
13651 TTTTT-TGAATTTTATAGAT
1 TTTTTAT-AATTTT-TAGAT
13670 TTTTTATAATTTTT
1 TTTTTATAATTTTT
13684 TTGAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.02
18 11 0.25
19 17 0.39
20 15 0.34
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTTAGAT
Found at i:13693 original size:21 final size:20
Alignment explanation
Indices: 13668--13715 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
13658 AATTTTATAG
*
13668 ATTTTTTATAATT-TTTTTGA
1 ATTTTTT-TTATTATTTTTGA
*
13688 ATTTTTATTTGTTATTTTTGA
1 ATTTTT-TTTATTATTTTTGA
13709 ATTTTTT
1 ATTTTTT
13716 AATTTTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (20 bp):
ATTTTTTTTATTATTTTTGA
Found at i:13705 original size:22 final size:21
Alignment explanation
Indices: 13680--13764 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 21
13670 TTTTTATAAT
13680 TTTTTTGAATTTTTATTTGTTA
1 TTTTTTGAATTTTTATTT-TTA
13702 -TTTTTGAATTTTTTAATTTTCTATAATA
1 TTTTTTGAA-TTTTT-A--TT-T-T--TA
13730 TTTTTTGAATTTTTATTTTTCA
1 TTTTTTGAATTTTTATTTTT-A
13752 TTTTTTGAATTTT
1 TTTTTTGAATTTT
13765 AAAAAATTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
21 9 0.17
22 19 0.36
23 2 0.04
24 1 0.02
25 4 0.08
26 2 0.04
27 1 0.02
28 7 0.13
29 8 0.15
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTTTTGAATTTTTATTTTTA
Found at i:13760 original size:51 final size:51
Alignment explanation
Indices: 13651--13765 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 51
13641 ATTTTTAGAT
*
13651 TTTTTTGAATTTTATAGATTTTTTATAATTTTTTTGAATTTTTATTTGTTA
1 TTTTTTGAATTTTATAGATTTTCTATAATTTTTTTGAATTTTTATTTGTTA
*
13702 -TTTTTGAATTTTTTA-ATTTTCTATAATATTTTTTGAATTTTTATTT-TTCA
1 TTTTTTGAATTTTATAGATTTTCTATAAT-TTTTTTGAATTTTTATTTGTT-A
13752 TTTTTTGAATTTTA
1 TTTTTTGAATTTTA
13766 AAAAATTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
49 13 0.22
50 33 0.57
51 12 0.21
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (51 bp):
TTTTTTGAATTTTATAGATTTTCTATAATTTTTTTGAATTTTTATTTGTTA
Found at i:16585 original size:32 final size:32
Alignment explanation
Indices: 16549--16622 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
16539 TCTAGTTTAC
*
16549 TTAAAACTTTA-TAAAAATAGAATTGATAAAAT
1 TTAAAA-TTTATTAAAAATAAAATTGATAAAAT
* *
16581 TT-AAATTTATTTAAAGATAAAATTGATAAAGT
1 TTAAAATTTA-TTAAAAATAAAATTGATAAAAT
16613 TT-AAATTTAT
1 TTAAAATTTAT
16623 CTAAGATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 4 0.11
31 4 0.11
32 29 0.78
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (32 bp):
TTAAAATTTATTAAAAATAAAATTGATAAAAT
Found at i:16675 original size:17 final size:18
Alignment explanation
Indices: 16631--16677 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
16621 ATCTAAGATT
*
16631 TTAAATTTTGTAGATAAA
1 TTAAATTTTATAGATAAA
**
16649 TGTATTTTTTATA-ATAAA
1 T-TAAATTTTATAGATAAA
16667 TTAAATTTTAT
1 TTAAATTTTAT
16678 CTGAGCCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TTAAATTTTATAGATAAA
Found at i:18098 original size:17 final size:17
Alignment explanation
Indices: 18076--18110 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18066 GATACTATAT
*
18076 CCTTCCATTCCAACCCA
1 CCTTCCATCCCAACCCA
18093 CCTTCCATCCCAACCCA
1 CCTTCCATCCCAACCCA
18110 C
1 C
18111 TTTAGGGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.57, G:0.00, T:0.20
Consensus pattern (17 bp):
CCTTCCATCCCAACCCA
Found at i:19412 original size:17 final size:17
Alignment explanation
Indices: 19372--19404 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19362 ATCTTTTCAT
*
19372 AAAA-AATATAAAAATA
1 AAAATAATATAATAATA
19388 AAAATAATATAATAATA
1 AAAATAATATAATAATA
19405 TAATTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAATATAATAATA
Found at i:20662 original size:29 final size:30
Alignment explanation
Indices: 20606--20662 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
20596 AAAATCTAGA
* *
20606 AGATAATGTTAGTCATTGTACTTTTTTTTT
1 AGATAATGTTAGTCATTGTACCTATTTTTT
*
20636 AGAT-ATGTTAGTCATTGTTCCTATTTT
1 AGATAATGTTAGTCATTGTACCTATTTT
20663 GTTTTTAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (30 bp):
AGATAATGTTAGTCATTGTACCTATTTTTT
Found at i:27429 original size:21 final size:21
Alignment explanation
Indices: 27405--27449 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27395 ATTTAATAAA
*
27405 ATTTATATTATA-ATATTATAT
1 ATTTAT-TTATATATAATATAT
*
27426 ATTTATTTTTATATAATATAT
1 ATTTATTTATATATAATATAT
27447 ATT
1 ATT
27450 AAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTATTTATATATAATATAT
Found at i:27580 original size:13 final size:13
Alignment explanation
Indices: 27562--27607 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
27552 ATTTTTTTAC
27562 TTAAATTTATTTT
1 TTAAATTTATTTT
27575 TTAAATTTAATATTT
1 TTAAATTT-AT-TTT
27590 TT--ATTTATTTTT
1 TTAAATTTA-TTTT
27602 TTAAAT
1 TTAAAT
27608 ATTAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 6 0.21
13 13 0.46
14 4 0.14
15 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTAAATTTATTTT
Found at i:29713 original size:18 final size:18
Alignment explanation
Indices: 29679--29714 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29669 TCCCATTTGA
**
29679 AATTATCTTTTCTTTCAC
1 AATTATCTTTTAGTTCAC
29697 AATTATCTTTTAGTTCAC
1 AATTATCTTTTAGTTCAC
29715 GACTCAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTATCTTTTAGTTCAC
Found at i:29846 original size:20 final size:20
Alignment explanation
Indices: 29823--29860 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29813 CTTTCCCCTA
29823 CCTTT-TTTCCTTTTTTTTTT
1 CCTTTCTTT-CTTTTTTTTTT
29843 CCTTTCTTTCTTTTTTTT
1 CCTTTCTTTCTTTTTTTT
29861 ATATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
CCTTTCTTTCTTTTTTTTTT
Found at i:31698 original size:28 final size:28
Alignment explanation
Indices: 31666--31806 Score: 127
Period size: 28 Copynumber: 5.3 Consensus size: 28
31656 AATTTTTGAA
*
31666 ATAGAATTTTCACTTGAACTTCTTACAT
1 ATAGAATTTTCAATTGAACTTCTTACAT
* *
31694 ATAGAATTTT-AATTAAACTT-TTACCT
1 ATAGAATTTTCAATTGAACTTCTTACAT
* *
31720 GTAAAATTTTCAATTGAACTTCTTACAT
1 ATAGAATTTTCAATTGAACTTCTTACAT
** **
31748 ATAGAATTTT-AA-T-AA-AAC-TACCC
1 ATAGAATTTTCAATTGAACTTCTTACAT
*
31771 ATAGAATTTTCAAATGAA-TATCTTACAT
1 ATAGAATTTTCAATTGAACT-TCTTACAT
31799 ATAGAATT
1 ATAGAATT
31807 AAAGTACACT
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
23 13 0.15
24 3 0.03
25 3 0.03
26 16 0.18
27 20 0.22
28 34 0.38
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (28 bp):
ATAGAATTTTCAATTGAACTTCTTACAT
Found at i:31766 original size:27 final size:27
Alignment explanation
Indices: 31666--31766 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
31656 AATTTTTGAA
* *
31666 ATAGAATTTTCACTTGAACTTCTTACAT
1 ATAGAATTTT-AATTAAACTTCTTACAT
*
31694 ATAGAATTTTAATTAAACTT-TTACCT
1 ATAGAATTTTAATTAAACTTCTTACAT
* * *
31720 GTAAAATTTTCAATTGAACTTCTTACAT
1 ATAGAATTTT-AATTAAACTTCTTACAT
*
31748 ATAGAATTTTAATAAAACT
1 ATAGAATTTTAATTAAACT
31767 ACCCATAGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
26 13 0.22
27 24 0.40
28 23 0.38
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.43
Consensus pattern (27 bp):
ATAGAATTTTAATTAAACTTCTTACAT
Found at i:31800 original size:51 final size:52
Alignment explanation
Indices: 31666--31806 Score: 187
Period size: 54 Copynumber: 2.7 Consensus size: 52
31656 AATTTTTGAA
* * *
31666 ATAGAATTTTCACTTGAACTTCTTACATATAGAATTTTAATTAAACTTTTACCT
1 ATAGAATTTTCAATTGAACTTCTTACATATAGAATTTTAATAAAAC--TTACCC
* *
31720 GTAAAATTTTCAATTGAACTTCTTACATATAGAATTTTAATAAAAC-TACCC
1 ATAGAATTTTCAATTGAACTTCTTACATATAGAATTTTAATAAAACTTACCC
*
31771 ATAGAATTTTCAAATGAA-TATCTTACATATAGAATT
1 ATAGAATTTTCAATTGAACT-TCTTACATATAGAATT
31807 AAAGTACACT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.01
51 35 0.45
54 42 0.54
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (52 bp):
ATAGAATTTTCAATTGAACTTCTTACATATAGAATTTTAATAAAACTTACCC
Found at i:33492 original size:97 final size:97
Alignment explanation
Indices: 33314--33500 Score: 218
Period size: 97 Copynumber: 1.9 Consensus size: 97
33304 CGATGATGAT
* * * * *
33314 TTAAGCAAAAATAAGGTTTAAATTTTGATGAGTTTAAAATCGGGGTTAGAGTATCCCCTAAGAGG
1 TTAAGCAAAAATAAGGTTTAAATCTTAATAAGTTTAAAATCGAGGTTAGAGTATCCCCTAAGAAG
* *
33379 AATAGGGTTGGTGTATCCCCGATGATAATAAC
66 AATAGGGTTAGAGTATCCCCGATGATAATAAC
* * * *
33411 TTAAGCAAAAATATGGTTTGAATCTTAATAAGTTTAAAAGT-GAGGTTGGAGTATCCCTTATA-A
1 TTAAGCAAAAATAAGGTTTAAATCTTAATAAGTTTAAAA-TCGAGGTTAGAGTATCCCCTA-AGA
*
33474 AGAAT-GAGGTTAGAGTATCCCTGATGA
64 AGAATAG-GGTTAGAGTATCCCCGATGA
33501 ATAAAATTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
96 1 0.01
97 72 0.96
98 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (97 bp):
TTAAGCAAAAATAAGGTTTAAATCTTAATAAGTTTAAAATCGAGGTTAGAGTATCCCCTAAGAAG
AATAGGGTTAGAGTATCCCCGATGATAATAAC
Found at i:35673 original size:20 final size:20
Alignment explanation
Indices: 35648--35699 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
35638 AAAAAAATAG
*
35648 AATGTATCGATATATTGAAA
1 AATGTATCGATATATTCAAA
*
35668 AATGTATCGATATATTCACA
1 AATGTATCGATATATTCAAA
*
35688 CATGTATCGATA
1 AATGTATCGATA
35700 CATTTACTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATATATTCAAA
Found at i:40154 original size:80 final size:78
Alignment explanation
Indices: 40070--40396 Score: 334
Period size: 80 Copynumber: 4.1 Consensus size: 78
40060 CATTCCCCGA
* * * ** *
40070 TGAAAAATTTAATATTTTGGAGATAAAAAT-GGGGTCGGAGTGTCCCCTCAAAAGTAACGGGGTT
1 TGAAAAA-TCAATATTTTAGAAAT-AAAATCGGGGTTAGAGTATCCCCTCAAAA-TAACGGGGTT
* *
40134 GGAGTATCCACAATTG
63 GGAGTATCCCCGATTG
* * * *
40150 TGAAAAATCATTATTTTAGAAATAAAATCGAGGTTAGAGTATCCTCTAGAAAATAACGGGGTTGG
1 TGAAAAATCAATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCT-CAAAATAACGGGGTTGG
40215 AGTATCCCCGATTG
65 AGTATCCCCGATTG
* * *
40229 TGGAAAATCAATGTTTTAGAAATAAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGCTTG
1 TGAAAAATCAATATTTTAGAAAT-AAAATCGGGGTTAGAGTATCCCCTC-AAAATAACGGGGTTG
* *
40294 GAGTATCCTCGATGG
64 GAGTATCCCCGATTG
* * * * * * * * * *
40309 TGAAAAATCAGTGTTTTGGAAATAAAAT-TGGATTGGAGTATCTCCTTAACAATAATGAGGTTGG
1 TGAAAAATCAATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAA-AATAACGGGGTTGG
40373 AGTATCCCCGATTG
65 AGTATCCCCGATTG
40387 TGAAAAATCA
1 TGAAAAATCA
40397 GTGTCTTGAA
Statistics
Matches: 208, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.01
78 52 0.25
79 74 0.36
80 80 0.38
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (78 bp):
TGAAAAATCAATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAATAACGGGGTTGGA
GTATCCCCGATTG
Found at i:40410 original size:158 final size:158
Alignment explanation
Indices: 40092--40413 Score: 393
Period size: 159 Copynumber: 2.0 Consensus size: 158
40082 TATTTTGGAG
* * * *
40092 ATAAAAATGGGGTCGGAGTGTCCCCTCAAAAGTAACGGGGTTGGAGTATCCACAATTGTGAAAAA
1 ATAAAAATGGGGTCAGAGTATCCCCTCAAAAGTAACGGGCTTGGAGTATCCACAATGGTGAAAAA
* * *
40157 TCATTATTTTAGAAATAAAATCGAGGTTAGAGTATCCTCTAGAAAATAACGGGGTTGGAGTATCC
66 TCAGTATTTTAGAAATAAAATCGAGATTAGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCC
* *
40222 CCGATTGTGGAAAATCAATGTTTTAGAA
131 CCGATTGTGAAAAATCAATGTTTGAGAA
* * *
40250 ATAAAAATCGGGGTTAGAGTATCCCCTCGAAAA-TAACGGGCTTGGAGTATCCTCGATGGTGAAA
1 ATAAAAAT-GGGGTCAGAGTATCCCCTC-AAAAGTAACGGGCTTGGAGTATCCACAATGGTGAAA
* * * * * *
40314 AATCAGTGTTTTGGAAATAAAATTG-GATTGGAGTAT-CTCCTTA-ACAATAATGAGGTTGGAGT
64 AATCAGTATTTTAGAAATAAAATCGAGATTAGAGTATCCT-C-TAGAAAATAACGAGGTTGGAGT
*
40376 ATCCCCGATTGTGAAAAATCAGTGTCTTGA-AA
127 ATCCCCGATTGTGAAAAATCAATGT-TTGAGAA
40408 ATAAAA
1 ATAAAA
40414 CTGAGGTTGA
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
157 2 0.01
158 65 0.46
159 69 0.49
160 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (158 bp):
ATAAAAATGGGGTCAGAGTATCCCCTCAAAAGTAACGGGCTTGGAGTATCCACAATGGTGAAAAA
TCAGTATTTTAGAAATAAAATCGAGATTAGAGTATCCTCTAGAAAATAACGAGGTTGGAGTATCC
CCGATTGTGAAAAATCAATGTTTGAGAA
Found at i:40445 original size:51 final size:50
Alignment explanation
Indices: 40364--40531 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 50
40354 TTAACAATAA
* *
40364 TGAGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTCTTGAAAATAAAAC
1 TGAGGTTGGAGTATCCCCGATTGTGAAAAATC-GTGTTTTGGAAATAAAAC
* * * *
40415 TGAGGTTGAAGTATCCCTGATTATGGAAAATCGGTGTTTTGGAAATAAAAC
1 TGAGGTTGGAGTATCCCCGATTGTGAAAAATC-GTGTTTTGGAAATAAAAC
*
40466 -CAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGGAAATAAAAC
1 TGA-GGTTGGAGTATCCCCGATTGTGAAAAATCG-TGTTTTGGAAATAAAAC
*
40517 -CAGGGTTGGAGTATC
1 TGA-GGTTGGAGTATC
40532 ATCTCGAAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
50 2 0.02
51 101 0.98
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
TGAGGTTGGAGTATCCCCGATTGTGAAAAATCGTGTTTTGGAAATAAAAC
Found at i:40594 original size:181 final size:180
Alignment explanation
Indices: 40291--40625 Score: 487
Period size: 181 Copynumber: 1.9 Consensus size: 180
40281 AATAACGGGC
* ** *
40291 TTGGAGTATCCTCGATGGTGAAAAATCAGTGTTTTGGAAATAAAATTGGATTGGAGTATCTCCTT
1 TTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAAACAGGATTGGAGTATCTCCTG
* *
40356 AACAATAATGAGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTCTTGAAAATAAAACTGAGGT
66 AACAATAATGAGGTTGGAGTATCCCCGACTGTGAAAAATCAGTGTCTTGAAAATAAAACCGAGGT
*
40421 TGAAGTATCCCTGATTATGGAAAATCGGTGTTTTGGAAATAAAACCAGGG
131 TGAAGTATCCCCGATTATGGAAAATCGGTGTTTTGGAAATAAAACCAGGG
* *
40471 TTGGAGTATCCCCGATTGTGAAAAATC-GATGTTTTGGAAATAAAACCAGGGTTGGAGTATCAT-
1 TTGGAGTATCCCCGATGGTGAAAAATCAG-TGTTTTGGAAATAAAA-CAGGATTGGAGTATC-TC
* * * *
40534 CTCGAA-AATAATGGGGTTGGAGTATCCTCGACTGTGGAAAATCAGTGTTTTGAAAATAAAACCG
63 CT-GAACAATAATGAGGTTGGAGTATCCCCGACTGTGAAAAATCAGTGTCTTGAAAATAAAACCG
*
40598 AGGTTGGAGTATCCCCGATTATGGAAAA
127 AGGTTGAAGTATCCCCGATTATGGAAAA
40626 AAATTGGTAT
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
179 1 0.01
180 41 0.30
181 92 0.67
182 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (180 bp):
TTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAAACAGGATTGGAGTATCTCCTG
AACAATAATGAGGTTGGAGTATCCCCGACTGTGAAAAATCAGTGTCTTGAAAATAAAACCGAGGT
TGAAGTATCCCCGATTATGGAAAATCGGTGTTTTGGAAATAAAACCAGGG
Found at i:46428 original size:2 final size:2
Alignment explanation
Indices: 46423--46464 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
46413 CTATGATAGC
*
46423 AT AT AT AT AT AT AT AT AT AT AC 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
46465 GATTTTAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46633 original size:26 final size:26
Alignment explanation
Indices: 46581--46633 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46571 TAGATCGGTT
* *
46581 AATTTTATATTTAAAATATATTTTTA
1 AATTTAATATTTAAAATATATTATTA
*
46607 AATTTAATAATTTAATATA-ATTATTA
1 AATTTAAT-ATTTAAAATATATTATTA
46633 A
1 A
46634 GTTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTTAATATTTAAAATATATTATTA
Found at i:47535 original size:19 final size:19
Alignment explanation
Indices: 47491--47546 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
47481 CTGCCAGTTT
**
47491 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
47511 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
47530 CATGTATCGATATAATG
1 CATGTATCGATACAATG
47547 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:47553 original size:32 final size:33
Alignment explanation
Indices: 47512--47576 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
47502 ACAATTGTGC
*
47512 ATGTATCGATACAATG-A-ACATGTATCGATATA
1 ATGTATCGATACAAAGCATA-ATGTATCGATATA
47544 ATGTATCGATACAAAGCATAATGTATCGATATA
1 ATGTATCGATACAAAGCATAATGTATCGATATA
47577 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATATA
Found at i:48184 original size:44 final size:44
Alignment explanation
Indices: 48134--48217 Score: 168
Period size: 44 Copynumber: 1.9 Consensus size: 44
48124 TTTTCGTTAA
48134 AAAATTTTCTCCCCCTTGATAAAAATTTATTTTCAAAAATGTTG
1 AAAATTTTCTCCCCCTTGATAAAAATTTATTTTCAAAAATGTTG
48178 AAAATTTTCTCCCCCTTGATAAAAATTTATTTTCAAAAAT
1 AAAATTTTCTCCCCCTTGATAAAAATTTATTTTCAAAAAT
48218 TTCTCCCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (44 bp):
AAAATTTTCTCCCCCTTGATAAAAATTTATTTTCAAAAATGTTG
Found at i:50067 original size:13 final size:13
Alignment explanation
Indices: 50049--50074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50039 AGTAACCTTA
50049 GTATCGATACATT
1 GTATCGATACATT
50062 GTATCGATACATT
1 GTATCGATACATT
50075 TGGGTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:54915 original size:93 final size:95
Alignment explanation
Indices: 54521--55264 Score: 901
Period size: 96 Copynumber: 7.8 Consensus size: 95
54511 TTACATAGAT
* * * * *
54521 AGGTTCAAGTAATTTTATTAAGATACTATGCTTCTTTAACCCAAAAAGAAGAATAATTGATAATA
1 AGGTTCAAGGAATTTTATTAAGATACTATGTTTCTTTGACCTAAAAA-AAG---AATTGAAAATA
* ** *
54586 ATTTCTTTATTACATTGATACAAAGATGCAATGA
62 ATTTCTTTATTACATGGATATGAAGATGCAGTGA
* * *
54620 AGGTTCAAGGAACTTTATTAAGATTCTATGTTTCTTTGACATAACAAAAAGAATTGAAAATAATT
1 AGGTTCAAGGAATTTTATTAAGATACTATGTTTCTTTGACCTAA-AAAAAGAATTGAAAATAATT
* * *
54685 TCTTTATTATATGGATAGGAAGATACAGTGA
65 TCTTTATTACATGGATATGAAGATGCAGTGA
* ** *
54716 AGGTGCATA-GAATTTTATTAAGATTTTATGTTTCTTTGACCTAAAAAAAAGAATTAAAAATAAT
1 AGGTTCA-AGGAATTTTATTAAGATACTATGTTTCTTTGACCT-AAAAAAAGAATTGAAAATAAT
* **
54780 TTCTTTATTACATAGATATGAAGATATAGTGA
64 TTCTTTATTACATGGATATGAAGATGCAGTGA
* *
54812 AGGTTCAAGGAATTTTATTAAGATACTATGTTTGTTTGACCT-AAAAAA-AATTGACAATAATTT
1 AGGTTCAAGGAATTTTATTAAGATACTATGTTTCTTTGACCTAAAAAAAGAATTGAAAATAATTT
54875 CTTTATTACATGGATATGAAGATGCAGTGA
66 CTTTATTACATGGATATGAAGATGCAGTGA
* *
54905 AGGTTTAAGGAATTTTATTAAGATACTATATTTCTTTGACCTAAAAAAAGAATTGAAAATAATTT
1 AGGTTCAAGGAATTTTATTAAGATACTATGTTTCTTTGACCTAAAAAAAGAATTGAAAATAATTT
* *
54970 CTTTATTACGTGGATATGAAGATACCA-TGA
66 CTTTATTACATGGATATGAAGAT-GCAGTGA
* *
55000 AGGTTCAAGGAATTTTATTAGGATACTATGTTTCTTTGACCCAAAAAGAAGAAGAATT-AACAAT
1 AGGTTCAAGGAATTTTATTAAGATACTATGTTTCTTTGA-CC-TAAA-AA-AAGAATTGAA-AAT
55064 AATTTCTTTATTACATGGATATGAAGATGCAGTGA
61 AATTTCTTTATTACATGGATATGAAGATGCAGTGA
* * * * *
55099 AGGTTGAAGGAATTTTATTAAGATTCTATGTTTTTTTTTA-C-ATAAAAA-AATTGAAAATAATT
1 AGGTTCAAGGAATTTTATTAAGATACTATG-TTTCTTTGACCTAAAAAAAGAATTGAAAATAATT
* *
55161 TCTTTATTATATGGATATGAAGATGCCGTGA
65 TCTTTATTACATGGATATGAAGATGCAGTGA
* * ** * *
55192 AGGTGCAATGAATTTTATTAAGATTTTTATGTTTTTTTGACCTAAAAAAAGAATTAAAAATAATT
1 AGGTTCAAGGAATTTTATTAAGA-TACTATGTTTCTTTGACCTAAAAAAAGAATTGAAAATAATT
*
55257 TTTTTATT
65 TCTTTATT
55265 TGATAGGTTA
Statistics
Matches: 566, Mismatches: 60, Indels: 41
0.85 0.09 0.06
Matches are distributed among these distances:
93 147 0.26
94 23 0.04
95 84 0.15
96 182 0.32
97 6 0.01
98 7 0.01
99 107 0.19
100 10 0.02
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (95 bp):
AGGTTCAAGGAATTTTATTAAGATACTATGTTTCTTTGACCTAAAAAAAGAATTGAAAATAATTT
CTTTATTACATGGATATGAAGATGCAGTGA
Found at i:58158 original size:1 final size:1
Alignment explanation
Indices: 58152--58244 Score: 78
Period size: 1 Copynumber: 93.0 Consensus size: 1
58142 TATTATTCAC
* * ** * * * **
58152 TTTTTTTTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
58217 TTTTTTGTTTTGTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
58245 CCTATTGCCA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (1 bp):
T
Found at i:58201 original size:32 final size:33
Alignment explanation
Indices: 58152--58247 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 33
58142 TATTATTCAC
58152 TTTTTTT-TTTTGTTTTTTTTTTCTTTTTCCTT
1 TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
58184 TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCC-T
1 TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
58216 TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCT
1 TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCT
58248 ATTGCCATGC
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 39 0.63
33 23 0.37
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.85
Consensus pattern (33 bp):
TTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
Found at i:66984 original size:93 final size:97
Alignment explanation
Indices: 66780--67009 Score: 362
Period size: 93 Copynumber: 2.4 Consensus size: 97
66770 GACCACCTCA
*
66780 TTATTACATGGATATGAAGATG-AGTGAAGGTTCAAAGAATTTTATTAAGATACTATGTTTTTCT
1 TTATTACATGGATATGAAGATGCAGTGAAGGTTCAAGGAATTTTATTAAGATACTATG-TTTTCT
*
66844 TTGACCTTAAAAAAAGATTTGACAATAATTTTT
65 TTGACCTTAAAAAAAGATTTGACAATAATTTCT
*
66877 TTATTACATGGATATGAAGATGCAGTGAAGGTTCAAGGAGTTTTATTAAGATACTATG-TTTCTT
1 TTATTACATGGATATGAAGATGCAGTGAAGGTTCAAGGAATTTTATTAAGATACTATGTTTTCTT
*
66941 TGACC-TAAAAATA-A-TTGACAATAATTTCT
66 TGACCTTAAAAAAAGATTTGACAATAATTTCT
* *
66970 TTATTACATGGATATGAAAATGCAGTGAAAGTTCAAGGAA
1 TTATTACATGGATATGAAGATGCAGTGAAGGTTCAAGGAA
67010 GCGAAAGAAA
Statistics
Matches: 125, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
93 51 0.41
94 1 0.01
95 7 0.06
96 11 0.09
97 22 0.18
98 33 0.26
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (97 bp):
TTATTACATGGATATGAAGATGCAGTGAAGGTTCAAGGAATTTTATTAAGATACTATGTTTTCTT
TGACCTTAAAAAAAGATTTGACAATAATTTCT
Found at i:67061 original size:57 final size:57
Alignment explanation
Indices: 66965--67078 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 57
66955 TTGACAATAA
* *
66965 TTTCTTTATTACATGGATATGAAAATGCAGTGAAAGTTCAAGGAAGCGAAAGAAATG
1 TTTCTTTATTACATGGATATGAAAATGCAATGAAAGTTCAAGAAAGCGAAAGAAATG
* * * *
67022 TTTCTTTATTGCATGGATGTGAAGATGCAAT-AAAGGTTCAAGAAAGTGAAAGAAATG
1 TTTCTTTATTACATGGATATGAAAATGCAATGAAA-GTTCAAGAAAGCGAAAGAAATG
67079 CTTCAACAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
56 3 0.06
57 47 0.94
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (57 bp):
TTTCTTTATTACATGGATATGAAAATGCAATGAAAGTTCAAGAAAGCGAAAGAAATG
Found at i:67307 original size:33 final size:33
Alignment explanation
Indices: 67253--67335 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
67243 TCATTAATTT
* * *
67253 TTTTAAATGCTAAAATTTTATCA-CTATATTTTTAA
1 TTTTAAA-G-TAAATTTTTATCATC-ATATTGTAAA
67288 TTTTAAAGTAAATTTTTATCATCATATTGTAAA
1 TTTTAAAGTAAATTTTTATCATCATATTGTAAA
* *
67321 TTTTGAATTAAATTT
1 TTTTAAAGTAAATTT
67336 ATTCATAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 33 0.79
34 2 0.05
35 7 0.17
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (33 bp):
TTTTAAAGTAAATTTTTATCATCATATTGTAAA
Found at i:71082 original size:27 final size:27
Alignment explanation
Indices: 71031--71100 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
71021 TTATATTTAT
* *
71031 ATTAT-TATATTTATAATTACAATT-A
1 ATTATATATAATTATAATTAAAATTAA
71056 ATTATATATAATTATATATTAAAATTAA
1 ATTATATATAATTATA-ATTAAAATTAA
71084 ATTATA-ATAATT-TAATT
1 ATTATATATAATTATAATT
71101 GGTTATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 8 0.20
26 11 0.28
27 14 0.35
28 7 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTATATATAATTATAATTAAAATTAA
Found at i:71100 original size:32 final size:32
Alignment explanation
Indices: 71028--71100 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
71018 AAGTTATATT
* * *
71028 TATATTATTATATTTATAATTACAATTAATTA
1 TATATAATTATATTTAAAATTACAATTAAATA
71060 TATATAATTATATATTAAAATTA-AATTATAATA
1 TATATAATTATAT-TTAAAATTACAATTA-AATA
*
71093 -ATTTAATT
1 TATATAATT
71101 GGTTATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATAATTATATTTAAAATTACAATTAAATA
Found at i:72665 original size:20 final size:19
Alignment explanation
Indices: 72642--72696 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
72632 TCAATTAAAA
72642 AATTATTATTTTTATTAATT
1 AATTATTATTTTTATT-ATT
* *
72662 AATTATTTTATTTTATTTTT
1 AATTATTAT-TTTTATTATT
*
72682 AATGATGTATTTTTA
1 AATTAT-TATTTTTA
72697 AGAAGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
AATTATTATTTTTATTATT
Found at i:73460 original size:31 final size:28
Alignment explanation
Indices: 73418--73481 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
73408 AAAAATTTTG
*
73418 AAAA-TCATGAATAAATATAAAATATTTAAT
1 AAAATTCATGAAT--ATATAAAATATAT-AT
*
73448 AAAATTCATGAATATGTAAAATATATAT
1 AAAATTCATGAATATATAAAATATATAT
73476 AAAATT
1 AAAATT
73482 TTAAATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 8 0.26
29 11 0.35
30 4 0.13
31 8 0.26
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (28 bp):
AAAATTCATGAATATATAAAATATATAT
Found at i:81263 original size:60 final size:60
Alignment explanation
Indices: 81198--81363 Score: 255
Period size: 60 Copynumber: 2.8 Consensus size: 60
81188 ATAAATCATC
* * *
81198 AATCATGCATTTAATTACTTTAGATTTGGTTTTGATTTAAATTTTAAAATAATTATAATG
1 AATCATGCATTTAATTATTTTAAATTTGGTTTTGATTTAAATTTTAAAATAATTAGAATG
*
81258 AATCATGCATTTAATTATTTTAAATTTAGTTTTGATTTAAATTTTAAAATAATTAGAATG
1 AATCATGCATTTAATTATTTTAAATTTGGTTTTGATTTAAATTTTAAAATAATTAGAATG
* * *
81318 AATTATGCATTT-ATTATTTTAAATTTGATTTT-ATTTAAAATTTAAA
1 AATCATGCATTTAATTATTTTAAATTTGGTTTTGATTTAAATTTTAAA
81364 TCTTAAACAT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
58 13 0.13
59 18 0.18
60 67 0.68
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.50
Consensus pattern (60 bp):
AATCATGCATTTAATTATTTTAAATTTGGTTTTGATTTAAATTTTAAAATAATTAGAATG
Found at i:82282 original size:21 final size:22
Alignment explanation
Indices: 82247--82287 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
82237 TGTCCAATTC
82247 TAATTTTTCTTA-TTTATTTAT
1 TAATTTTTCTTATTTTATTTAT
82268 TAATTTTT-TTAATTTTATTT
1 TAATTTTTCTT-ATTTTATTT
82288 CTTCATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TAATTTTTCTTATTTTATTTAT
Found at i:85395 original size:18 final size:17
Alignment explanation
Indices: 85374--85407 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
85364 TGGAGTCAAA
85374 GAAAATTAAATAATGAAT
1 GAAAATTAAAT-ATGAAT
*
85392 GAAAGTTAAATATGAA
1 GAAAATTAAATATGAA
85408 ACTAGTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (17 bp):
GAAAATTAAATATGAAT
Found at i:86003 original size:3 final size:3
Alignment explanation
Indices: 85995--86025 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
85985 AAGTTTAGAA
85995 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
86026 TTTATAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87191 original size:18 final size:18
Alignment explanation
Indices: 87148--87191 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
87138 ATAACTAAAT
* *
87148 TTAAAAATTTAAAAATAT
1 TTAAAAATTCAAAAATAA
* *
87166 TTATAAATTCAAATATAA
1 TTAAAAATTCAAAAATAA
87184 TTAAAAAT
1 TTAAAAAT
87192 ATAATAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAAATTCAAAAATAA
Found at i:87428 original size:17 final size:18
Alignment explanation
Indices: 87402--87440 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
87392 ATCTGAAAAG
* *
87402 AAAAAGAATTAATAA-TT
1 AAAAAAAATTAAAAACTT
87419 AAAAAAAATTAAAAACTT
1 AAAAAAAATTAAAAACTT
87437 AAAA
1 AAAA
87441 TTTCAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAAAAATTAAAAACTT
Found at i:87540 original size:124 final size:124
Alignment explanation
Indices: 87313--87540 Score: 349
Period size: 124 Copynumber: 1.8 Consensus size: 124
87303 TAAAAAAATC
*
87313 AAAATTTCAAATATATAAATAAGAAATCAAAAAATAAAAAATAATTGAAAATATATAATTAAAAT
1 AAAATTTCAAATATATAAATAAAAAATCAAAAAATAAAAAATAATTGAAAATATATAATTAAAAT
* *
87378 TAATAAAGTATTAAATCTGAAAAGAAAAAGAATTAATAATTAAAAAAAATTAAAAACTT
66 TAATAAAATATTAAATCTGAAAAGAAAAAGAATGAATAATTAAAAAAAATTAAAAACTT
87437 AAAATTTCAAATATATATGAATAAAAATATCAAAAAAATAAAAAATAATTG-AAA-ATAT-A-TA
1 AAAATTTCAAATATATA--AATAAAAA-ATC-AAAAAATAAAAAATAATTGAAAATATATAATTA
87498 AAATTAATAAAATATTAAATCTGAAAAGAAAAAGAGA-GAATAA
62 AAATTAATAAAATATTAAATCTGAAAAGAAAAAGA-ATGAATAA
87541 AAAGAAATGG
Statistics
Matches: 96, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
124 58 0.60
125 2 0.02
126 11 0.11
127 6 0.06
128 19 0.20
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (124 bp):
AAAATTTCAAATATATAAATAAAAAATCAAAAAATAAAAAATAATTGAAAATATATAATTAAAAT
TAATAAAATATTAAATCTGAAAAGAAAAAGAATGAATAATTAAAAAAAATTAAAAACTT
Found at i:87956 original size:23 final size:24
Alignment explanation
Indices: 87928--87982 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
87918 TTTTCCTCTC
87928 TCTTCCTTTC-CTTTCATCTTTT-T
1 TCTTCCTTTCTC-TTCATCTTTTCT
* *
87951 TTTTCCTTTCTCTTCTTCTTTTCT
1 TCTTCCTTTCTCTTCATCTTTTCT
87975 TCTTCCTT
1 TCTTCCTT
87983 CTTCTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTCCTTTCTCTTCATCTTTTCT
Found at i:87972 original size:18 final size:18
Alignment explanation
Indices: 87923--87997 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
87913 ACCTTTTTTC
*
87923 CTCTCTCTTCCTTTCCTTT
1 CTCT-TCTTCTTTTCCTTT
*
87942 CATCTT-TTTTTTTCCTTT
1 C-TCTTCTTCTTTTCCTTT
*
87960 CTCTTCTTCTTTTCTTCTT
1 CTCTTCTTCTTTTCCT-TT
87979 C-CTTCTTCTATTTTCCTTT
1 CTCTTCTTC--TTTTCCTTT
87998 TTTTTTTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
17 4 0.09
18 26 0.57
19 7 0.15
20 9 0.20
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (18 bp):
CTCTTCTTCTTTTCCTTT
Found at i:88026 original size:7 final size:7
Alignment explanation
Indices: 88001--88064 Score: 51
Period size: 8 Copynumber: 8.7 Consensus size: 7
87991 TTCCTTTTTT
88001 TTTTTCAA
1 TTTTT-AA
88009 TTTTTAA
1 TTTTTAA
88016 -TTTTAA
1 TTTTTAA
88022 TTTTT-A
1 TTTTTAA
*
88028 TTAATTATA
1 TT-TTTA-A
*
88037 TTTATATA
1 TTTTTA-A
88045 TTTTTAA
1 TTTTTAA
88052 TTTTTTAA
1 -TTTTTAA
88060 TTTTT
1 TTTTT
88065 TATGTTCTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
6 9 0.19
7 14 0.30
8 21 0.45
9 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTTAA
Found at i:88065 original size:8 final size:8
Alignment explanation
Indices: 88000--88224 Score: 59
Period size: 9 Copynumber: 25.6 Consensus size: 8
87990 TTTCCTTTTT
88000 TTTTTTCAA
1 TTTTTT-AA
88009 -TTTTTAA
1 TTTTTTAA
88016 --TTTTAA
1 TTTTTTAA
88022 TTTTTATTAA
1 -TTTT-TTAA
88032 TTATATTTATA
1 TT-T-TTTA-A
88043 TATTTTTAA
1 T-TTTTTAA
88052 TTTTTTAA
1 TTTTTTAA
88060 TTTTTT-A
1 TTTTTTAA
88067 TGTTCTTATATA
1 T-TT-TT-TA-A
88079 TATTTTTAAA
1 T-TTTTT-AA
* *
88089 ATTTTAAGA
1 TTTTTTA-A
88098 TTATTTTAA
1 TT-TTTTAA
88107 TAAATTTTTGAA
1 T---TTTTT-AA
*
88119 TTTTTAAA
1 TTTTTTAA
*
88127 TGCTTTTTAT
1 T--TTTTTAA
88137 TTTTTTGAA
1 TTTTTT-AA
*
88146 TTTTATAGA
1 TTTTTTA-A
*
88155 TTTTTAAA
1 TTTTTTAA
88163 TTTTTTTAA
1 -TTTTTTAA
*
88172 ATTTTT-A
1 TTTTTTAA
*
88179 -TTGTT-A
1 TTTTTTAA
*
88185 TTTTTAAAA
1 TTTTT-TAA
*
88194 TTTTATATA
1 TTTTTTA-A
88203 TTTTTATAA
1 TTTTT-TAA
*
88212 TTTTTAAA
1 TTTTTTAA
88220 TTTTT
1 TTTTT
88225 GTTTTTATTT
Statistics
Matches: 165, Mismatches: 21, Indels: 61
0.67 0.09 0.25
Matches are distributed among these distances:
6 11 0.07
7 8 0.05
8 44 0.27
9 55 0.33
10 27 0.16
11 11 0.07
12 9 0.05
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (8 bp):
TTTTTTAA
Found at i:88199 original size:48 final size:48
Alignment explanation
Indices: 88133--88245 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
88123 TAAATGCTTT
**
88133 TTATTTTTTTGAATTTTATAGATTTTTA-AATTTTTTTAAATTTTTATTG
1 TTATTTTTTAAAATTTTATAGATTTTTATAA--TTTTTAAATTTTTATTG
* * *
88182 TTA-TTTTTAAAATTTTATATATTTTTATAATTTTTAAATTTTTGTTT
1 TTATTTTTTAAAATTTTATAGATTTTTATAATTTTTAAATTTTTATTG
*
88229 TTATTTTTTATAATTTT
1 TTATTTTTTAAAATTTT
88246 TTTTGAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 18 0.32
48 33 0.59
49 5 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (48 bp):
TTATTTTTTAAAATTTTATAGATTTTTATAATTTTTAAATTTTTATTG
Found at i:88255 original size:21 final size:21
Alignment explanation
Indices: 88212--88256 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88202 ATTTTTATAA
**
88212 TTTTTAAATTTTTGTTTTTAT
1 TTTTTAAATTTTTGTTTGAAT
88233 TTTTTATAATTTTT-TTTGAAT
1 TTTTTA-AATTTTTGTTTGAAT
88254 TTT
1 TTT
88257 GAATTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTAAATTTTTGTTTGAAT
Found at i:88262 original size:48 final size:47
Alignment explanation
Indices: 88100--88265 Score: 119
Period size: 48 Copynumber: 3.5 Consensus size: 47
88090 TTTTAAGATT
* * * *
88100 ATTTTA-ATAAATTTTTGAATTTTTAAATGCTTT-TTATT-TTTTT-GA
1 ATTTTATAT-AATTTTAGAATTTTTAAAT-TTTTATTGTTATTTTTAAA
* *
88145 ATTTTATAGATTTTTA-AATTTTTTTAAATTTTTATTGTTATTTTTAAA
1 ATTTTATATAATTTTAGAA--TTTTTAAATTTTTATTGTTATTTTTAAA
* * * * *
88193 ATTTTATATATTTTTATAATTTTTAAATTTTTGTTTTTATTTTTTATA
1 ATTTTATATAATTTTAGAATTTTTAAATTTTTATTGTTA-TTTTTAAA
* *
88241 ATTTTTTTTGAATTTT-GAATTTTTA
1 ATTTTATAT-AATTTTAGAATTTTTA
88266 GTTTTCAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
44 2 0.02
45 14 0.14
46 14 0.14
47 23 0.23
48 38 0.39
49 7 0.07
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (47 bp):
ATTTTATATAATTTTAGAATTTTTAAATTTTTATTGTTATTTTTAAA
Found at i:89282 original size:20 final size:20
Alignment explanation
Indices: 89257--89328 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
89247 TACCCAGATA
89257 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * **
89277 TATCGATACATGTATGGATG
1 TATCGATACATTTTTCAATG
* *
89297 TGTCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
89317 TATCGATACATT
1 TATCGATACATT
89329 CTGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:91927 original size:97 final size:97
Alignment explanation
Indices: 91678--91918 Score: 421
Period size: 97 Copynumber: 2.5 Consensus size: 97
91668 TTAAAAAACA
* *
91678 GGGTTGGAGTATCCCCTCAGAGGAAT-GGGTTGGAGTGTCCCCGATGATGACAATTTAAGAGAGA
1 GGGTTGGAGTATCCCCTCGGAAGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGAGAGA
*
91742 ATGAGATTTAAACTTTGACGAGTTTAAAAGCG
66 ATGAGATTTAAACTTTAACGAGTTTAAAAGCG
* *
91774 GGGTTGGAGTATCCCCTCGGAAGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTGAGCGAGA
1 GGGTTGGAGTATCCCCTCGGAAGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGAGAGA
91839 ATGAGATTTAAACTTTAACGAGTTTAAAAGCG
66 ATGAGATTTAAACTTTAACGAGTTTAAAAGCG
*
91871 GGGTTGGAGTATCCCCTCGGAAGAATGGGGTTGGAGTATCCCCGATGA
1 GGGTTGGAGTATCCCCTCGGAAGAATGGGGTTGGAGTGTCCCCGATGA
91919 ATAAAATTTT
Statistics
Matches: 138, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
96 24 0.17
97 114 0.83
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCTCGGAAGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGAGAGA
ATGAGATTTAAACTTTAACGAGTTTAAAAGCG
Found at i:97502 original size:21 final size:21
Alignment explanation
Indices: 97476--97523 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
97466 CAAAAAATGA
*
97476 AAAAAAATGCAA-AAGCAAAAT
1 AAAAAAAGGCAACAA-CAAAAT
*
97497 AAAAAAAGGGAACAACAAAAT
1 AAAAAAAGGCAACAACAAAAT
97518 AAAAAA
1 AAAAAA
97524 CGAGGACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAAAGGCAACAACAAAAT
Found at i:98908 original size:27 final size:27
Alignment explanation
Indices: 98837--99027 Score: 274
Period size: 27 Copynumber: 7.0 Consensus size: 27
98827 TGGCATTTCT
*
98837 TTTTAAAGTACACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
98865 TTTTAAAGTCCACAACTTCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
98893 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
98920 TTTTAAGTCCATAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
98947 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* **
98975 TTTTAAGTCCACAACTCTGTGGCATTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
99002 TTTTAAGTCCACAACTCTGTGGCACC
1 TTTTAAGTCCACAACTCCGTGGCACC
99028 TTTCAAAGCC
Statistics
Matches: 148, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 93 0.63
28 55 0.37
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:98952 original size:82 final size:80
Alignment explanation
Indices: 98812--99042 Score: 300
Period size: 82 Copynumber: 2.8 Consensus size: 80
98802 GACCTCTTCA
* *
98812 AAGTCCACAATTCAGTGGCATTTCTTTTTAAAGTACACAACTCCGTGGCACCCTTTTAAAGTCCA
1 AAGTCCACAACTCAGTGGCA---CTTTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCA
*
98877 CAACTTCGTGGCACCCTTTT
61 CAACTCCGTGGCACCCTTTT
* *
98897 AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCATAACTCCGTGGCACTCTTTTAAAGTCCACAA
1 AAGTCCACAACTCAGTGGCA-CTTTTTAAGTCCACAACTCCGTGGCAC-CTTTTAAAGTCCACAA
98962 CTCCGTGGCACCCTTTT
64 CTCCGTGGCACCCTTTT
* * * * *
98979 AAGTCCACAACTCTGTGGCATTCTTTTAAGTCCACAACTCTGTGGCACCTTTCAAAGCCCACAA
1 AAGTCCACAACTCAGTGGCACT-TTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAA
99043 GTCAGTAGCA
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
81 16 0.12
82 92 0.70
83 6 0.05
85 18 0.14
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (80 bp):
AAGTCCACAACTCAGTGGCACTTTTTAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCACAACT
CCGTGGCACCCTTTT
Found at i:99081 original size:56 final size:56
Alignment explanation
Indices: 98808--99817 Score: 1120
Period size: 56 Copynumber: 17.9 Consensus size: 56
98798 CTGTGACCTC
* * * * ** * * *
98808 TTCAAAGTCCACAATTCAGTGGCATTTCTTTTTAAAGTACACAACTCCGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA--TCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * * * *
98866 TTTAAAGTCCACAACTTC-GTGGCACCCTTT-TAAGTCCACAACTCCGTGGCA-CCT
1 TTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
** * * * * * * * * *
98920 TTTTAAGTCCATAACTCCGTGGCA-CTCTTTTAAAGTCCACAACTCCGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * * * * *
98976 TT-TAAGTCCACAACTCTGTGGCATTCTTT-TAAGTCCACAACTCTGTGGCA-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
99029 TTCAAAGCCCACAAGTCAGTAGCATCCTTCTCAAAGCCCATAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
99085 TTCCAAAGCCAACAAGTCAGTGGCATCCTTTCAAAACCCACAAGTTAGTGGCATCAT
1 TT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
99142 TTTAAAGTCCACAAGTCAGTGGCATCTTTTCAAAACCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
*
99198 TTCAAAGCCCACAAGTCAGTGGCATCATTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
99255 TTCAAAGCCCATAAGTTAGTGGCATCATTTTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
99312 TTCAAAGCCAACAAGTTAGTAGCATCCTTTCAAAACCCACAAGTTAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
99368 TTTAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
99424 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
99480 TTCAAAGCCCACAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTTAGTGGCATCATT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-CT
*
99537 TTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
99593 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCATAAGTCAGCGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * *
99649 TTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
99707 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
99764 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGCA
99818 ACCCTTTTCA
Statistics
Matches: 844, Mismatches: 87, Indels: 41
0.87 0.09 0.04
Matches are distributed among these distances:
53 8 0.01
54 64 0.08
55 65 0.08
56 397 0.47
57 223 0.26
58 68 0.08
59 19 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:99101 original size:28 final size:27
Alignment explanation
Indices: 98938--99817 Score: 999
Period size: 28 Copynumber: 31.2 Consensus size: 27
98928 CCATAACTCC
* * * *
98938 GTGGCACTCTTTTAAAGTCCACAACTCC
1 GTGGCA-TCTTTCAAAGCCCACAAGTCA
* * * * *
98966 GTGGCACCCTTT-TAAGTCCACAACTCT
1 GTGGCA-TCTTTCAAAGCCCACAAGTCA
* * * *
98993 GTGGCATTCTTT-TAAGTCCACAACTCT
1 GTGGCA-TCTTTCAAAGCCCACAAGTCA
*
99020 GTGGCACCTTTCAAAGCCCACAAGTCA
1 GTGGCATCTTTCAAAGCCCACAAGTCA
* *
99047 GTAGCATCCTTCTCAAAGCCCATAAGTCA
1 GTGGCAT-CTT-TCAAAGCCCACAAGTCA
*
99076 GTGGCATCTTTCCAAAGCCAACAAGTCA
1 GTGGCATCTTT-CAAAGCCCACAAGTCA
* *
99104 GTGGCATCCTTTCAAAACCCACAAGTTA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
* *
99132 GTGGCATCATTTTAAAGTCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
*
99160 GTGGCATCTTTTCAAAACCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
99188 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
99216 GTGGCATCATTTTCAAAGCCCACAAGTCA
1 GTGGCATC--TTTCAAAGCCCACAAGTCA
* *
99245 GTGGCATCCTTTCAAAGCCCATAAGTTA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
*
99273 GTGGCATCATTTTTAAAGCCCACAAGTCA
1 GTGGCATC--TTTCAAAGCCCACAAGTCA
* *
99302 GTGGCATCCTTTCAAAGCCAACAAGTTA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
* * *
99330 GTAGCATCCTTTCAAAACCCACAAGTTA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
*
99358 GTGGCATCATTTTAAAGCCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
99386 GTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
99414 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
99442 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
99470 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
* *
99498 GTGGTATCCTTTCAAAGCCCACAAGTTA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
*
99526 GTGGCATCATTTTTAAAGCCCACAAGTCA
1 GTGGCATC--TTTCAAAGCCCACAAGTCA
99555 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
99583 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
* *
99611 GTGGCACCTTTTCAAAGCCCATAAGTCA
1 GTGGCATC-TTTCAAAGCCCACAAGTCA
* * *
99639 GCGGCATCCTTTCAAAGCCCACGAGTCG
1 GTGGCAT-CTTTCAAAGCCCACAAGTCA
*
99667 GTGGCAACTCTTTTCAAAGCCCATAAGTCA
1 GTGGC-A-TC-TTTCAAAGCCCACAAGTCA
* *
99697 GTGGTACCCTTTCAAAGCCCACAAGTCA
1 GTGGCA-TCTTTCAAAGCCCACAAGTCA
*
99725 GTGGCACCCTTTCAAAGCCCACAAGTCA
1 GTGGCA-TCTTTCAAAGCCCACAAGTCA
*
99753 GTGGCATTCTTTTCAAAGCCCACAAGTTA
1 GTGGCA-TC-TTTCAAAGCCCACAAGTCA
99782 GTGGCATCCTTTCAAAGCCCACACAAGTCA
1 GTGGCAT-CTTTCAAAG-CC-CACAAGTCA
99812 GTGGCA
1 GTGGCA
99818 ACCCTTTTCA
Statistics
Matches: 754, Mismatches: 71, Indels: 52
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.01
27 67 0.09
28 511 0.68
29 134 0.18
30 38 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (27 bp):
GTGGCATCTTTCAAAGCCCACAAGTCA
Found at i:99170 original size:84 final size:83
Alignment explanation
Indices: 98808--99817 Score: 1089
Period size: 84 Copynumber: 12.0 Consensus size: 83
98798 CTGTGACCTC
* * * ** * * * *
98808 TTCAAAGTCCACAATTCAGTGGCATTTCTTTTTAAAGTACACAACTCCGTGGCACCCTTTTAAAG
1 TTCAAAGCCCACAAGTCAGTGGCA--TC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* * *
98873 TCCACAACTTC-GTGGCACCCT
63 CCCACAA-GTCAGTGGCATCCT
* * * * * ** * * * * * *
98894 TT-TAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCATAACTCCGTGGCA-CTCTTTTAAAGTC
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCC
* * *
98957 CACAACTCCGTGGCACCCT
65 CACAAGTCAGTGGCATCCT
* * * * * * * *
98976 TT-TAAGTCCACAACTCTGTGGCATTCTTT-TAAGTCCACAACTCTGTGGCA-CCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
99038 CACAAGTCAGTAGCATCCT
65 CACAAGTCAGTGGCATCCT
* * *
99057 TCTCAAAGCCCATAAGTCAGTGGCATCTTTCCAAAGCCAACAAGTCAGTGGCATCCTTTCAAAAC
1 T-TCAAAGCCCACAAGTCAGTGGCATCTTT-CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* *
99122 CCACAAGTTAGTGGCATCAT
64 CCACAAGTCAGTGGCATCCT
* * *
99142 TTTAAAGTCCACAAGTCAGTGGCATCTTTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
99207 CACAAGTCAGTGGCATCATT
65 CACAAGTCAGTGGCATC-CT
* * * *
99227 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCATCATTTTTAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGC
99292 CCACAAGTCAGTGGCATCCT
64 CCACAAGTCAGTGGCATCCT
* * * * * * *
99312 TTCAAAGCCAACAAGTTAGTAGCATCCTTTCAAAACCCACAAGTTAGTGGCATCATTTTAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
99377 CACAAGTCAGTGGCATCTT
65 CACAAGTCAGTGGCATCCT
*
99396 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
99461 CACAAGTCAGTGGCATCAT
65 CACAAGTCAGTGGCATCCT
* * * *
99480 TTCAAAGCCCACAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTTAGTGGCATCATTTTTAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGC
99545 CCACAAGTCAGTGGCATCCT
64 CCACAAGTCAGTGGCATCCT
99565 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
99629 CCATAAGTCAGCGGCATCCT
64 CCACAAGTCAGTGGCATCCT
* * * * *
99649 TTCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAGCCCATAAGTCAGTGGTACCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-A-TC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
*
99714 CCCACAAGTCAGTGGCACCCT
63 CCCACAAGTCAGTGGCATCCT
*
99735 TTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCA-TC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-
99800 CCACACAAGTCAGTGGCA
63 CC-CACAAGTCAGTGGCA
99818 ACCCTTTTCA
Statistics
Matches: 815, Mismatches: 87, Indels: 43
0.86 0.09 0.05
Matches are distributed among these distances:
81 28 0.03
82 96 0.12
83 22 0.03
84 287 0.35
85 263 0.32
86 102 0.13
87 17 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (83 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
ACAAGTCAGTGGCATCCT
Found at i:99910 original size:45 final size:48
Alignment explanation
Indices: 99846--99954 Score: 134
Period size: 49 Copynumber: 2.3 Consensus size: 48
99836 CTGTCTGACA
* * *
99846 TCGCTAGCATTGAATCAGCATATT-G-ACACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTACACCTTTCATTAGCCCAATG
* * *
99891 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTACACCTTT-CATTAGCCCAATG
99940 TCGCTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
99955 TGGCACTCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 21 0.39
46 1 0.02
47 6 0.11
49 26 0.48
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.31
Consensus pattern (48 bp):
TCGCTGGCCTTGAATCAGCACATTGGTACACCTTTCATTAGCCCAATG
Found at i:100686 original size:20 final size:20
Alignment explanation
Indices: 100663--100737 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
100653 AAGTACCCAG
100663 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * **
100683 ATGTATCGATACATGTATGG
1 ATGTATCGATACATTTTTCA
*
100703 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
100723 ATTTATCGATACATT
1 ATGTATCGATACATT
100738 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:108787 original size:30 final size:30
Alignment explanation
Indices: 108751--108810 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
108741 ATCTTCGGTG
*
108751 GAATATGAATATCAATACATGTGACGCCAT
1 GAATATGAATATCAATACATGTGACACCAT
108781 GAATATGAATATCAATACATGTGACACCAT
1 GAATATGAATATCAATACATGTGACACCAT
108811 AAATTAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (30 bp):
GAATATGAATATCAATACATGTGACACCAT
Found at i:116911 original size:30 final size:29
Alignment explanation
Indices: 116877--116948 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
116867 ATTAATATTT
*
116877 TTATATTTTTAAAATTTAATTTGATTTAAA
1 TTATATTTTTAAAATTTAATTTAATTT-AA
*
116907 TTATATATTTT-AAATTTAATTTAATTTAT
1 TTATAT-TTTTAAAATTTAATTTAATTTAA
*
116936 TTATATTTGTAAA
1 TTATATTTTTAAA
116949 TAAATAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 3 0.08
29 9 0.24
30 21 0.57
31 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TTATATTTTTAAAATTTAATTTAATTTAA
Found at i:116922 original size:25 final size:27
Alignment explanation
Indices: 116894--116949 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
116884 TTTAAAATTT
*
116894 AATTTGATTTAAATTA-TATATTT-TA
1 AATTTAATTTAAATTATTATATTTGTA
*
116919 AATTTAATTTAATTTATTTATATTTGTA
1 AATTTAATTTAAATTA-TTATATTTGTA
116947 AAT
1 AAT
116950 AAATAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 14 0.54
27 7 0.27
28 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (27 bp):
AATTTAATTTAAATTATTATATTTGTA
Found at i:116929 original size:35 final size:34
Alignment explanation
Indices: 116889--117030 Score: 114
Period size: 36 Copynumber: 4.1 Consensus size: 34
116879 ATATTTTTAA
116889 AATTTAATTTGATTTAAATTATATATTTTAAATTT
1 AATTTAATTT-ATTTAAATTATATATTTTAAATTT
* * **
116924 AATTTAATTTATTTATATT-TGTA-AATAAA--T
1 AATTTAATTTATTTAAATTATATATTTTAAATTT
* *
116954 AGTTTAAATTTATTTAAATTAGT-TATTATTATATTT
1 AATTT-AATTTATTTAAATTA-TATATT-TTAAATTT
* * *
116990 TATTTAATTTTTTTAAAAATATATATTTTAAAATTT
1 AATTTAATTTATTT-AAATTATATATTTT-AAATTT
117026 AATTT
1 AATTT
117031 TTAGTAATTT
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
30 5 0.06
31 13 0.16
32 6 0.07
33 4 0.05
34 11 0.13
35 21 0.26
36 22 0.27
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (34 bp):
AATTTAATTTATTTAAATTATATATTTTAAATTT
Found at i:117152 original size:29 final size:25
Alignment explanation
Indices: 117117--117186 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 25
117107 ATATTTATTT
117117 TTATATAATATAAATTACATAATATATA
1 TTATATAATATAAA--A-ATAATATATA
117145 TATATATAATATAAAAATAATATATA
1 T-TATATAATATAAAAATAATATATA
117171 TTATA-AAT-TAAAAATA
1 TTATATAATATAAAAATA
117187 GATTGATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.20
24 3 0.07
25 4 0.10
26 11 0.27
27 1 0.02
28 1 0.02
29 13 0.32
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TTATATAATATAAAAATAATATATA
Found at i:117163 original size:23 final size:23
Alignment explanation
Indices: 117118--117186 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
117108 TATTTATTTT
* *
117118 TATATAATATAAATTA--CATAA
1 TATATATTATAAATTAAAAATAA
117139 TATATATATATATAATATAAAAATAA
1 TATATAT-TATA-AAT-TAAAAATAA
117165 TATATATTATAAATTAAAAATA
1 TATATATTATAAATTAAAAATA
117187 GATTGATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 6 0.15
22 4 0.10
23 11 0.27
24 5 0.12
25 4 0.10
26 11 0.27
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATATTATAAATTAAAAATAA
Found at i:117293 original size:17 final size:18
Alignment explanation
Indices: 117258--117293 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
117248 TTTATATCTT
*
117258 TTTTAAATATTAAATAAA
1 TTTTAAATATTAAACAAA
117276 TTTTAAAT-TTAAACAAA
1 TTTTAAATATTAAACAAA
117293 T
1 T
117294 AATTCAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTAAATATTAAACAAA
Found at i:118529 original size:25 final size:25
Alignment explanation
Indices: 118482--118531 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
118472 TTATTATTTA
*
118482 TTTTTAAAAATATATAAATTATTAT
1 TTTTTAAAAATATATAAAATATTAT
*
118507 TTTTTAAATATA-ATCAAAATATTAT
1 TTTTTAAAAATATAT-AAAATATTAT
118532 CTATATACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTTAAAAATATATAAAATATTAT
Found at i:123188 original size:27 final size:26
Alignment explanation
Indices: 123158--123248 Score: 64
Period size: 25 Copynumber: 3.5 Consensus size: 26
123148 ATTATAATCA
123158 TATTTAATATTATATATATTTTAAATT
1 TATTT-ATATTATATATATTTTAAATT
* * *
123185 TATTTAT-TTCATAT-TATATCATATT
1 TATTTATATT-ATATATATTTTAAATT
* *
123210 T-TTTATTTTTTATAT-TTTTATAATT
1 TATTTATATTATATATATTTTA-AATT
123235 ATATTTAATATTAT
1 -TATTT-ATATTAT
123249 CAGATTTAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
24 11 0.23
25 17 0.35
26 7 0.15
27 8 0.17
28 5 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTATATTATATATATTTTAAATT
Found at i:130522 original size:17 final size:15
Alignment explanation
Indices: 130502--130553 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 15
130492 TTAGATAAAA
130502 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
130519 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
130533 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
130545 AA-AAAGAAA
1 AAGAAAGAAA
130554 AAAATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.26
13 3 0.09
14 9 0.26
15 1 0.03
16 9 0.26
17 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:130550 original size:12 final size:12
Alignment explanation
Indices: 130522--130557 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
130512 GAAGATGAAG
130522 AAGAAAGAAAGAAA
1 AAGAAA-AAA-AAA
130536 AAGAAAAAAAAA
1 AAGAAAAAAAAA
130548 AAGAAAAAAA
1 AAGAAAAAAA
130558 TATGAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.59
13 3 0.14
14 6 0.27
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:133822 original size:32 final size:32
Alignment explanation
Indices: 133777--134777 Score: 829
Period size: 32 Copynumber: 32.7 Consensus size: 32
133767 GGTACCACTA
* *
133777 ACTTATGTGGGCTTTGAAAAGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* *
133809 ACTTGTGTGGGCTTTGAAA-G-GATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
** * *
133839 ACTTGTG-GGTTTTTGAAA-GA-ATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* ** *
133868 AC-T-TATGGGCTTTGAAA--AGACGCCA-CT
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
133895 A-TCT-TATGGGCTTTGAAA--AGGTGCCACTG
1 ACT-TGTGTGGGCTTTGAAATGAGTTGCCACCG
* *
133924 AC-T-TGTGGGCTTTGAAA-G-GGTGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* ** *
133952 TC-T-TGTGGGCTTT-AAAAAAGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGA-GTTGCCACCG
* * * *
133982 ACTTATGTGGGCTTTCAAATGAATTGCCATCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134014 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * * *
134046 AC-T-TATGGGCTTTAAAATGGGTTACCACCA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134076 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134108 ACTTGTGTGGGCTTTGAAATGAGTTACCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
134140 AC-T-TATGGGCTTTGATATGA--TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * *
134168 AC-T-TGTGGG-TTTTAAAAG-GATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* **
134196 AC-T-TGTGGGCTTTGAAATGGGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * *
134226 ACTTGTTTGGACTTTGAAATGGGTTACCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
134258 ATTTGTGTGGGCTTTCAAATGAGTTGTCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
** * *
134290 ACTTGCATGGGCTTTCAAATGAGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
** * *
134322 ACTTGCATGGGCTTTCAAATAAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134354 ACTTGTGTGGGCTTTGAAA--AGATGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* *
134384 AC-T-TGTGGGCTTTGAAATGGGTTACCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
134414 ACTTGTGTGGGCTTTCAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * **
134446 ACTTGTGTGGGCTATGAAATGGGTTGCCACTA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
134478 ACTTATGTGGGCTTTCAAATGAGTTGTCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* **
134510 ACTTGTGTGGGCTTTGAAAT-A-ATGCCACTA
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* *
134540 AC-T-TATGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
134570 ACTTGTGAGGGCTTTGAAATGA--TGTCACTG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134600 ACTTGTGTGGGCTTTGAAA-CAGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGA-GTTGCCACCG
* * *
134632 ACTTATGTGGGCTTTCAAATGAGTTG-CATCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* *
134663 ACTTGTGTGGGCTTTCAAATGAGTTG-CATCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134694 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
134726 ACTTGTGTAGGCTTTGAAAAGAGTTGCCATCG
1 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
*
134758 AC-T-TGTGGGTTTTGAAATGA
1 ACTTGTGTGGGCTTTGAAATGA
134778 TGCCACTAAC
Statistics
Matches: 808, Mismatches: 126, Indels: 72
0.80 0.13 0.07
Matches are distributed among these distances:
27 12 0.01
28 131 0.16
29 32 0.04
30 147 0.18
31 70 0.09
32 411 0.51
33 5 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
Found at i:133892 original size:28 final size:28
Alignment explanation
Indices: 133782--135134 Score: 353
Period size: 32 Copynumber: 45.5 Consensus size: 28
133772 CACTAACTTA
*
133782 TGTGGGCTTTGAAAAGAGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGA--TGCCACTGAC-T
*
133813 GTGTGGGCTTTGAAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGATGCCACTGACT
*
133842 TGTGGGTTTTTG-AAAGAATGCCACTGACT
1 TGTGGG-CTTTGAAAAG-ATGCCACTGACT
* *
133871 TATGGGCTTTGAAAAGACGCCACT-ATCT
1 TGTGGGCTTTGAAAAGATGCCACTGA-CT
* *
133899 TATGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
133927 TGTGGGCTTTGAAAGGGTGCCACTGTCT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * **
133955 TGTGGGCTTTAAAAAAGGTTGCCACCAACTT
1 TGTGGGCTTT-GAAAA-GATGCCACTGAC-T
* *
133986 ATGTGGGCTTTCAAATGAATTGCCA-TCGACTT
1 -TGTGGGCTTTGAAAAG-A-TGCCACT-GAC-T
* * *
134018 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA--AGATGCCACTGACT
* * * **
134049 TATGGGCTTT-AAAATGGGTTACCACCAACTT
1 TGTGGGCTTTGAAAA---GATGCCACTGAC-T
* * *
134080 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * *
134112 GTGTGGGCTTTGAAATGAGTTACCACCGACT
1 -TGTGGGCTTTGAAA--AGATGCCACTGACT
* * *
134143 TATGGGCTTTGATATGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
134171 TGTGGG-TTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
134199 TGTGGGCTTTGAAATGGGTTGCCACTAACT
1 TGTGGGCTTTGAAA--AGATGCCACTGACT
* * * * * *
134229 TGTTTGGACTTTGAAATGGGTTACCACCGATTT
1 TG--TGGGCTTTGAAA--AGATGCCACTGA-CT
* * * *
134262 GTGTGGGCTTTCAAATGAGTTGTCACCGACT
1 -TGTGGGCTTTGAAA--AGATGCCACTGACT
* * **
134293 TGCATGGGCTTTCAAATGAGTTGCCACCAACT
1 TG--TGGGCTTTGAAA--AGATGCCACTGACT
* * *
134325 TGCATGGGCTTTCAAATAAGTTGCCACCGACTT
1 TG--TGGGCTTT-GAA-AAGATGCCACTGAC-T
*
134358 GTGTGGGCTTTGAAAAGATGCCACCGACT
1 -TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
134387 TGTGGGCTTTGAAATGGGTTACCACCGACTT
1 TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * * **
134418 GTGTGGGCTTTCAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * * *
134450 GTGTGGGCTATGAAATGGGTTGCCACTAACTT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T
* * * *
134482 ATGTGGGCTTTCAAATGAGTTGTCACCGACTT
1 -TGTGGGCTTTGAAA--AGATGCCACTGAC-T
*
134514 GTGTGGGCTTTGAAATA-ATGCCACTAACT
1 -TGTGGGCTTTGAAA-AGATGCCACTGACT
* * * *
134543 TATGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA--AGATGCCACTGACT
* *
134573 TGTGAGGGCTTTGAAATGATGTCACTGACTT
1 TGT--GGGCTTTGAAAAGATGCCACTGAC-T
* *
134604 GTGTGGGCTTTGAAACAGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-A-GATGCCACTGAC-T
* *
134636 ATGTGGGCTTTCAAATGAGTTG-CA-TCGACTT
1 -TGTGGGCTTTGAAA--AGATGCCACT-GAC-T
* *
134667 GTGTGGGCTTTCAAATGAGTTG-CA-TCGACTT
1 -TGTGGGCTTTGAAA--AGATGCCACT-GAC-T
* * *
134698 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA--AGATGCCACTGACT
134729 TGTGTAGGCTTTGAAAAGAGTTGCCA-TCGACT
1 TGTG--GGCTTTGAAAAGA--TGCCACT-GACT
* * *
134761 TGTGGGTTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
134789 TATGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* ** *
134817 TGTGGGC-TTAAAAAGGATGCCACAAAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * *
134845 TGTGGAC-TT-AAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* *
134872 TGTGGAC-TT-AAAAGAGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAAGA-TGCCACT-GACT
* * * *
134899 TGTGGACTTT-AAAAGAATGCTACGGAGT
1 TGTGGGCTTTGAAAAG-ATGCCACTGACT
* * * *
134927 TGTGGACTTT-AAAAGAACGCCACAGAGT
1 TGTGGGCTTTGAAAAG-ATGCCACTGACT
* * * *
134955 TGTGGAC-TTGAAACGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-AGATGCCACTGACT
* * * *
134983 TGTGGAC-TT-AAAAGAGTGCTACAGAGT
1 TGTGGGCTTTGAAAAGA-TGCCACTGACT
* * * * *
135010 TATGGAC-TT-AAAAGGATACCACGGAGT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* * * *
135037 TGTGGACTTTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * * *
135065 TATGGACTTT-AAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
135092 TGTGGACTTTGAAAAGAAATGCCACTGAAT
1 TGTGGGCTTTGAAAAG--ATGCCACTGACT
* *
135122 CGTGGACTTTGAA
1 TGTGGGCTTTGAA
135135 GAGGTCACAA
Statistics
Matches: 1092, Mismatches: 155, Indels: 150
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.00
27 123 0.11
28 294 0.27
29 48 0.04
30 164 0.15
31 73 0.07
32 371 0.34
33 8 0.01
34 6 0.01
35 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:134057 original size:94 final size:96
Alignment explanation
Indices: 133777--134777 Score: 725
Period size: 94 Copynumber: 10.9 Consensus size: 96
133767 GGTACCACTA
* * * * *
133777 ACTTATGTGGGCTTT-GAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAA-G-GATGCCACTG
1 ACTTGTGTGGGCTTTAAAAAAG-GTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
** * *
133839 ACTTGTG-GGTTTTTGAAA-GA-ATGCCACTG
65 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * ** * * * * *
133868 AC-T-TATGGGCTTT-GAAAA-GACGCCA-CTA-TCT-TATGGGCTTTGAAA--AGGTGCCACTG
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACT-TGTGTGGGCTTTCAAATGAGTTGCCACCG
* *
133924 AC-T-TGTGGGCTTTGAAA-G-GGTGCCACTG
65 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * * *
133952 TC-T-TGTGGGCTTTAAAAAAGGTTGCCACCAACTTATGTGGGCTTTCAAATGAATTGCCATCGA
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
*
134015 CTTGTGTGGGCTTTCAAATGAGTTGCCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* ** * *
134046 AC-T-TATGGGCTTTAAAATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
*
134109 CTTGTGTGGGCTTTGAAATGAGTTACCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * * * * * * * *
134140 AC-T-TATGGGCTTT--GATATGATGCCACTGAC-T-TGTGGG-TTTTAAAAG-GATGCCACTGA
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
* **
134197 C-T-TGTGGGCTTTGAAATGGGTTGCCACTA
66 CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * ** * * *
134226 ACTTGTTTGGACTTTGAAATGGGTTACCACCGATTTGTGTGGGCTTTCAAATGAGTTGTCACCGA
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
** * *
134291 CTTGCATGGGCTTTCAAATGAGTTGCCACCA
66 CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
** * * *
134322 ACTTGCATGGGCTTTCAAATAA-GTTGCCACCGACTTGTGTGGGCTTTGAAA--AGATGCCACCG
1 ACTTGTGTGGGCTTT-AAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
* *
134384 AC-T-TGTGGGCTTTGAAATGGGTTACCACCG
65 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* ** * * * * **
134414 ACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTATGAAATGGGTTGCCACTAA
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
* * *
134479 CTTATGTGGGCTTTCAAATGAGTTGTCACCG
66 CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* ** * * *
134510 ACTTGTGTGGGCTTTGAAATAA---TGCCACTAAC-T-TATGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTT-AAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
* * *
134570 ACTTGTGAGGGCTTTGAAATGA--TGTCACTG
65 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * *
134600 ACTTGTGTGGGCTTTGAAACAGGTTGCCACCGACTTATGTGGGCTTTCAAATGAGTTG-CATCGA
1 ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
* *
134664 CTTGTGTGGGCTTTCAAATGAGTTG-CATCG
66 CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
* * * * * *
134694 ACTTGTGTGGGCTTT-CAAATGAGTTGCCACCGACTTGTGTAGGCTTTGAAAAGAGTTGCCATCG
1 ACTTGTGTGGGCTTTAAAAAAG-GTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
*
134758 AC-T-TGTGGGTTTTGAAATGA
65 ACTTGTGTGGGCTTTGAAATGA
134778 TGCCACTAAC
Statistics
Matches: 732, Mismatches: 137, Indels: 80
0.77 0.14 0.08
Matches are distributed among these distances:
83 2 0.00
84 30 0.04
85 29 0.04
86 33 0.05
87 10 0.01
88 31 0.04
89 24 0.03
90 48 0.07
91 7 0.01
92 140 0.19
93 53 0.07
94 212 0.29
95 11 0.02
96 98 0.13
97 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (96 bp):
ACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGA
CTTGTGTGGGCTTTGAAATGAGTTGCCACCG
Found at i:134422 original size:156 final size:157
Alignment explanation
Indices: 133782--134789 Score: 838
Period size: 156 Copynumber: 6.6 Consensus size: 157
133772 CACTAACTTA
* * * *
133782 TGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAA-G-GATGCCACTGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
** * ** * * ** *
133845 G-GGTTTTTGAAA-GA-ATGCCACTGAC-T-TATGGGCTTTGAAA--AGACGCCA-CTA-TCT-T
66 GTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACT-TGT
* * **
133900 ATGGGCTTTGAAA-AGGTGCCACTGACT
130 GTGGGCTTTGAAATAGTTGCCACCAACT
* * ** * *
133927 TGTGGGCTTTGAAA-GGG-TGCCACTGTC-T-TGTGGGCTTT-AAAAAAGGTTGCCACCAACTTA
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGA-GTTGCCACCGACTTG
* * * *
133987 TGTGGGCTTTCAAATGAATTGCCATCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGAC-T-T
65 TGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
* * * *
134050 ATGGGCTTTAAAATGGGTTACCACCAACTT
130 GTGGGCTTTGAAAT-AGTTGCCACCAAC-T
* * *
134080 GTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTACCACCGAC-T-
1 -TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* * ** * * * *
134143 TATGGGCTTTGATATGA--TGCCACTGAC-T-TGTGGG-TTTTAAAAG-GATGCCACTGAC-T-T
65 TGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
* *
134200 GTGGGCTTTGAAATGGGTTGCCACTAACT
130 GTGGGCTTTGAAAT-AGTTGCCACCAACT
* * * * *
134229 TGTTTGGACTTTGAAATGGGTTACCACCGATTTGTGTGGGCTTTCAAATGAGTTGTCACCGACTT
1 TG--TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTT
** * ** *
134294 GCATGGGCTTTCAAATGAGTTGCCACCAACTTGCATGGGCTTTCAAATAAGTTGCCACCGACTTG
64 GTGTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTG
* *
134359 TGTGGGCTTTGAAA-AGATGCCACCGACT
129 TGTGGGCTTTGAAATAGTTGCCACCAACT
* * * *
134387 TGTGGGCTTTGAAATGGGTTACCACCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * * * *
134452 GTGGGCTATGAAATGGGTTGCCACTAACTTATGTGGGCTTTCAAATGAGTTGTCACCGACTTGTG
66 GTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTG
* *
134517 TGGGCTTTGAAATA-ATGCCACTAACT
131 TGGGCTTTGAAATAGTTGCCACCAACT
* * * *
134543 TATGGGCTTTGAAATGGGTTGCCACCGACTTGTGAGGGCTTTGAAATGA--TGTCACTGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * * *
134606 GTGGGCTTTGAAA-CAGGTTGCCACCGACTTATGTGGGCTTTCAAATGAGTTG-CATCGACTTGT
66 GTGGGCTTTGAAATGA-GTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
* * *
134669 GTGGGCTTTCAAATGAGTTG-CATCGACTT
130 GTGGGCTTTGAAAT-AGTTGCCACCAAC-T
* * * * *
134698 GTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTAGGCTTTGAAAAGAGTTGCCATCGAC-T-
1 -TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* *
134761 TGTGGGTTTTGAAATGA--TGCCACTAACTT
65 TGTGGGCTTTGAAATGAGTTGCCACCAACTT
134790 ATGGGCTTTG
Statistics
Matches: 701, Mismatches: 120, Indels: 75
0.78 0.13 0.08
Matches are distributed among these distances:
140 3 0.00
141 10 0.01
142 1 0.00
143 21 0.03
144 10 0.01
145 16 0.02
146 8 0.01
147 1 0.00
148 14 0.02
149 1 0.00
150 107 0.15
151 10 0.01
152 28 0.04
153 25 0.04
154 101 0.14
155 6 0.01
156 260 0.37
157 11 0.02
158 49 0.07
159 5 0.01
160 14 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (157 bp):
TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
GTGGGCTTTGAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTG
TGGGCTTTGAAATAGTTGCCACCAACT
Found at i:134865 original size:27 final size:27
Alignment explanation
Indices: 134801--135100 Score: 327
Period size: 28 Copynumber: 10.9 Consensus size: 27
134791 TGGGCTTTGG
* * * *
134801 AAGGGTGCCACTGACTTGTGGGCTTAAA
1 AAGGATGCCACGGAGTTGTGGACTT-AA
**
134829 AAGGATGCCACAAAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
134856 AAGGATGCCACAGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
*
134883 AA-GAGTGCCATGGAGTTGTGGACTTTAA
1 AAGGA-TGCCACGGAGTTGTGGAC-TTAA
* *
134911 AAGAATGCTACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* * *
134939 AAGAACGCCACAGAGTTGTGGACTTGAA
1 AAGGATGCCACGGAGTTGTGGACTT-AA
*
134967 ACGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAA
* * *
134994 AA-GAGTGCTACAGAGTTATGGACTTAA
1 AAGGA-TGCCACGGAGTTGTGGACTTAA
*
135021 AAGGATACCACGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
* *
135049 AAAGATGCCACGGAGTTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAA
135077 AA-GATGCCACGGAGTTGTGGACTT
1 AAGGATGCCACGGAGTTGTGGACTT
135101 TGAAAAGAAA
Statistics
Matches: 235, Mismatches: 30, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
26 6 0.03
27 105 0.45
28 123 0.52
29 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (27 bp):
AAGGATGCCACGGAGTTGTGGACTTAA
Found at i:134882 original size:55 final size:53
Alignment explanation
Indices: 134801--135100 Score: 341
Period size: 55 Copynumber: 5.5 Consensus size: 53
134791 TGGGCTTTGG
* * * * *
134801 AAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACAAAGTTGTGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTT-AAAA-GATGCCACAGAGTTGTGGACTTAA
* **
134856 AAGGATGCCACAGAGTTGTGGACTTAAAAGAGTGCCATGGAGTTGTGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGA-TGCCACAGAGTTGTGGAC-TTAA
* * *
134911 AAGAATGCTACGGAGTTGTGGACTTTAAAAGAACGCCACAGAGTTGTGGACTTGAA
1 AAGGATGCCACGGAGTTGTGGAC-TTAAAAG-ATGCCACAGAGTTGTGGACTT-AA
* * *
134967 ACGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCTACAGAGTTATGGACTTAA
1 AAGGATGCCACGGAGTTGTGGACTTAAAAGA-TGCCACAGAGTTGTGGACTTAA
* * *
135021 AAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTATGGACTTTAA
1 AAGGATGCCACGGAGTTGTGGAC-TT-AAAAGATGCCACAGAGTTGTGGAC-TTAA
135077 AA-GATGCCACGGAGTTGTGGACTT
1 AAGGATGCCACGGAGTTGTGGACTT
135101 TGAAAAGAAA
Statistics
Matches: 212, Mismatches: 24, Indels: 19
0.83 0.09 0.07
Matches are distributed among these distances:
53 2 0.01
54 45 0.21
55 108 0.51
56 56 0.26
57 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (53 bp):
AAGGATGCCACGGAGTTGTGGACTTAAAAGATGCCACAGAGTTGTGGACTTAA
Found at i:134973 original size:138 final size:137
Alignment explanation
Indices: 134807--135116 Score: 401
Period size: 138 Copynumber: 2.2 Consensus size: 137
134797 TTGGAAGGGT
* * * *
134807 GCCACTGACTTGTGGGCTTAAAAAGGATGCCACAAAGTTGTGGACTTAAAAG-GATGCCACAGAG
1 GCCACAGAGTTGTGGACTTGAAAAGGATGCCACAAAGTTGTGGACTTAAAAGAG-TGCCACAGAG
* * * * *
134871 TTGTGGACTTAAAA-GAGTGCCATGGAGTTGTGGACTTT-AAAAGAATGCTACGGAGTTGTGGAC
65 TTATGGACTTAAAAGGA-TACCACGGAGTTGTGGACTTTAAAAAG-ATGCCACGGAGTTATGGAC
134934 TTTAAAAGAAC
128 TTTAAAAG-AC
* ** *
134945 GCCACAGAGTTGTGGACTTGAAACGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCTACAGAGT
1 GCCACAGAGTTGTGGACTTGAAAAGGATGCCACAAAGTTGTGGACTTAAAAGAGTGCCACAGAGT
135010 TATGGACTTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTATGGACTTT
66 TATGGACTTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTATGGACTTT
*
135075 AAAAGAT
131 AAAAGAC
* *
135082 GCCACGGAGTTGTGGACTTTGAAAAGAAATGCCAC
1 GCCACAGAGTTGTGGAC-TTGAAAAG-GATGCCAC
135117 TGAATCGTGG
Statistics
Matches: 150, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
137 17 0.11
138 118 0.79
139 15 0.10
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (137 bp):
GCCACAGAGTTGTGGACTTGAAAAGGATGCCACAAAGTTGTGGACTTAAAAGAGTGCCACAGAGT
TATGGACTTAAAAGGATACCACGGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTATGGACTTT
AAAAGAC
Found at i:136409 original size:20 final size:18
Alignment explanation
Indices: 136361--136414 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
136351 TTTTTTTGGA
*
136361 TTTTTGTTATTCCTTTTT
1 TTTTTGTTTTTCCTTTTT
* *
136379 ATTTTGCTTTTGCACTTTTT
1 TTTTTG-TTTTTC-CTTTTT
136399 TTTTTGTTTTT-CTTTT
1 TTTTTGTTTTTCCTTTT
136415 CATATTTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 8 0.28
20 11 0.38
ACGTcount: A:0.06, C:0.11, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTTGTTTTTCCTTTTT
Found at i:139325 original size:31 final size:31
Alignment explanation
Indices: 139290--139352 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
139280 AGAAAAATGA
139290 GGCGTAATATGAAAATACAAACATAGGTGAC
1 GGCGTAATATGAAAATACAAACATAGGTGAC
* *
139321 GGCGTAATATGAAAATGCAAACGTAGGTGAC
1 GGCGTAATATGAAAATACAAACATAGGTGAC
139352 G
1 G
139353 ATGTTCGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (31 bp):
GGCGTAATATGAAAATACAAACATAGGTGAC
Found at i:140336 original size:13 final size:13
Alignment explanation
Indices: 140320--140346 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
140310 TTTTATTTCC
140320 TTCTTTCTCTTTT
1 TTCTTTCTCTTTT
140333 TTCTTTCTCTTTT
1 TTCTTTCTCTTTT
140346 T
1 T
140347 GTCACGCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTCTCTTTT
Found at i:141010 original size:30 final size:31
Alignment explanation
Indices: 140955--141114 Score: 180
Period size: 31 Copynumber: 5.0 Consensus size: 31
140945 AGGTTAGAAC
* *
140955 AAAAACCACTATTCTAATCTGGTGGCACGGT
1 AAAAATCACTATTCTTATCTGGTGGCACGGT
140986 AAAAATCACTATTCTTAT-TGGTGGCACGGGTT
1 AAAAATCACTATTCTTATCTGGTGGCAC-GG-T
* *
141018 GGAACAAAAACCACTATTCTTATCCGGTGGCACGGT
1 -----AAAAATCACTATTCTTATCTGGTGGCACGGT
* *
141054 AAAAATCACTATTCTTATCCGTTGGCAC-GT
1 AAAAATCACTATTCTTATCTGGTGGCACGGT
*
141084 AAAAATCACTATTCTTAACTGGTGGCACGGT
1 AAAAATCACTATTCTTATCTGGTGGCACGGT
141115 TTTAAACTAG
Statistics
Matches: 111, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
30 36 0.32
31 46 0.41
32 1 0.01
36 1 0.01
37 19 0.17
38 8 0.07
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (31 bp):
AAAAATCACTATTCTTATCTGGTGGCACGGT
Found at i:143051 original size:27 final size:27
Alignment explanation
Indices: 143015--143104 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 27
143005 TTCTTTATTC
143015 TTTTTGTTTAATAACTTATGGGCTAGT
1 TTTTTGTTTAATAACTTATGGGCTAGT
* * * *** *
143042 TTTTT-TTTTAT-CCTCTTTCACCTAAT
1 TTTTTGTTTAATAACT-TATGGGCTAGT
143068 CTTTTTGTTTAATAACTTATGGGCTAGT
1 -TTTTTGTTTAATAACTTATGGGCTAGT
143096 TTTTT-TTTA
1 TTTTTGTTTA
143105 TCCTCTTTCA
Statistics
Matches: 45, Mismatches: 14, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
25 2 0.04
26 15 0.33
27 15 0.33
28 11 0.24
29 2 0.04
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.58
Consensus pattern (27 bp):
TTTTTGTTTAATAACTTATGGGCTAGT
Found at i:143072 original size:54 final size:53
Alignment explanation
Indices: 143013--143121 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 53
143003 TATTCTTTAT
143013 TCTTTTTGTTTAATAACTTATGGGCTAGTTTTTTTTTTATCCTCTTTCACCTAA
1 TCTTTTTGTTTAATAACTTATGGGCTAG-TTTTTTTTTATCCTCTTTCACCTAA
143067 TCTTTTTGTTTAATAACTTATGGGCTAGTTTTTTTTTATCCTCTTTCACCTAA
1 TCTTTTTGTTTAATAACTTATGGGCTAGTTTTTTTTTATCCTCTTTCACCTAA
143120 TC
1 TC
143122 ATCTAGTGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 27 0.49
54 28 0.51
ACGTcount: A:0.18, C:0.17, G:0.09, T:0.55
Consensus pattern (53 bp):
TCTTTTTGTTTAATAACTTATGGGCTAGTTTTTTTTTATCCTCTTTCACCTAA
Found at i:143995 original size:31 final size:33
Alignment explanation
Indices: 143949--144017 Score: 115
Period size: 31 Copynumber: 2.2 Consensus size: 33
143939 GTTTAAATTA
*
143949 AAAAATATGTTTAATGATAAAAGTTTATATTTT
1 AAAAATATGTTTAATGATAAAAGTCTATATTTT
143982 AAAAAT-T-TTTAATGATAAAAGTCTATATTTT
1 AAAAATATGTTTAATGATAAAAGTCTATATTTT
144013 AAAAA
1 AAAAA
144018 ATTTATTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 28 0.80
32 1 0.03
33 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (33 bp):
AAAAATATGTTTAATGATAAAAGTCTATATTTT
Found at i:144596 original size:18 final size:17
Alignment explanation
Indices: 144562--144616 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
144552 TACTTAAGAT
144562 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
144579 ATTTTGATATGTTA-AT-A
1 ATTTT-ATAT-TTATATAA
*
144596 A-TTCATA-TTATATAA
1 ATTTTATATTTATATAA
144611 ATTTTA
1 ATTTTA
144617 AAATATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 3 0.10
14 2 0.06
15 5 0.16
16 5 0.16
17 7 0.23
18 6 0.19
19 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:151191 original size:17 final size:17
Alignment explanation
Indices: 151169--151218 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
151159 ATATATACAC
151169 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
*
151186 ATATT-AATTATTA-ATA
1 ATATTAAAAT-TTATATA
*
151202 A-AATAAAATTTATATA
1 ATATTAAAATTTATATA
151218 A
1 A
151219 ATATATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
15 5 0.19
16 14 0.52
17 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:153247 original size:13 final size:13
Alignment explanation
Indices: 153229--153253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153219 ATTTTGCTTA
153229 GTATCGATACATT
1 GTATCGATACATT
153242 GTATCGATACAT
1 GTATCGATACAT
153254 AAAACTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:153803 original size:36 final size:35
Alignment explanation
Indices: 153760--153857 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 35
153750 CTAAGTGATT
*
153760 GAGAGGTTCTATCATAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCATAGCCTGTG-AAAAGATAGAGA
* *
153796 GAGAGGTTTTATCTTAGCCTGTGAAAAGATAG-G-
1 GAGAGGTTCTATCATAGCCTGTGAAAAGATAGAGA
* *
153829 GAG-GTTTCTATCTTAGCC-GTG-AAAGATAG
1 GAGAGGTTCTATCATAGCCTGTGAAAAGATAG
153858 TGTTGTAAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
30 8 0.14
31 3 0.05
32 13 0.23
33 3 0.05
34 1 0.02
35 9 0.16
36 20 0.35
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (35 bp):
GAGAGGTTCTATCATAGCCTGTGAAAAGATAGAGA
Found at i:153851 original size:31 final size:30
Alignment explanation
Indices: 153798--153857 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
153788 GATAGAGAGA
153798 GAGGTTTTATCTTAGCCTGTGAAAAGATAGG
1 GAGGTTTTATCTTAGCCTGTG-AAAGATAGG
153829 GAGGTTTCTATCTTAGCC-GTGAAAGATAG
1 GAGGTTT-TATCTTAGCCTGTGAAAGATAG
153858 TGTTGTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 8 0.29
31 10 0.36
32 10 0.36
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (30 bp):
GAGGTTTTATCTTAGCCTGTGAAAGATAGG
Found at i:156476 original size:51 final size:51
Alignment explanation
Indices: 156316--156486 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
156306 GAAATAACGA
* * *
156316 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
156368 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
156421 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
156472 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
156487 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:156532 original size:27 final size:28
Alignment explanation
Indices: 156469--156544 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
156459 AAAATAAAGT
*
156469 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
156497 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
156524 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
156545 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:159038 original size:13 final size:13
Alignment explanation
Indices: 159020--159045 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159010 ACAAAGATCC
159020 ATGTATCGATACA
1 ATGTATCGATACA
159033 ATGTATCGATACA
1 ATGTATCGATACA
159046 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:159041 original size:33 final size:33
Alignment explanation
Indices: 158999--159065 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
158989 AAAATTTCCA
***
158999 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
159032 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
159065 A
1 A
159066 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:159109 original size:19 final size:18
Alignment explanation
Indices: 159085--159152 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
159075 CAGTAGCTAA
159085 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
159104 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
159119 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
159136 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
159153 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:159125 original size:13 final size:13
Alignment explanation
Indices: 159107--159131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159097 ACAATACTTA
159107 TGTATCGATACAT
1 TGTATCGATACAT
159120 TGTATCGATACA
1 TGTATCGATACA
159132 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:159129 original size:32 final size:32
Alignment explanation
Indices: 159088--159150 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
159078 TAGCTAATTA
*
159088 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
159120 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
159151 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:159214 original size:21 final size:21
Alignment explanation
Indices: 159188--159265 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
159178 GTTGGGACCC
159188 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTTGTAGAA
159209 TGTATCGATACATTTGT-GAA
1 TGTATCGATACATTTGTAGAA
* *
159229 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTA-GAA
159250 TGTATCGATACATTTG
1 TGTATCGATACATTTG
159266 GAAATTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
19 3 0.06
20 15 0.29
21 31 0.61
22 2 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTGTAGAA
Found at i:159252 original size:41 final size:41
Alignment explanation
Indices: 159188--159265 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
159178 GTTGGGACCC
* *
159188 TGTATCGATACATTTGTAGAATGTATCGATACATTTGTGAA
1 TGTATCGATACATTTCTAAAATGTATCGATACATTTGTGAA
159229 TGTATCGATACA-TTCTACAAATGTATCGATACATTTG
1 TGTATCGATACATTTCTA-AAATGTATCGATACATTTG
159266 GAAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (41 bp):
TGTATCGATACATTTCTAAAATGTATCGATACATTTGTGAA
Found at i:160108 original size:55 final size:54
Alignment explanation
Indices: 160013--161431 Score: 1774
Period size: 55 Copynumber: 25.4 Consensus size: 54
160003 ATAAAGTGTA
* * * * * *
160013 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
160068 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * * **
160123 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG------AAAGGTG
*
160184 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AGAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGA-AAGGTG
160239 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * **
160294 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
160355 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTATGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
160410 TCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
160464 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * **
160519 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACATGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
160580 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTATGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
160635 TCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
160689 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * **
160744 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACATGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* * *
160805 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTATGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
160860 TCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
160914 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGCTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
160969 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
161024 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGATG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
161079 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
161134 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
161189 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
161244 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
161299 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
161354 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
161409 TCCTGCTCTTTGAGGACTAAAAA
1 TCCTGCTCTTTGAGGACTGAAAA
161432 GCGGAAGGAG
Statistics
Matches: 1213, Mismatches: 100, Indels: 103
0.86 0.07 0.07
Matches are distributed among these distances:
54 179 0.15
55 815 0.67
56 30 0.02
60 12 0.01
61 163 0.13
62 14 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:160147 original size:26 final size:26
Alignment explanation
Indices: 160059--160148 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
160049 GTGTGGGCTT
* *
160059 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
160085 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
160112 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
160140 TGAAAGGTG
1 TGAAAGGTG
160149 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:160172 original size:29 final size:29
Alignment explanation
Indices: 160085--160173 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
160075 CTTTGAGGAC
160085 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** *
160114 T-AAGAGGTGTCCTGC-TCTT-TG-GGGAC--
1 TGAA-AGGTG-CCACCAACTTGTGTGGG-CTT
160140 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
160169 TGAAA
1 TGAAA
160174 AAAAAAAGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 3 0.07
26 9 0.20
27 8 0.18
28 8 0.18
29 14 0.31
30 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:160517 original size:225 final size:221
Alignment explanation
Indices: 160032--161426 Score: 1976
Period size: 225 Copynumber: 6.2 Consensus size: 221
160022 TTGAGGAGTA
* * *
160032 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCA
* ** * ** *
160097 CCAACTTGTGTGGGCTTT--AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTG
65 CCAACTTGTGTGGGCTTTGAAAGAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTG
* * ** * * *
160160 TGTGGGCTTTGAAAAAAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTG
130 TATGGGCTTT------AAAAGGTGTCCTGCTCTTTGAGGACTG-GAAATACCACCAACTTGTGTG
160225 GGCTTT-AGAAGGTGTCCTGCTCTTTGAGGACTGG
188 GGCTTTGA-AAGGTGTCCTGCTCTTTGAGGACTGG
160259 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
*
160324 CAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
66 CAACTTGTGTGGGCTTTG-AAAG---AAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
160389 CTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCT
127 CTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCT
160454 TTGAAAGGTGTCCTGCTCTTTGAGGACTGG
192 TTGAAAGGTGTCCTGCTCTTTGAGGACTGG
160484 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
*
160549 CAACATGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
66 CAACTTGTGTGGGCTTTG-AAAG---AAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
160614 CTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCT
127 CTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCT
160679 TTGAAAGGTGTCCTGCTCTTTGAGGACTGG
192 TTGAAAGGTGTCCTGCTCTTTGAGGACTGG
160709 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
*
160774 CAACATGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
66 CAACTTGTGTGGGCTTTG-AAAG---AAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAAC
160839 CTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCT
127 CTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCT
*
160904 TTGAAAGGTGTCCTGCTCTTTGGGGACT-G
192 TTGAAAGGTGTCCTGCTCTTTGAGGACTGG
* * * *
160933 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGCTGTCCTGCTCTTTGAGGACTGGAAA-ATGC
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGGGGACT-GAAAGGTGC
* * *
160996 CACCAACTTGTGTGGGCTTTGAAAG--GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACT
63 CACCAACTTGTGTGGGCTTTGAAAGAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACC
* * * * *
161059 TGTGTGGGCTTTAAGAGATGTCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGC
128 TGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA--TACCACCAACTTGTGTGGGC
161123 TTT-AAGAGGTGTCCTGCTCTTTGAGGACTGG
191 TTTGAA-AGGTGTCCTGCTCTTTGAGGACTGG
161154 AAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCA
* ** * *
161218 CCAACTTGTGTGGGCTTT--AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
65 CCAACTTGTGTGGGCTTTGAAAGAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTG
** * * *
161281 GGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTT
130 TATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAA--TACCACCAACTTGTGTGGGCTT
*
161345 TAAAAGGTGTCCTGCTCTTTGAGGACT-G
193 TGAAAGGTGTCCTGCTCTTTGAGGACTGG
* *
161373 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT
1 AAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGGGGACT
161427 AAAAAGCGGA
Statistics
Matches: 1104, Mismatches: 45, Indels: 45
0.92 0.04 0.04
Matches are distributed among these distances:
218 7 0.01
219 79 0.07
220 285 0.26
221 6 0.01
224 10 0.01
225 563 0.51
226 103 0.09
227 4 0.00
229 3 0.00
232 44 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (221 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAGAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
ATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAATACCACCAACTTGTGTGGGCTTTGA
AAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:161312 original size:26 final size:26
Alignment explanation
Indices: 161283--161365 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
161273 CCAACTTGGG
161283 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
*** ** *
161309 TGGGGACTGAAAGGTG-CCACCAACTTGT
1 TGGGCTTTGAAAGGTGTCCTGC-TC-T-T
*
161337 GTGGGCTTTAAAAGGTGTCCTGCTCTT
1 -TGGGCTTTGAAAGGTGTCCTGCTCTT
161364 TG
1 TG
161366 AGGACTGAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
25 3 0.08
26 16 0.41
27 2 0.05
28 2 0.05
29 13 0.33
30 3 0.08
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Done.