Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012029.1 Kokia drynarioides strain JFW-HI SEQ_127027, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 203134
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 291 characters in sequence are not A, C, G, or T
Found at i:1825 original size:23 final size:24
Alignment explanation
Indices: 1793--1839 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
1783 GACAGAATTG
1793 GCTCTCACGAGCCCA-AAAGGTTA
1 GCTCTCACGAGCCCATAAAGGTTA
* *
1816 GCTCTTACGAGCCCATATAGGTTA
1 GCTCTCACGAGCCCATAAAGGTTA
1840 ACCAGTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (24 bp):
GCTCTCACGAGCCCATAAAGGTTA
Found at i:3589 original size:2 final size:2
Alignment explanation
Indices: 3551--3579 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3541 AATAATAATA
3551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3580 CTGTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4054 original size:91 final size:91
Alignment explanation
Indices: 3899--4081 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
3889 CCACTTCCTT
3899 AGATCACCCTTCGATAATTGAATGTTTCGAGGATAGCAAAAATTTAACACCTATTTTGCAACCTA
1 AGATCACCCTTCGATAATTGAATGTTTCGAGGATAGCAAAAATTTAACACCTATTTTGCAACCTA
3964 TCTAGTTCAAATCTCTCGTCCCGTTA
66 TCTAGTTCAAATCTCTCGTCCCGTTA
3990 AGATCACCCTTCGATAATTGAATGTTTCGAGGATAGCAAAAATTTAACACCTATTTTGCAACCTA
1 AGATCACCCTTCGATAATTGAATGTTTCGAGGATAGCAAAAATTTAACACCTATTTTGCAACCTA
*
4055 TCTGGTTCAAATCTCTCGTCCCGTTA
66 TCTAGTTCAAATCTCTCGTCCCGTTA
4081 A
1 A
4082 TCTAAACTTC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (91 bp):
AGATCACCCTTCGATAATTGAATGTTTCGAGGATAGCAAAAATTTAACACCTATTTTGCAACCTA
TCTAGTTCAAATCTCTCGTCCCGTTA
Found at i:10666 original size:181 final size:181
Alignment explanation
Indices: 10362--10725 Score: 656
Period size: 181 Copynumber: 2.0 Consensus size: 181
10352 ATCTCTTAAA
* *
10362 ATTGATTTTTGGGTTGCTCACAAATGCTTTGCCAAATTGGATTTGTTTTCCCTTGTTTGGACCCA
1 ATTGATTTTTGGGCTGCTCACAAATGCTTTGCCAAATTGGAATTGTTTTCCCTTGTTTGGACCCA
* *
10427 ATTTGTTTACCAAACTTGTCTATCAATTGATCCATCTTCAATTGGATGAAATCAAGCTCTTCATG
66 ATTTGTTTACCAAACTTATCCATCAATTGATCCATCTTCAATTGGATGAAATCAAGCTCTTCATG
*
10492 ACCCATTTTGCATGTATTTTTCGTCCATATAGAATGAATTTGGGCATGTCC
131 ACCCATTTTGCATGTATTTTTCATCCATATAGAATGAATTTGGGCATGTCC
*
10543 ATTGATTTTTGGGCTGCTCACAAATGCTTTGCCAAATTGGAATTGTTTTCCCTTGTTTGGATCCA
1 ATTGATTTTTGGGCTGCTCACAAATGCTTTGCCAAATTGGAATTGTTTTCCCTTGTTTGGACCCA
*
10608 ATTTGTTTACCAGACTTATCCATCAATTGATCCATCTTCAATTGGATGAAATCAAGCTCTTCATG
66 ATTTGTTTACCAAACTTATCCATCAATTGATCCATCTTCAATTGGATGAAATCAAGCTCTTCATG
*
10673 ACCCATTTTGCATGTGTTTTTCATCCATATAGAATGAATTTGGGCATGTCC
131 ACCCATTTTGCATGTATTTTTCATCCATATAGAATGAATTTGGGCATGTCC
10724 AT
1 AT
10726 GTAAATTTAT
Statistics
Matches: 175, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
181 175 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (181 bp):
ATTGATTTTTGGGCTGCTCACAAATGCTTTGCCAAATTGGAATTGTTTTCCCTTGTTTGGACCCA
ATTTGTTTACCAAACTTATCCATCAATTGATCCATCTTCAATTGGATGAAATCAAGCTCTTCATG
ACCCATTTTGCATGTATTTTTCATCCATATAGAATGAATTTGGGCATGTCC
Found at i:12400 original size:47 final size:46
Alignment explanation
Indices: 12296--12412 Score: 126
Period size: 47 Copynumber: 2.5 Consensus size: 46
12286 CATAATAATG
* *
12296 CAGATAAACTGCAATAATCAAAATCGTGGATAAACCACCAAAATCA
1 CAGATAAACTGCAATAATCAAAATCATGGACAAACCACCAAAATCA
* * * * *
12342 CAAATAAACTGCTAATAATCAAAATTATGGACAAGCCACCGAAATCG
1 CAGATAAACTGC-AATAATCAAAATCATGGACAAACCACCAAAATCA
* *
12389 CGGATATACTGCCACATAATCAAA
1 CAGATAAACTG-CA-ATAATCAAA
12413 TCGTGAACAG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
46 11 0.19
47 37 0.64
48 10 0.17
ACGTcount: A:0.47, C:0.22, G:0.12, T:0.19
Consensus pattern (46 bp):
CAGATAAACTGCAATAATCAAAATCATGGACAAACCACCAAAATCA
Found at i:13019 original size:8 final size:8
Alignment explanation
Indices: 13008--13032 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12998 ATTTTAGCCC
13008 TTTAAAAT
1 TTTAAAAT
13016 TTTAAAAT
1 TTTAAAAT
13024 TTTAAAAT
1 TTTAAAAT
13032 T
1 T
13033 AGTAAAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAAAAT
Found at i:17528 original size:2 final size:2
Alignment explanation
Indices: 17521--17551 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17511 ACATTCAATT
17521 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
17552 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20844 original size:59 final size:60
Alignment explanation
Indices: 20752--20869 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 60
20742 TAACATCTGG
20752 TACTTGAACTTGACACTTTTTCATAATTTGGTACCGAAACTTTTTTT-GACCCAATTTGA
1 TACTTGAACTTGACACTTTTTCATAATTTGGTACCGAAACTTTTTTTGGACCCAATTTGA
* *
20811 TACTTGAACTTGATACTTTTTTC-TAATTTGGTACCTAAACTTTTTTTGGACCCAATTTG
1 TACTTGAACTTGACAC-TTTTTCATAATTTGGTACCGAAACTTTTTTTGGACCCAATTTG
20870 GTATCTAAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
59 38 0.69
60 17 0.31
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (60 bp):
TACTTGAACTTGACACTTTTTCATAATTTGGTACCGAAACTTTTTTTGGACCCAATTTGA
Found at i:20881 original size:60 final size:57
Alignment explanation
Indices: 20749--20937 Score: 180
Period size: 59 Copynumber: 3.2 Consensus size: 57
20739 ATATAACATC
* * *
20749 TGGTACTTGAACTTGACACTTTTTCATAATTTGGTACCGAAACTTTTTTTGACCCAATT
1 TGGTAC-TAAACTTGATACTTTTTC-TAATTTGGTACCTAAACTTTTTTTGACCCAATT
* *
20808 TGATACTTGAACTTGATACTTTTTTCTAATTTGGTACCTAAACTTTTTTTGGACCCAATT
1 TGGTAC-TAAACTTGATAC-TTTTTCTAATTTGGTACCTAAACTTTTTTT-GACCCAATT
* * * * * * * **
20868 TGGTATCTAAACTTGGTGCTTATCCTCATTTGGTACATAATCTTTTTTTAGATTCAATT
1 TGGTA-CTAAACTTGATACTTTTTCTAATTTGGTACCTAAACTTTTTTT-GACCCAATT
20927 TGGTACCTAAA
1 TGGTA-CTAAA
20938 TTTATTAAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 82 0.74
60 28 0.25
61 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (57 bp):
TGGTACTAAACTTGATACTTTTTCTAATTTGGTACCTAAACTTTTTTTGACCCAATT
Found at i:21172 original size:29 final size:30
Alignment explanation
Indices: 21140--21202 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
21130 GACCCCCAAA
*
21140 AAGTTTAAGTACCAACTTAA-AAAAATGTC
1 AAGTTTAAGTACCAAATTAAGAAAAATGTC
* *
21169 AAGTTTAGGTGCCAAATTAAGGCAAAAATGTC
1 AAGTTTAAGTACCAAATTAA-G-AAAAATGTC
21201 AA
1 AA
21203 ATTTGAGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (30 bp):
AAGTTTAAGTACCAAATTAAGAAAAATGTC
Found at i:21532 original size:2 final size:2
Alignment explanation
Indices: 21525--21566 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
21515 TTAAGAAATA
21525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21567 TAATTAGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24722 original size:13 final size:13
Alignment explanation
Indices: 24704--24735 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
24694 TTTCCTCTAT
24704 TAACTTCACTCAC
1 TAACTTCACTCAC
24717 TAACTTCACTCAC
1 TAACTTCACTCAC
24730 TAACTT
1 TAACTT
24736 GGACGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (13 bp):
TAACTTCACTCAC
Found at i:28407 original size:51 final size:50
Alignment explanation
Indices: 28311--28413 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 50
28301 AATAGGGGTG
28311 TTAGATTATTTTATATATATATTTAATTATTTAGTGATATCTCAGTAATT
1 TTAGATTATTTTATATATATATTTAATTATTTAGTGATATCTCAGTAATT
* *
28361 TTAGATTATTTTATATATATTTTTTAATTATTTAGTGATATTTCAGTAATT
1 TTAGATTATTTTATATATA-TATTTAATTATTTAGTGATATCTCAGTAATT
28412 TT
1 TT
28414 TTCATGTCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 19 0.38
51 31 0.62
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (50 bp):
TTAGATTATTTTATATATATATTTAATTATTTAGTGATATCTCAGTAATT
Found at i:28430 original size:51 final size:50
Alignment explanation
Indices: 28322--28432 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 50
28312 TAGATTATTT
* *
28322 TATATATATATTTAATTATTTAGTGATATCTCAGTAATTTTAGATTATTTTA
1 TATATATATATTTAATTATTTAGTGATATCTCAGTAATTTT--ATTATGTCA
* *
28374 TATATAT-TTTTTAATTATTTAGTGATATTTCAGTAATTTT-TTCATGTCA
1 TATATATATATTTAATTATTTAGTGATATCTCAGTAATTTTATT-ATGTCA
28423 T-TGATATATA
1 TAT-ATATATA
28433 ATTTTGATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
48 3 0.06
49 9 0.18
50 1 0.02
51 31 0.61
52 7 0.14
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (50 bp):
TATATATATATTTAATTATTTAGTGATATCTCAGTAATTTTATTATGTCA
Found at i:29923 original size:54 final size:54
Alignment explanation
Indices: 29841--29949 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
29831 TTAGGTGGGC
* * *
29841 TTCTAATGTTAATGCTAATAGGTTTGGGTCAAATGGAAATAATAATGGTGCTTA
1 TTCTAATGCTAATGCTAATAGGTTTGGGTCAAATAGAAATAATAATGGTACTTA
* * * * *
29895 TTCTAATGCTAATGTTGATGGGTTTGGGTCCAATAGAATTAATAATGGTACTTA
1 TTCTAATGCTAATGCTAATAGGTTTGGGTCAAATAGAAATAATAATGGTACTTA
29949 T
1 T
29950 AATAGTGATA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
TTCTAATGCTAATGCTAATAGGTTTGGGTCAAATAGAAATAATAATGGTACTTA
Found at i:33860 original size:20 final size:22
Alignment explanation
Indices: 33828--33874 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
33818 TCATGAGACG
*
33828 AATTAAATATAAA-TAG-GATT
1 AATTAAATATAAACAAGTGATT
33848 AATTAAAGT-TAAACAAGTGATT
1 AATTAAA-TATAAACAAGTGATT
33870 AATTA
1 AATTA
33875 GGTTAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 11 0.48
21 3 0.13
22 9 0.39
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (22 bp):
AATTAAATATAAACAAGTGATT
Found at i:35717 original size:21 final size:21
Alignment explanation
Indices: 35693--35743 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
35683 TCTTGTTTCA
*
35693 GTAGAAGTTACACT-TGTATTG
1 GTAGAAGTTAC-CTAAGTATTG
* *
35714 GTAGAATTTTCCTAAGTATTG
1 GTAGAAGTTACCTAAGTATTG
35735 GTAGAAGTT
1 GTAGAAGTT
35744 TGCACTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (21 bp):
GTAGAAGTTACCTAAGTATTG
Found at i:36220 original size:38 final size:38
Alignment explanation
Indices: 36177--36302 Score: 103
Period size: 38 Copynumber: 3.3 Consensus size: 38
36167 AATAAAATAG
*
36177 ATATGTATATATATA-ACAGTATATATGTACAAAACAAA
1 ATATGTATATATATATACA-TATATATATACAAAACAAA
* * * * *
36215 ATATGTATATGTATATATATATATATATATAATACAAT
1 ATATGTATATATATATACATATATATATACAAAACAAA
* * * * * *
36253 ATATGTATA-AAAAATATATGTATATATATAAAACAAT
1 ATATGTATATATATATACATATATATATACAAAACAAA
* *
36290 ATATATATGTATA
1 ATATGTATATATA
36303 AAAATATATG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
37 30 0.42
38 40 0.56
39 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (38 bp):
ATATGTATATATATATACATATATATATACAAAACAAA
Found at i:36285 original size:20 final size:20
Alignment explanation
Indices: 36229--36314 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
36219 GTATATGTAT
*
36229 ATATATATATATATATAATACA
1 ATATATGTATATATATAA-A-A
36251 ATATATG----TATA-AAAA
1 ATATATGTATATATATAAAA
36266 ATATATGTATATATATAAAA
1 ATATATGTATATATATAAAA
* *
36286 CA-ATATATATATGTATAAAA
1 -ATATATGTATATATATAAAA
36306 ATATATGTA
1 ATATATGTA
36315 GAAAATATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.15
16 1 0.02
17 2 0.04
18 4 0.08
19 5 0.09
20 26 0.49
21 1 0.02
22 6 0.11
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATATGTATATATATAAAA
Found at i:36297 original size:2 final size:2
Alignment explanation
Indices: 36215--36282 Score: 52
Period size: 2 Copynumber: 35.5 Consensus size: 2
36205 ACAAAACAAA
* * *
36215 AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT A- AT AC A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
36255 AT GT AT A- AA AA AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36283 AAACAATATA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
1 3 0.06
2 50 0.94
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:36322 original size:13 final size:14
Alignment explanation
Indices: 36220--36319 Score: 53
Period size: 14 Copynumber: 6.9 Consensus size: 14
36210 ACAAAATATG
*
36220 TATATGTATATATATA
1 TATATGTATA-A-AAA
*
36236 TATATATATAATACAA
1 TATATGTATAA-A-AA
36252 TATATGTATAAAAAA
1 TATATGTAT-AAAAA
*
36267 TATATGTAT--ATA
1 TATATGTATAAAAA
** * *
36279 TATA-AAACAATATA
1 TATATGTATAA-AAA
36293 TATATGTATAAAAA
1 TATATGTATAAAAA
*
36307 TATATGTAGAAAA
1 TATATGTATAAAA
36320 TATGTATCTA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
11 1 0.02
12 6 0.09
14 21 0.32
15 17 0.26
16 19 0.29
17 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (14 bp):
TATATGTATAAAAA
Found at i:36570 original size:13 final size:14
Alignment explanation
Indices: 36546--36574 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36536 GAAAAAATGG
36546 TGGAAGGTGGGGAT
1 TGGAAGGTGGGGAT
36560 TGGAA-GTGGGGAT
1 TGGAAGGTGGGGAT
36573 TG
1 TG
36575 AAACTGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.55, T:0.24
Consensus pattern (14 bp):
TGGAAGGTGGGGAT
Found at i:38446 original size:41 final size:42
Alignment explanation
Indices: 38328--38448 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 42
38318 TGCCTATGTT
*
38328 TGGTATTGGGCCTTGAGCCTAGCAGGCTTCGTGCCAGTG-AC
1 TGGTATTGGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTAC
* * * * ** *
38369 T--TGTTAGGCTTTGAGCCTAGCAGACTTTATGTCGGTGTA-
1 TGGTATTGGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTAC
38408 TGGTATTGGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTA
1 TGGTATTGGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTA
38449 ATGATTCATA
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
39 29 0.47
40 1 0.02
41 32 0.52
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (42 bp):
TGGTATTGGGCCTTGAGCCTAGCAGGCTTCGTGCCGGTGTAC
Found at i:43757 original size:18 final size:19
Alignment explanation
Indices: 43715--43758 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
43705 GGTCAACAGA
43715 TCGGGCTCACGGGTATCAAG
1 TCGGG-TCACGGGTATCAAG
* *
43735 TCGGGTCATGGGT-TCAGG
1 TCGGGTCACGGGTATCAAG
43753 TCGGGT
1 TCGGGT
43759 ATTGGGTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.14, C:0.20, G:0.41, T:0.25
Consensus pattern (19 bp):
TCGGGTCACGGGTATCAAG
Found at i:44356 original size:13 final size:14
Alignment explanation
Indices: 44331--44359 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44321 TTAGAAGAAT
44331 TAAAAGAAAATAAA
1 TAAAAGAAAATAAA
44345 TAAAAG-AAATAAA
1 TAAAAGAAAATAAA
44358 TA
1 TA
44360 TAGGTAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
TAAAAGAAAATAAA
Found at i:46070 original size:12 final size:12
Alignment explanation
Indices: 46053--46079 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46043 TATATAATGG
46053 ATGTATTGATGT
1 ATGTATTGATGT
46065 ATGTATTGATGT
1 ATGTATTGATGT
46077 ATG
1 ATG
46080 CAAATGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (12 bp):
ATGTATTGATGT
Found at i:47912 original size:20 final size:20
Alignment explanation
Indices: 47884--47957 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
47874 TGCATATGAT
47884 TGCACTTTGGTGCCCCTGAC
1 TGCACTTTGGTGCCCCTGAC
* * *
47904 TGCATTTTGGTG-CCCTAAT
1 TGCACTTTGGTGCCCCTGAC
*
47923 TGCACTTCGGTGCCCCTGAC
1 TGCACTTTGGTGCCCCTGAC
*
47943 TGCACTTGGGTGCCC
1 TGCACTTTGGTGCCC
47958 TTATTTCTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.11, C:0.32, G:0.26, T:0.31
Consensus pattern (20 bp):
TGCACTTTGGTGCCCCTGAC
Found at i:47975 original size:39 final size:39
Alignment explanation
Indices: 47882--47958 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
47872 AATGCATATG
* * *
47882 ATTGCACTTTGGTGCCCCTGACTGCATTTTGGTGCCCTA
1 ATTGCACTTCGGTGCCCCTGACTGCACTTGGGTGCCCTA
47921 ATTGCACTTCGGTGCCCCTGACTGCACTTGGGTGCCCT
1 ATTGCACTTCGGTGCCCCTGACTGCACTTGGGTGCCCT
47959 TATTTCTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.12, C:0.31, G:0.25, T:0.32
Consensus pattern (39 bp):
ATTGCACTTCGGTGCCCCTGACTGCACTTGGGTGCCCTA
Found at i:48019 original size:20 final size:19
Alignment explanation
Indices: 47996--48068 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
47986 CTTTGGCACT
*
47996 TTTGTTTGCACTCTGGTGCC
1 TTTGTTTGCACT-TGATGCC
* *
48016 TTTGTTTGTACTTCGATACC
1 TTTGTTTGCACTT-GATGCC
* *
48036 TCTGTATGCACTATGATGCC
1 TTTGTTTGCACT-TGATGCC
48056 TTTGTTTGCACTT
1 TTTGTTTGCACTT
48069 TGGTACCTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.05
20 39 0.93
21 1 0.02
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (19 bp):
TTTGTTTGCACTTGATGCC
Found at i:48046 original size:40 final size:40
Alignment explanation
Indices: 48002--48078 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
47992 CACTTTTGTT
* * *
48002 TGCACTCTGGTGCCTTTGTTTGTACTTCGATACCTCTGTA
1 TGCACTATGATGCCTTTGTTTGCACTTCGATACCTCTGTA
* *
48042 TGCACTATGATGCCTTTGTTTGCACTTTGGTACCTCT
1 TGCACTATGATGCCTTTGTTTGCACTTCGATACCTCT
48079 ATTTAGCATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (40 bp):
TGCACTATGATGCCTTTGTTTGCACTTCGATACCTCTGTA
Found at i:50835 original size:192 final size:192
Alignment explanation
Indices: 50508--50868 Score: 566
Period size: 192 Copynumber: 1.9 Consensus size: 192
50498 GTTTAATGAT
* *
50508 TTTTATTGAAAGGCTCAACATCAAGGCTGGAATAGCTCAGTTGGCTAGAGCGTGTGGCTGTTAAC
1 TTTTATTGAAAAGCTCAACATCAAGCCTGGAATAGCTCAGTTGGCTAGAGCGTGTGGCTGTTAAC
* *
50573 CTCAAGGTCAAAGGTTCAAGCCCTCCTTCTAGCTGTTTATTTTTTGTTTAATTTCATCTTTGGTC
66 CTCAAGGTCAAAGGTTCAAGCCCTCCTTCTAGCTGTTTACTTTTAGTTTAATTTCATCTTTGGTC
** *
50638 CCTTTAAATTGCTTTTTGCTTTATTTTAGTTGCTTTCCAATATAGAATTTTACGTTAAATAA
131 CCTTTAAATTGCTTTTTGCTTTAACTTAATTGCTTTCCAATATAGAATTTTACGTTAAATAA
* *
50700 TTTTATTGAAAATCTCATCATC-AGACCTGGAATAGCTCAGTTGGCTAGAGCGTGTGGCTGTTAA
1 TTTTATTGAAAAGCTCAACATCAAG-CCTGGAATAGCTCAGTTGGCTAGAGCGTGTGGCTGTTAA
** *
50764 CC-CTAAGGTCGGAGGTTCAAGCCGTCCTTCTAGCAT-TTTACTTTTAGTTTAATTTCATCTTTG
65 CCTC-AAGGTCAAAGGTTCAAGCCCTCCTTCTAGC-TGTTTACTTTTAGTTTAATTTCATCTTTG
50827 GTCCCTTTAAATTGCTTTTTGCTTTAACTTAATTGCTTTCCA
128 GTCCCTTTAAATTGCTTTTTGCTTTAACTTAATTGCTTTCCA
50869 GCGTTGGTTT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
191 3 0.02
192 150 0.97
193 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (192 bp):
TTTTATTGAAAAGCTCAACATCAAGCCTGGAATAGCTCAGTTGGCTAGAGCGTGTGGCTGTTAAC
CTCAAGGTCAAAGGTTCAAGCCCTCCTTCTAGCTGTTTACTTTTAGTTTAATTTCATCTTTGGTC
CCTTTAAATTGCTTTTTGCTTTAACTTAATTGCTTTCCAATATAGAATTTTACGTTAAATAA
Found at i:50926 original size:64 final size:65
Alignment explanation
Indices: 50810--50930 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 65
50800 TTTACTTTTA
* * *
50810 GTTTAATTTCATCTTTGGTCCCTTTAAATTGCTTTTTGCTTTAACTTAATTGCTTTCCAGCGTTG
1 GTTTAACTTCATCTTTGGTCCCTTTAAATTGCCTTCTGCTTTAACTTAATTGCTTTCCAGCGTTG
* *
50875 GTTTAACTT-ATCTTTGGTCCCTTTAAATTGCCTTCTGCTTTAATTTGATTGCTTTC
1 GTTTAACTTCATCTTTGGTCCCTTTAAATTGCCTTCTGCTTTAACTTAATTGCTTTC
50931 TAGCAATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 43 0.84
65 8 0.16
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.51
Consensus pattern (65 bp):
GTTTAACTTCATCTTTGGTCCCTTTAAATTGCCTTCTGCTTTAACTTAATTGCTTTCCAGCGTTG
Found at i:55827 original size:19 final size:20
Alignment explanation
Indices: 55803--55848 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
55793 TCGGGCATTG
*
55803 AGCAAAGTATTTATGATGA-
1 AGCAAAGTATTTATGATCAC
*
55822 AGCAAA-T-TTTATGCTCAC
1 AGCAAAGTATTTATGATCAC
55840 AGCAAAGTA
1 AGCAAAGTA
55849 CATCGAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AGCAAAGTATTTATGATCAC
Found at i:77238 original size:17 final size:17
Alignment explanation
Indices: 77216--77272 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
77206 AATTCTCACC
*
77216 ACATTTCCTTTGTCATT
1 ACATTTACTTTGTCATT
*
77233 ACATTTTAATTT-TCATT
1 ACA-TTTACTTTGTCATT
* * *
77250 GCATATACATTGTCATT
1 ACATTTACTTTGTCATT
77267 ACATTT
1 ACATTT
77273 CCATGTGTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 5 0.17
17 19 0.63
18 6 0.20
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (17 bp):
ACATTTACTTTGTCATT
Found at i:87092 original size:10 final size:10
Alignment explanation
Indices: 87079--87116 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
87069 TCGGGTTTGC
87079 TCGGAGTTCA
1 TCGGAGTTCA
87089 TCGGAGTTCA
1 TCGGAGTTCA
*
87099 TCGAAGTTCA
1 TCGGAGTTCA
87109 TCGGAGTT
1 TCGGAGTT
87117 TGTTCTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (10 bp):
TCGGAGTTCA
Found at i:87566 original size:29 final size:30
Alignment explanation
Indices: 87533--87597 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
87523 TAATTAATAT
* *
87533 TTATTGTCA-TTATTACTATGATTATATTG
1 TTATTGTCATTTAATACTATAATTATATTG
* *
87562 TTATT-TTATTTAATACTATAATTATATTT
1 TTATTGTCATTTAATACTATAATTATATTG
87591 TTATTGT
1 TTATTGT
87598 GTTATTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 27 0.90
30 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (30 bp):
TTATTGTCATTTAATACTATAATTATATTG
Found at i:94139 original size:32 final size:32
Alignment explanation
Indices: 94103--94168 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
94093 GAGATTCAGA
94103 TATTATTGGTCAACCATGGAAGGAGATTGCAT
1 TATTATTGGTCAACCATGGAAGGAGATTGCAT
*
94135 TATTATTGGTCGACCATGGAAGGAGATTGCAT
1 TATTATTGGTCAACCATGGAAGGAGATTGCAT
94167 TA
1 TA
94169 GATATGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (32 bp):
TATTATTGGTCAACCATGGAAGGAGATTGCAT
Found at i:96129 original size:49 final size:49
Alignment explanation
Indices: 96061--96177 Score: 137
Period size: 49 Copynumber: 2.4 Consensus size: 49
96051 CCTAGAGTTG
* *
96061 AAGAGGGATAGGTTAAAGCCGCAAGGGCT-AACCTAACACCTTAAAACCA
1 AAGAGGGAAAGATTAAAGCCGCAAGGG-TGAACCTAACACCTTAAAACCA
* * * * * *
96110 AAGAGGGACAGATTGAAGCCGTAATGGTGGATCTAACACCTTAAAACCA
1 AAGAGGGAAAGATTAAAGCCGCAAGGGTGAACCTAACACCTTAAAACCA
*
96159 AAAAGGGAAAGATTAAAGC
1 AAGAGGGAAAGATTAAAGC
96178 TACAATGGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (49 bp):
AAGAGGGAAAGATTAAAGCCGCAAGGGTGAACCTAACACCTTAAAACCA
Found at i:96185 original size:49 final size:49
Alignment explanation
Indices: 96093--96426 Score: 165
Period size: 49 Copynumber: 6.8 Consensus size: 49
96083 AAGGGCTAAC
* * * **
96093 CTAACACCTTAAAACCAAAGAGGGACAGATTGAAGCCGTAATGGTGGAT
1 CTAACACCTTAAAACCAAAAAGGGAAAGATTAAAGCCACAATGGTGGAT
*
96142 CTAACACCTTAAAACCAAAAAGGGAAAGATTAAAGCTACAATGGTGGAT
1 CTAACACCTTAAAACCAAAAAGGGAAAGATTAAAGCCACAATGGTGGAT
* **** * * * * * ** * ** *
96191 CTTACACCTTAAAGTTGAAGAGGGATAGGTTGAAGTCGTAACGACGGAC
1 CTAACACCTTAAAACCAAAAAGGGAAAGATTAAAGCCACAATGGTGGAT
* * * *
96240 CTAACACC-TAAAA-CAGAAGAGGGAAAGATTGAAGTCAC-A-GCATGGAT
1 CTAACACCTTAAAACCA-AAAAGGGAAAGATTAAAGCCACAATG-GTGGAT
* * * * * * * * *
96287 GTTACATCTTAAAACCAAAGAGGGATAAG-TTGAATCCATAATGGTAGAC
1 CTAACACCTTAAAACCAAAAAGGGA-AAGATTAAAGCCACAATGGTGGAT
* * * * * * * *
96336 CTAAGACCCTAAAATCAAAGAGAGATAGATTGAAGCCACAATGATGGAT
1 CTAACACCTTAAAACCAAAAAGGGAAAGATTAAAGCCACAATGGTGGAT
* * * * *
96385 CTAACACCCTAAAATCGAAGAGGGAACAGATTGAAGCCACAA
1 CTAACACCTTAAAACCAAAAAGGGAA-AGATTAAAGCCACAA
96427 CGACGAATCT
Statistics
Matches: 217, Mismatches: 59, Indels: 17
0.74 0.20 0.06
Matches are distributed among these distances:
46 1 0.00
47 10 0.05
48 44 0.20
49 146 0.67
50 16 0.07
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (49 bp):
CTAACACCTTAAAACCAAAAAGGGAAAGATTAAAGCCACAATGGTGGAT
Found at i:96442 original size:50 final size:49
Alignment explanation
Indices: 96336--96449 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 49
96326 AATGGTAGAC
* * * * *
96336 CTAAGACCCTAAAATCAAAGAGAGATAGATTGAAGCCACAATGATGGAT
1 CTAACACCCTAAAATCAAAGAGAGACAGATTGAAGCCACAACGACGAAT
* *
96385 CTAACACCCTAAAATCGAAGAGGGAACAGATTGAAGCCACAACGACGAAT
1 CTAACACCCTAAAATCAAAGAGAG-ACAGATTGAAGCCACAACGACGAAT
*
96435 CTTACACCCCTAAAA
1 CTAACA-CCCTAAAA
96450 AATGTGGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 21 0.38
50 26 0.47
51 8 0.15
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.16
Consensus pattern (49 bp):
CTAACACCCTAAAATCAAAGAGAGACAGATTGAAGCCACAACGACGAAT
Found at i:96858 original size:161 final size:162
Alignment explanation
Indices: 96589--96898 Score: 487
Period size: 161 Copynumber: 1.9 Consensus size: 162
96579 TTACATCATC
*
96589 CCATCCAATCTCTTCCCCCAACCATGGGACAGATTGAAGAACATCCAATCTTTTACCCTAACCAG
1 CCATCCAATCTCTTACCCCAACCATGGGACAGATTGAAGAACATCCAATCTTTTACCCTAACCAG
** *
96654 AGGGCAAATTGAAAACACCATCAAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCAGCCAAT
66 AGGGCAAATTGAAAACACCATCAAATCTCTTACCCAAACCATGGGGCAGATTGAAGCCAGCCAAT
*
96719 CTTTTACCCTAACCAGAGGTAGATTGAAGACA
131 ATTTTACCCTAACCAGAGGTAGATTGAAGACA
* ** * *
96751 CCATCCAATCTCTTACCCCGACCATGGGGTAGATTGAAG-TCATCCAATCTTTTACCCTAACTAG
1 CCATCCAATCTCTTACCCCAACCATGGGACAGATTGAAGAACATCCAATCTTTTACCCTAACCAG
* * * *
96815 AGGGCAGATTGAAGACACCATCCAATCTCTTACCCAAACCATGGGGCAGATTGAAGCCATCCAAT
66 AGGGCAAATTGAAAACACCATCAAATCTCTTACCCAAACCATGGGGCAGATTGAAGCCAGCCAAT
96880 ATTTTACCCTAACCAGAGG
131 ATTTTACCCTAACCAGAGG
96899 GCAAATTGAA
Statistics
Matches: 134, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
161 99 0.74
162 35 0.26
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (162 bp):
CCATCCAATCTCTTACCCCAACCATGGGACAGATTGAAGAACATCCAATCTTTTACCCTAACCAG
AGGGCAAATTGAAAACACCATCAAATCTCTTACCCAAACCATGGGGCAGATTGAAGCCAGCCAAT
ATTTTACCCTAACCAGAGGTAGATTGAAGACA
Found at i:96859 original size:81 final size:81
Alignment explanation
Indices: 96589--96909 Score: 482
Period size: 81 Copynumber: 4.0 Consensus size: 81
96579 TTACATCATC
* * *
96589 CCATCCAATCTCTTCCCCCAACCATGGGACAGATTGAAGAACATCCAATCTTTTACCCTAACCAG
1 CCATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAG-TCATCCAATCTTTTACCCTAACCAG
*
96654 AGGGCAAATTGAAAACA
65 AGGGCAAATTGAAGACA
* * *
96671 CCATCAAATCTCTTACCCCGACCATGGGGCAGATTGAAGTCAGCCAATCTTTTACCCTAACCAGA
1 CCATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAGA
* *
96736 -GGTAGATTGAAGACA
66 GGGCAAATTGAAGACA
* * *
96751 CCATCCAATCTCTTACCCCGACCATGGGGTAGATTGAAGTCATCCAATCTTTTACCCTAACTAGA
1 CCATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAGA
*
96816 GGGCAGATTGAAGACA
66 GGGCAAATTGAAGACA
* * *
96832 CCATCCAATCTCTTACCCAAACCATGGGGCAGATTGAAGCCATCCAATATTTTACCCTAACCAGA
1 CCATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAGA
96897 GGGCAAATTGAAG
66 GGGCAAATTGAAG
96910 TTACAACACC
Statistics
Matches: 217, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
80 73 0.34
81 109 0.50
82 35 0.16
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (81 bp):
CCATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGTCATCCAATCTTTTACCCTAACCAGA
GGGCAAATTGAAGACA
Found at i:104261 original size:26 final size:26
Alignment explanation
Indices: 104152--104261 Score: 87
Period size: 26 Copynumber: 4.2 Consensus size: 26
104142 GCTTCGTGTT
* *
104152 GGTGATTATATACCAGGCTTTGAACC
1 GGTGATTATATATCAGGCTTTGAGCC
* * **
104178 GGTGATTATATATCAAG-TTTTATGTT
1 GGTGATTATATATCAGGCTTTGA-GCC
* * * *
104204 GGTGATTTTATCTTAGGCTTTGTGCC
1 GGTGATTATATATCAGGCTTTGAGCC
** *
104230 AATGATTATCTATCAGGCTTTGAGCC
1 GGTGATTATATATCAGGCTTTGAGCC
104256 GGTGAT
1 GGTGAT
104262 ATAGACTGTA
Statistics
Matches: 59, Mismatches: 23, Indels: 4
0.69 0.27 0.05
Matches are distributed among these distances:
25 4 0.07
26 52 0.88
27 3 0.05
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.40
Consensus pattern (26 bp):
GGTGATTATATATCAGGCTTTGAGCC
Found at i:104940 original size:30 final size:29
Alignment explanation
Indices: 104906--105047 Score: 135
Period size: 30 Copynumber: 4.8 Consensus size: 29
104896 AAAATTATTT
104906 TTTAACCCCTAAACTTTTCAAAAATT-TGAA
1 TTTAACCCCTAAA-TTTTCAAAAATTCT-AA
* *
104936 TTTAA-ACCTCAATTTTCCAAAAATTCTAA
1 TTTAACCCCTAAATTTT-CAAAAATTCTAA
* * *
104965 TTTGACCCCTAAATTTTAAAAAAATTCAAA
1 TTTAACCCCTAAATTTT-CAAAAATTCTAA
* * * *
104995 TTTGACCCTTGAACTTCTCAAAAATTCTAA
1 TTTAACCCCT-AAATTTTCAAAAATTCTAA
*
105025 TTTAAGCCCTAAATTTTCAAAAA
1 TTTAACCCCTAAATTTTCAAAAA
105048 AATTTGATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
28 4 0.04
29 30 0.33
30 51 0.57
31 5 0.06
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.36
Consensus pattern (29 bp):
TTTAACCCCTAAATTTTCAAAAATTCTAA
Found at i:104966 original size:29 final size:29
Alignment explanation
Indices: 104906--105080 Score: 115
Period size: 30 Copynumber: 5.9 Consensus size: 29
104896 AAAATTATTT
104906 TTTAACCCCTAAACTTTT-CAAAAATT-TGAA
1 TTTAA-CCCTAAA-TTTTCCAAAAATTCT-AA
* *
104936 TTTAAACCTCAATTTTCCAAAAATTCTAA
1 TTTAACCCTAAATTTTCCAAAAATTCTAA
* ** *
104965 TTTGACCCCTAAATTTTAAAAAAATTCAAA
1 TTT-AACCCTAAATTTTCCAAAAATTCTAA
* * *
104995 TTTGACCCTTGAA-CTTCTCAAAAATTCTAA
1 TTTAACCC-TAAATTTTC-CAAAAATTCTAA
* *
105025 TTTAAGCCCTAAATTTTCAAAAAAATT-TGA
1 TTTAA-CCCTAAATTTTC-CAAAAATTCTAA
* * *
105055 TTTGACCCTTGAAGTTTCCAAAAATT
1 TTTAACCC-TAAATTTTCCAAAAATT
105081 TAAATCTGAC
Statistics
Matches: 112, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
28 4 0.04
29 33 0.29
30 62 0.55
31 13 0.12
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTAACCCTAAATTTTCCAAAAATTCTAA
Found at i:105036 original size:60 final size:60
Alignment explanation
Indices: 104906--105080 Score: 196
Period size: 60 Copynumber: 2.9 Consensus size: 60
104896 AAAATTATTT
* * * * * *
104906 TTTAACCCCTAAACTTTTC-AAAAATTTGAATTTAAACC-TCAATTTTCCAAAAATTCTAA
1 TTTAACCCCTAAA-TTTTCAAAAAAATTAAATTTGACCCTTGAACTTTCCAAAAATTCTAA
*
104965 TTTGACCCCTAAATTTT-AAAAAAATTCAAATTTGACCCTTGAAC-TTCTCAAAAATTCTAA
1 TTTAACCCCTAAATTTTCAAAAAAATT-AAATTTGACCCTTGAACTTTC-CAAAAATTCTAA
* ** *
105025 TTTAAGCCCTAAATTTTCAAAAAAATTTGATTTGACCCTTGAAGTTTCCAAAAATT
1 TTTAACCCCTAAATTTTCAAAAAAATTAAATTTGACCCTTGAACTTTCCAAAAATT
105081 TAAATCTGAC
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
58 11 0.11
59 23 0.23
60 52 0.53
61 12 0.12
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (60 bp):
TTTAACCCCTAAATTTTCAAAAAAATTAAATTTGACCCTTGAACTTTCCAAAAATTCTAA
Found at i:105174 original size:31 final size:30
Alignment explanation
Indices: 105100--105176 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
105090 CCTAGTTTTA
*
105100 ATGTA-ATTTTTTTA-TTTATTTTATCCTAT
1 ATGTATATTTTTTTATTTTATTGTAT-CTAT
* *
105129 ATGTATATTATTTTATTTTATTGTAT-TTT
1 ATGTATATTTTTTTATTTTATTGTATCTAT
105158 ATGTATAGATTTTTTTATT
1 ATGTAT--ATTTTTTTATT
105177 ATGTATACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 13 0.32
30 8 0.20
31 19 0.47
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (30 bp):
ATGTATATTTTTTTATTTTATTGTATCTAT
Found at i:107692 original size:36 final size:36
Alignment explanation
Indices: 107645--107718 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
107635 AAGCAAGTCG
107645 AAGATAAAGATTATATTGCGAATGAAGCTTTGTTCC
1 AAGATAAAGATTATATTGCGAATGAAGCTTTGTTCC
107681 AAGATAAAGATTATATTGCGAATGAAGCTTTGTTCC
1 AAGATAAAGATTATATTGCGAATGAAGCTTTGTTCC
107717 AA
1 AA
107719 AGGCGAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (36 bp):
AAGATAAAGATTATATTGCGAATGAAGCTTTGTTCC
Found at i:110049 original size:20 final size:21
Alignment explanation
Indices: 110026--110064 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
110016 GTTGCTCTTT
110026 AACAATTCTTAT-TTTTTACC
1 AACAATTCTTATCTTTTTACC
* *
110046 AACATTTGTTATCTTTTTA
1 AACAATTCTTATCTTTTTA
110065 ATGATTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (21 bp):
AACAATTCTTATCTTTTTACC
Found at i:110728 original size:49 final size:49
Alignment explanation
Indices: 110575--110994 Score: 229
Period size: 49 Copynumber: 8.6 Consensus size: 49
110565 TATAGGTTTG
* * * * *
110575 AAGGGAAAGATTGAAGCCGCAATGGCAAATC-TGATACCCTAGAGATATA
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTG-TACCCTAGAGATGTA
* * ** * * * * * * * *
110624 AAGAGAAAGGTTGAAGTTGCAACGGCAAATCTTGCACCTTAGGGACGTG
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATGTA
** * * * * *
110673 GTGGGAAAGATTGAAGCTGCGAC-AGTGAATCTTGTACCCTAGAGATTTA
1 AAGGGAAAGATTGAAGCCGCAACGA-CGAACCTTGTACCCTAGAGATGTA
* * *
110722 AAGGGAAAAATTGAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTG
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATGTA
* * * * * *
110771 AAGGGAAAGATTAAAGCCACAACGACAAATC-TGATACCCTAGAGATATG
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTG-TACCCTAGAGATGTA
* * * * * * ** *
110820 AAGAGAAAGGTTGAAGCCGCAATGGCGAGCCTTGTA-CCTCAGGGACATG
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTGTACCCT-AGAGATGTA
* * * ** * * * * *
110869 ATGAGAAAGATTGAAGCCGCGACGGTGAATCTTGTACCATAGAGTTATG
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATGTA
* * * * * *
110918 GAGGGAAAGGTTGAAGCCACAACGACAAACCTTGTACCTTAGAGATGTG
1 AAGGGAAAGATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATGTA
**
110967 AAGGGAAAGATTG-AGCCATAACGACGAA
1 AAGGGAAAGATTGAAGCCGCAACGACGAA
110995 TCTTACACCT
Statistics
Matches: 282, Mismatches: 82, Indels: 15
0.74 0.22 0.04
Matches are distributed among these distances:
48 18 0.06
49 257 0.91
50 7 0.02
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (49 bp):
AAGGGAAAGATTGAAGCCGCAACGACGAACCTTGTACCCTAGAGATGTA
Found at i:110761 original size:98 final size:97
Alignment explanation
Indices: 110573--110980 Score: 381
Period size: 98 Copynumber: 4.2 Consensus size: 97
110563 TCTATAGGTT
* *
110573 TGAAGGGAAAGATTGAAGCCGCAATG-GCAAATC-TGATACCCTAGAGATATAAAGAGAAAGGTT
1 TGAAGGGAAAGATTGAAGCCGCGACGTG--AATCTTG-TACCCTAGAGATATAAAGAGAAAGGTT
** * * * *
110636 GAAGTTGCAACGGCAAATCTTGCACCTTAGGGACG
63 GAAGCCGCAACGACAAACCTTGTACCTTAGAGACG
** * * * **
110671 TGGTGGGAAAGATTGAAGCTGCGACAGTGAATCTTGTACCCTAGAGATTTAAAGGGAAAAATTGA
1 TGAAGGGAAAGATTGAAGCCGCGAC-GTGAATCTTGTACCCTAGAGATATAAAGAGAAAGGTTGA
* *
110736 AGCCGCAACGACGAACCTTGTACCTTAGAGATG
65 AGCCGCAACGACAAACCTTGTACCTTAGAGACG
* * * ** *
110769 TGAAGGGAAAGATTAAAGCCACAACGACAAATC-TGATACCCTAGAGATATGAAGAGAAAGGTTG
1 TGAAGGGAAAGATTGAAGCCGCGACG-TGAATCTTG-TACCCTAGAGATATAAAGAGAAAGGTTG
* * * * * * *
110833 AAGCCGCAATGGCGAGCCTTGTACCTCAGGGACA
64 AAGCCGCAACGACAAACCTTGTACCTTAGAGACG
* * * * ** *
110867 TGATGAGAAAGATTGAAGCCGCGACGGTGAATCTTGTACCATAGAGTTATGGAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCGAC-GTGAATCTTGTACCCTAGAGATATAAAGAGAAAGGTTGA
* *
110932 AGCCACAACGACAAACCTTGTACCTTAGAGATG
65 AGCCGCAACGACAAACCTTGTACCTTAGAGACG
110965 TGAAGGGAAAGATTGA
1 TGAAGGGAAAGATTGA
110981 GCCATAACGA
Statistics
Matches: 244, Mismatches: 59, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
97 3 0.01
98 234 0.96
99 6 0.02
100 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (97 bp):
TGAAGGGAAAGATTGAAGCCGCGACGTGAATCTTGTACCCTAGAGATATAAAGAGAAAGGTTGAA
GCCGCAACGACAAACCTTGTACCTTAGAGACG
Found at i:110854 original size:147 final size:147
Alignment explanation
Indices: 110703--110980 Score: 326
Period size: 147 Copynumber: 1.9 Consensus size: 147
110693 GACAGTGAAT
** * *
110703 CTTGTACC-CTAGAGATTTAAAGGGAAAAATTGAAGCCGCAACGACGAACCTTGTACCTTAGAGA
1 CTTGTACCTC-AGAGACATAAAGAGAAAAATTGAAGCCGCAACGACGAACCTTGTACCATAGAGA
* * *
110767 TGTGAAGGGAAAGATTAAAGCCACAACGACAAATC-TGATACCCTAGAGATATGAAGAGAAAGGT
65 TATGAAGGGAAAGATTAAAGCCACAACGACAAACCTTG-TACCCTAGAGATATGAAGAGAAAGAT
110831 TGAAGCCGCAATGGCGAGC
129 TGAAGCCGCAATGGCGAGC
* * * * * ** * *
110850 CTTGTACCTCAGGGACATGATGAGAAAGATTGAAGCCGCGACGGTGAATCTTGTACCATAGAGTT
1 CTTGTACCTCAGAGACATAAAGAGAAAAATTGAAGCCGCAACGACGAACCTTGTACCATAGAGAT
* * * * * *
110915 ATGGAGGGAAAGGTTGAAGCCACAACGACAAACCTTGTACCTTAGAGATGTGAAGGGAAAGATTG
66 ATGAAGGGAAAGATTAAAGCCACAACGACAAACCTTGTACCCTAGAGATATGAAGAGAAAGATTG
110980 A
131 A
110981 GCCATAACGA
Statistics
Matches: 107, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
147 104 0.97
148 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (147 bp):
CTTGTACCTCAGAGACATAAAGAGAAAAATTGAAGCCGCAACGACGAACCTTGTACCATAGAGAT
ATGAAGGGAAAGATTAAAGCCACAACGACAAACCTTGTACCCTAGAGATATGAAGAGAAAGATTG
AAGCCGCAATGGCGAGC
Found at i:110925 original size:196 final size:195
Alignment explanation
Indices: 110573--110997 Score: 573
Period size: 196 Copynumber: 2.2 Consensus size: 195
110563 TCTATAGGTT
* * *
110573 TGAAGGGAAAGATTGAAGCCGCAATGGCAAATCTGATACCCTAGAGATATAAAGAGAAAGGTTGA
1 TGAAGGGAAAGATT-AAGCCACAACGACAAATCTGATACCCTAGAGATATAAAGAGAAAGGTTGA
** * * * * * *
110638 AGTTGCAACGGCAAATCTTGCACCTTAGGGACGTGGTGGGAAAGATTGAAGCTGCGACAGTGAAT
65 AGCCGCAACGGCAAACCTTGCACCTCAGGGACATGATGAGAAAGATTGAAGCCGCGACAGTGAAT
* * *
110703 CTTGTACCCTAGAGATTTAAAGGGAAAAATTGAAGCCGCAACGACGAACCTTGTACCTTAGAGAT
130 CTTGTACCATAGAGATTTAAAGGGAAAAATTGAAGCCACAACGACAAACCTTGTACCTTAGAGAT
110768 G
195 G
*
110769 TGAAGGGAAAGATTAAAGCCACAACGACAAATCTGATACCCTAGAGATATGAAGAGAAAGGTTGA
1 TGAAGGGAAAGATT-AAGCCACAACGACAAATCTGATACCCTAGAGATATAAAGAGAAAGGTTGA
* * * * *
110834 AGCCGCAATGGCGAGCCTTGTACCTCAGGGACATGATGAGAAAGATTGAAGCCGCGACGGTGAAT
65 AGCCGCAACGGCAAACCTTGCACCTCAGGGACATGATGAGAAAGATTGAAGCCGCGACAGTGAAT
** **
110899 CTTGTACCATAGAG-TTATGGAGGGAAAGGTTGAAGCCACAACGACAAACCTTGTACCTTAGAGA
130 CTTGTACCATAGAGATT-TAAAGGGAAAAATTGAAGCCACAACGACAAACCTTGTACCTTAGAGA
110963 TG
194 TG
* * *
110965 TGAAGGGAAAGATTGAGCCATAACGACGAATCT
1 TGAAGGGAAAGATTAAGCCACAACGACAAATCT
110998 TACACCTTGA
Statistics
Matches: 200, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
195 18 0.09
196 182 0.91
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.20
Consensus pattern (195 bp):
TGAAGGGAAAGATTAAGCCACAACGACAAATCTGATACCCTAGAGATATAAAGAGAAAGGTTGAA
GCCGCAACGGCAAACCTTGCACCTCAGGGACATGATGAGAAAGATTGAAGCCGCGACAGTGAATC
TTGTACCATAGAGATTTAAAGGGAAAAATTGAAGCCACAACGACAAACCTTGTACCTTAGAGATG
Found at i:112255 original size:23 final size:23
Alignment explanation
Indices: 112229--112289 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
112219 GGGACATGAG
112229 GTGCGAAACAGTAAGCACACGA-A
1 GTGCGAAACAGTAAGCACAC-ACA
* *
112252 GTGCAAAACATTAAGCACACACA
1 GTGCGAAACAGTAAGCACACACA
112275 GTGCTG-AACAGTAAG
1 GTGC-GAAACAGTAAG
112290 TGTGCTAGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (23 bp):
GTGCGAAACAGTAAGCACACACA
Found at i:112391 original size:24 final size:26
Alignment explanation
Indices: 112353--112400 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
112343 TCTACATGGG
112353 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
112379 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
112401 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:119247 original size:22 final size:22
Alignment explanation
Indices: 119196--119271 Score: 116
Period size: 23 Copynumber: 3.4 Consensus size: 22
119186 AAGTACTTAA
*
119196 CAGTAGGCACACACAGCGCAAT
1 CAGTAGGCGCACACAGCGCAAT
119218 CCAGTAGGCGCACACAGCGCAAT
1 -CAGTAGGCGCACACAGCGCAAT
*
119241 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCGCACACAGCGC-AAT
119264 CAGTAGGC
1 CAGTAGGC
119272 ACACGAGGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
22 18 0.36
23 32 0.64
ACGTcount: A:0.33, C:0.30, G:0.26, T:0.11
Consensus pattern (22 bp):
CAGTAGGCGCACACAGCGCAAT
Found at i:119305 original size:23 final size:24
Alignment explanation
Indices: 119260--119344 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 24
119250 CACATAGCGC
* *
119260 AAATCAGTAGGCACACGAGGTGCA
1 AAATCAGTAAGCACACGAAGTGCA
* *
119284 AAAT-AGTAAGCACATGAAGTGCG
1 AAATCAGTAAGCACACGAAGTGCA
* * **
119307 AAA-CAATAAGAACAC-ACAGTGTG
1 AAATCAGTAAGCACACGA-AGTGCA
119330 AAA-CAGTAAGCACAC
1 AAATCAGTAAGCACAC
119345 TAGTGTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.90
24 4 0.08
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (24 bp):
AAATCAGTAAGCACACGAAGTGCA
Found at i:119441 original size:24 final size:26
Alignment explanation
Indices: 119403--119450 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
119393 TCTACATGGA
119403 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
119429 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
119451 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:119909 original size:24 final size:26
Alignment explanation
Indices: 119871--119918 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
119861 TCTACATGGA
119871 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
119897 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
119919 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:123266 original size:20 final size:20
Alignment explanation
Indices: 123241--123282 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
123231 CAAAGTGAGC
123241 ATTTGATTCAAATACTTAGA
1 ATTTGATTCAAATACTTAGA
123261 ATTTGATTCAAATACTTAGA
1 ATTTGATTCAAATACTTAGA
123281 AT
1 AT
123283 GATTATTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTTGATTCAAATACTTAGA
Found at i:125948 original size:18 final size:18
Alignment explanation
Indices: 125925--125960 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
125915 GCAGCTGTAC
*
125925 AAGTTAGTTACTGCAACT
1 AAGTTAGTTACTCCAACT
125943 AAGTTAGTTACTCCAACT
1 AAGTTAGTTACTCCAACT
125961 GTACACTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
AAGTTAGTTACTCCAACT
Found at i:127760 original size:28 final size:28
Alignment explanation
Indices: 127721--127879 Score: 166
Period size: 28 Copynumber: 5.6 Consensus size: 28
127711 ATAAAAATGT
127721 AAAATATGAAAAATAGGGGTAAAA-TTGA
1 AAAATAT-AAAAATAGGGGTAAAACTTGA
* * *
127749 AAATTATAAAAATAGGGGAAAAACTTTA
1 AAAATATAAAAATAGGGGTAAAACTTGA
127777 AAAATATTAAAAATAGGGGTAAAA-TTGA
1 AAAATA-TAAAAATAGGGGTAAAACTTGA
*
127805 AAAATATAAAAATAAGGGG-AAAACTTAA
1 AAAATATAAAAAT-AGGGGTAAAACTTGA
* *
127833 AAAATATGAAGAATAGGGGCAAAAC-T-A
1 AAAATAT-AAAAATAGGGGTAAAACTTGA
*
127860 TAAAATCTAAAAAATAGGGG
1 -AAAATAT-AAAAATAGGGG
127880 ACATGTGGTC
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
27 27 0.24
28 60 0.53
29 26 0.23
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAATATAAAAATAGGGGTAAAACTTGA
Found at i:127781 original size:56 final size:56
Alignment explanation
Indices: 127721--127880 Score: 218
Period size: 56 Copynumber: 2.8 Consensus size: 56
127711 ATAAAAATGT
*
127721 AAAATATGAAAAATAGGGGTAAAATTGAAAATTATAAAAATAGGGGAAAAACTTTA
1 AAAATATGAAAAATAGGGGTAAAATTGAAAATTATAAAAATAGGGGAAAAACTTAA
* *
127777 AAAATATTAAAAATAGGGGTAAAATTGAAAAATATAAAAATAAGGGG-AAAACTTAA
1 AAAATATGAAAAATAGGGGTAAAATTGAAAATTATAAAAAT-AGGGGAAAAACTTAA
* *
127833 AAAATATGAAGAATAGGGGCAAAACTAT-AAAATCTA-AAAAATAGGGGA
1 AAAATATGAAAAATAGGGGTAAAA-T-TGAAAAT-TATAAAAATAGGGGA
127881 CATGTGGTCT
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
56 73 0.79
57 16 0.17
58 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (56 bp):
AAAATATGAAAAATAGGGGTAAAATTGAAAATTATAAAAATAGGGGAAAAACTTAA
Found at i:131063 original size:18 final size:19
Alignment explanation
Indices: 131035--131076 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
131025 GTATTTCATT
*
131035 TTTTTTATATTGTTATATA
1 TTTTTTATATTGTTAAATA
*
131054 TTTTTT-TATTTTTAAATA
1 TTTTTTATATTGTTAAATA
131072 TTTTT
1 TTTTT
131077 AAATTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTATATTGTTAAATA
Found at i:136315 original size:2 final size:2
Alignment explanation
Indices: 136308--136344 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
136298 ATCAATTTGA
*
136308 TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
136345 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:137330 original size:25 final size:23
Alignment explanation
Indices: 137290--137335 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
137280 CCAATTAGGG
137290 AATTATTGTTTAAATTTAATTCA
1 AATTATTGTTTAAATTTAATTCA
*
137313 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTA-AATTTAATT
137336 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTGTTTAAATTTAATTCA
Found at i:138425 original size:18 final size:19
Alignment explanation
Indices: 138404--138446 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
138394 TTTAGCCATT
138404 TTTTATTATTT-ATTTTTA
1 TTTTATTATTTCATTTTTA
138422 TTTTATTATTTGCATTTTTA
1 TTTTATTATTT-CATTTTTA
*
138442 ATTTA
1 TTTTA
138447 ATTTTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTATTATTTCATTTTTA
Found at i:138456 original size:13 final size:12
Alignment explanation
Indices: 138435--138465 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
138425 TATTATTTGC
138435 ATTTTTAATTTA
1 ATTTTTAATTTA
138447 ATTTTCTAATTTA
1 ATTTT-TAATTTA
138460 ATTTTT
1 ATTTTT
138466 CCCTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTTAATTTA
Found at i:148516 original size:59 final size:58
Alignment explanation
Indices: 148448--148740 Score: 372
Period size: 59 Copynumber: 5.0 Consensus size: 58
148438 AGATGTTCGA
* * * *
148448 GGGTAAAAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAATAGGATTTTTGAAAG-TTTG
1 GGGTCAAAAATGG-ATTTTTGGAAG-TTTGGGGGTAAAAATAGAATTTTTGGAAGTTTTG
*
148507 GGGTCAAAAATAGGATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTTG
1 GGGTCAAAAAT-GGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTTG
* * * *
148566 GGGTCAAAAATAGTATTTTTGGAAGTTCGAGGGTAAAAATATAATTTTTGGAAGTTTTG
1 GGGTCAAAAAT-GGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTTG
* * * *
148625 GGGTTAAAAAAAGGATTTTTGGAAGTTTGGGGGTAAAAATATAATTTTTGGAAGTTTTA
1 GGG-TCAAAAATGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTTG
* * * *
148684 GGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAACAGAACTTTTGGAAGTTT
1 GGGTCAAAAAT-GGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTT
148741 CGGGACCTCC
Statistics
Matches: 207, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
58 31 0.15
59 168 0.81
60 8 0.04
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.35
Consensus pattern (58 bp):
GGGTCAAAAATGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTTG
Found at i:148711 original size:118 final size:118
Alignment explanation
Indices: 148447--148740 Score: 423
Period size: 118 Copynumber: 2.5 Consensus size: 118
148437 TAGATGTTCG
* * * *
148447 AGGGTAAAAAAT-GGAATTTTTGGAAGTTTTG-GGGTTAAAAATAGGATTTTTGAAAG-TTTGGG
1 AGGGTCAAAAATAGG-ATTTTTGGAAG-TTCGAGGG-TAAAAATAGAATTTTTGGAAGTTTTGGG
* *
148509 GTCAAAAATAGGATTTTTGGAAGTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTT
63 GTCAAAAAAAGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTT
* * * *
148565 GGGGTCAAAAATAGTATTTTTGGAAGTTCGAGGGTAAAAATATAATTTTTGGAAGTTTTGGGGTT
1 AGGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTC
*
148630 AAAAAAAGGATTTTTGGAAGTTTGGGGGTAAAAATATAATTTTTGGAAGTTTT
66 AAAAAAAGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTT
* *
148683 AGGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAACAGAACTTTTGGAAGTTT
1 AGGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTTTGGAAGTTT
148741 CGGGACCTCC
Statistics
Matches: 157, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
117 21 0.13
118 135 0.86
119 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.35
Consensus pattern (118 bp):
AGGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATAGAATTTTTGGAAGTTTTGGGGTC
AAAAAAAGGATTTTTGGAAGTTTGGGGGTAAAAATAGAATTTTTGGAAGTTTT
Found at i:148722 original size:29 final size:29
Alignment explanation
Indices: 148411--148740 Score: 314
Period size: 29 Copynumber: 11.2 Consensus size: 29
148401 TGATTTTAAG
* * *
148411 AGTTTCGAGGTTAAAAAT-GGAGATTTTAGA
1 AGTTT-GAGGGTAAAAATAGGA-TTTTTGGA
* *
148441 TGTTCGAGGGTAAAAA-ATGGAATTTTTGGA
1 AGTTTGAGGGTAAAAATA-GG-ATTTTTGGA
*
148471 AGTTTTG-GGGTTAAAAATAGGATTTTTGAA
1 AG-TTTGAGGG-TAAAAATAGGATTTTTGGA
148501 AGTTTG-GGGTCAAAAATAGGATTTTTGGA
1 AGTTTGAGGGT-AAAAATAGGATTTTTGGA
*
148530 AGTTTGGGGGTAAAAAT-GGAATTTTTGGA
1 AGTTTGAGGGTAAAAATAGG-ATTTTTGGA
*
148559 AGTTTTG-GGGTCAAAAATAGTATTTTTGGA
1 AG-TTTGAGGGT-AAAAATAGGATTTTTGGA
* **
148589 AGTTCGAGGGTAAAAATATAATTTTTGGA
1 AGTTTGAGGGTAAAAATAGGATTTTTGGA
*
148618 AGTTTTG-GGGTTAAAAAAAGGATTTTTGGA
1 AG-TTTGAGGG-TAAAAATAGGATTTTTGGA
* **
148648 AGTTTGGGGGTAAAAATATAATTTTTGGA
1 AGTTTGAGGGTAAAAATAGGATTTTTGGA
*
148677 AGTTTTAGGGTCAAAAATAGGATTTTTGGA
1 AGTTTGAGGGT-AAAAATAGGATTTTTGGA
* * * *
148707 AGTTCGAGGGTAAAAACAGAACTTTTGGA
1 AGTTTGAGGGTAAAAATAGGATTTTTGGA
148736 AGTTT
1 AGTTT
148741 CGGGACCTCC
Statistics
Matches: 253, Mismatches: 30, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.01
29 133 0.53
30 103 0.41
31 13 0.05
32 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
AGTTTGAGGGTAAAAATAGGATTTTTGGA
Found at i:149765 original size:21 final size:21
Alignment explanation
Indices: 149732--149787 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
149722 TTTCCCTTTT
* *
149732 TTTATTAATTATTATTAATA-A
1 TTTATT-ATTATTATCAAAACA
149753 TATTATTATTATTATCAAAACA
1 T-TTATTATTATTATCAAAACA
149775 TTTATTATTATTA
1 TTTATTATTATTA
149788 ATGAGTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATTATTATTATCAAAACA
Found at i:150875 original size:51 final size:51
Alignment explanation
Indices: 150819--151042 Score: 247
Period size: 51 Copynumber: 4.4 Consensus size: 51
150809 GAGCTATAAA
**
150819 GACTAAGTGTCATCGTGAATAAATGAATCCTTTACGGATTAAAGGTCCGAT
1 GACTAAGTGTCATCGTGAATAAATGAATCCTTTACAAATTAAAGGTCCGAT
*
150870 GACTAAGTGTCATCGT-AAGTAAATGAATCCTTTACAAATTAAAGGTCCAAT
1 GACTAAGTGTCATCGTGAA-TAAATGAATCCTTTACAAATTAAAGGTCCGAT
* * * *
150921 GACTAAGTGTCATCGTGAATAAATGAATCCATAATAGATTAAAGGTCCGAT
1 GACTAAGTGTCATCGTGAATAAATGAATCCTTTACAAATTAAAGGTCCGAT
* * * * * * * *
150972 GACTCAGAGTCATCTTGAGTATATGAATTCCTATATGAAA-CAAGAGGTCCGAT
1 GACTAAGTGTCATCGTGAATAAATGAA-TCCTTTA-CAAATTAA-AGGTCCGAT
151025 GACTATA-TGTCATCGTGA
1 GACTA-AGTGTCATCGTGA
151043 GTAACAAATG
Statistics
Matches: 145, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.01
51 110 0.76
52 8 0.06
53 24 0.17
54 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (51 bp):
GACTAAGTGTCATCGTGAATAAATGAATCCTTTACAAATTAAAGGTCCGAT
Found at i:150998 original size:102 final size:104
Alignment explanation
Indices: 150819--151042 Score: 285
Period size: 102 Copynumber: 2.2 Consensus size: 104
150809 GAGCTATAAA
* * * *
150819 GACTAAGTGTCATCGTGAATAAATGAATCCTTTACGGATTAAAGGTCCGATGACTAAGTGTCATC
1 GACTAAGTGTCATCGTGAATAAATGAATCCATAACAGATTAAAGGTCCGATGACTAAGAGTCATC
* *
150884 GTAAGTAAATGAA-TCCTTTA-CAAATTAA-AGGTCCAAT
66 GTAAGTAAATGAATTCCTATATCAAA-CAAGAGGTCCAAT
* *
150921 GACTAAGTGTCATCGTGAATAAATGAATCCATAATAGATTAAAGGTCCGATGACTCAGAGTCATC
1 GACTAAGTGTCATCGTGAATAAATGAATCCATAACAGATTAAAGGTCCGATGACTAAGAGTCATC
* * * * *
150986 TTGAGTATATGAATTCCTATATGAAACAAGAGGTCCGAT
66 GTAAGTAAATGAATTCCTATATCAAACAAGAGGTCCAAT
151025 GACTATA-TGTCATCGTGA
1 GACTA-AGTGTCATCGTGA
151043 GTAACAAATG
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
102 69 0.66
103 8 0.08
104 27 0.26
105 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (104 bp):
GACTAAGTGTCATCGTGAATAAATGAATCCATAACAGATTAAAGGTCCGATGACTAAGAGTCATC
GTAAGTAAATGAATTCCTATATCAAACAAGAGGTCCAAT
Found at i:151481 original size:261 final size:262
Alignment explanation
Indices: 151010--151484 Score: 871
Period size: 261 Copynumber: 1.8 Consensus size: 262
151000 TCCTATATGA
151010 AACAAGAGGTCCGATGACTATATGTCATCGTGAGTAACAAATGAGAGTGAAACCTACCCCAGATG
1 AACAAGAGGTCCGATGACTATATGTCATCGTGAGTAACAAATGAGAGTGAAACCTACCCCAGATG
* *
151075 TAAACAATGTTTCATTCGGTTAATTAGATTTTTACAACTCTTGAAGTTTGTTAAATCTATTTAAC
66 TAAACAATGTTCCATTCGATTAATTAGATTTTTACAACTCTTGAAGTTTGTTAAATCTATTTAAC
*
151140 TTTATGTACTTACTAAGCCTTAAAGTGCTTAACTGTGGATTTGCATTTGTTTTGTAGATTCACTT
131 TTTATGTACTTACTAAGCCTTAAAGTGCTTAACTGTGGATTTGAATTTGTTTTGTAGATTCACTT
151205 TTGCTGTTCGGAGATCGGAAAGACTATATGTCATCGTGAGTATTAAATGAAATGAGTTCCAATGC
196 TTGCTGTTCGGAGATCGGAAAGACTATATGTCATCGTGAGTATTAAATGAAATGAGTTCCAATGC
151270 GG
261 GG
* *
151272 AACAAG-GGTCCGATGACTTTGTGTCATCGTGAGTAACAAATGAGAGTGAAACCTACCCCAGATG
1 AACAAGAGGTCCGATGACTATATGTCATCGTGAGTAACAAATGAGAGTGAAACCTACCCCAGATG
*
151336 TAAACAATGTTCCATTCGATTAATTAGATTTTTACAACTCTTGAAGTTTGTTAAATCTATTTTAC
66 TAAACAATGTTCCATTCGATTAATTAGATTTTTACAACTCTTGAAGTTTGTTAAATCTATTTAAC
* *
151401 TTTATGTTCTTACTAAGCCTTAAAGTGCTTACCTGTGGATTTGAATTTGTTTTGTAGATTCACTT
131 TTTATGTACTTACTAAGCCTTAAAGTGCTTAACTGTGGATTTGAATTTGTTTTGTAGATTCACTT
151466 TTGCTGTTCGGAGATCGGA
196 TTGCTGTTCGGAGATCGGA
151485 TAATCTTGAA
Statistics
Matches: 205, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
261 199 0.97
262 6 0.03
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (262 bp):
AACAAGAGGTCCGATGACTATATGTCATCGTGAGTAACAAATGAGAGTGAAACCTACCCCAGATG
TAAACAATGTTCCATTCGATTAATTAGATTTTTACAACTCTTGAAGTTTGTTAAATCTATTTAAC
TTTATGTACTTACTAAGCCTTAAAGTGCTTAACTGTGGATTTGAATTTGTTTTGTAGATTCACTT
TTGCTGTTCGGAGATCGGAAAGACTATATGTCATCGTGAGTATTAAATGAAATGAGTTCCAATGC
GG
Found at i:154424 original size:3 final size:3
Alignment explanation
Indices: 154418--154452 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
154408 AATTAATAAT
154418 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
154453 TTAAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:157485 original size:6 final size:6
Alignment explanation
Indices: 157475--157505 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
157465 AAGTTACCGA
*
157475 CAACAA CAACAC CAACAC CAACAC CAACAC C
1 CAACAC CAACAC CAACAC CAACAC CAACAC C
157506 GCCACTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
CAACAC
Found at i:164409 original size:29 final size:29
Alignment explanation
Indices: 164383--164442 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
164373 CAGATACATA
164383 TACAAATACATATATAATACGAATACAGT
1 TACAAATACATATATAATACGAATACAGT
* * *
164412 TGCAAATACATATGTGATACGAATACAGT
1 TACAAATACATATATAATACGAATACAGT
164441 TA
1 TA
164443 TAGATGCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (29 bp):
TACAAATACATATATAATACGAATACAGT
Found at i:167229 original size:21 final size:20
Alignment explanation
Indices: 167205--167243 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
167195 TTACAAGAAA
*
167205 TTTTAAATACAAAAGATTTCT
1 TTTTAAAT-CAAAAAATTTCT
*
167226 TTTTATATCAAAAAATTT
1 TTTTAAATCAAAAAATTT
167244 AAATCAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTTAAATCAAAAAATTTCT
Found at i:167499 original size:15 final size:16
Alignment explanation
Indices: 167481--167533 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
167471 TCACGATAGT
167481 ATAATTTAAATTTA-A
1 ATAATTTAAATTTATA
167496 ATAATTTATAATTTATA
1 ATAATTTA-AATTTATA
*
167513 A-AATTTTAAATTAATA
1 ATAA-TTTAAATTTATA
167529 ATAAT
1 ATAAT
167534 AAAATTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 8 0.24
16 17 0.52
17 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTTAAATTTATA
Found at i:167510 original size:16 final size:16
Alignment explanation
Indices: 167481--167530 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
167471 TCACGATAGT
167481 ATAATTTA-AATTTAA
1 ATAATTTATAATTTAA
167496 ATAATTTATAATTTATA
1 ATAATTTATAATTTA-A
*
167513 A-AATTT-TAAATT-A
1 ATAATTTATAATTTAA
167526 ATAAT
1 ATAAT
167531 AATAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.06
14 3 0.10
15 13 0.42
16 11 0.35
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATTTATAATTTAA
Found at i:172014 original size:17 final size:17
Alignment explanation
Indices: 171991--172081 Score: 112
Period size: 17 Copynumber: 5.2 Consensus size: 17
171981 CAAGCTCCCC
171991 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
172009 -TTAAATTTGTTTAAAAA
1 TTTAAATTTATTT-TAAA
172026 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
172043 TTTAAATGTATTTTAAA
1 TTTAAATTTATTTTAAA
*
172060 TTTAAATTTAAGTTTAAA
1 TTTAAATTT-ATTTTAAA
172078 TTTA
1 TTTA
172082 TTATCAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
17 39 0.62
18 24 0.38
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:172030 original size:35 final size:34
Alignment explanation
Indices: 171991--172081 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 34
171981 CAAGCTCCCC
* *
171991 TTTAAATTTATTTTAAGA-TTAAATTTGTTTAAAAA
1 TTTAAATTTATTTTAA-ATTTAAATGTATTT-AAAA
*
172026 TTTAAATTTATTTTAAATTTAAATGTATTTTAAA
1 TTTAAATTTATTTTAAATTTAAATGTATTTAAAA
*
172060 TTTAAATTTAAGTTTAAATTTA
1 TTTAAATTT-ATTTTAAATTTA
172082 TTATCAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 13 0.26
35 37 0.74
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATGTATTTAAAA
Found at i:172034 original size:6 final size:6
Alignment explanation
Indices: 172023--172081 Score: 68
Period size: 6 Copynumber: 10.2 Consensus size: 6
172013 ATTTGTTTAA
* * *
172023 AAATTT AAATTT -ATTTT AAATTT AAATGT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
172069 AAGTTT AAATTT A
1 AAATTT AAATTT A
172082 TTATCAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 7 0.16
6 36 0.84
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:172100 original size:18 final size:17
Alignment explanation
Indices: 172023--172114 Score: 70
Period size: 17 Copynumber: 5.6 Consensus size: 17
172013 ATTTGTTTAA
* *
172023 AAATTTAAATTTATTTT
1 AAATTTAAAATTATTAT
*
172040 AAATTT-AAATGTATTTT
1 AAATTTAAAAT-TATTAT
172057 AAATTT--AA--ATT-T
1 AAATTTAAAATTATTAT
* *
172069 AAGTTTAAATTTATTAT
1 AAATTTAAAATTATTAT
172086 CAAATTTAAAATTATTAT
1 -AAATTTAAAATTATTAT
*
172104 GAATTTAAAAT
1 AAATTTAAAAT
172115 AAATAAAGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
12 6 0.10
13 3 0.05
14 1 0.02
16 8 0.13
17 29 0.47
18 15 0.24
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (17 bp):
AAATTTAAAATTATTAT
Found at i:172110 original size:17 final size:18
Alignment explanation
Indices: 172072--172114 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
172062 TAAATTTAAG
*
172072 TTTAAATTTATTATCAAA
1 TTTAAAATTATTATCAAA
*
172090 TTTAAAATTATTAT-GAA
1 TTTAAAATTATTATCAAA
172107 TTTAAAAT
1 TTTAAAAT
172115 AAATAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAAATTATTATCAAA
Found at i:173988 original size:29 final size:28
Alignment explanation
Indices: 173945--174085 Score: 133
Period size: 29 Copynumber: 4.8 Consensus size: 28
173935 GAAGGTCCCT
173945 AAACTATCCAAAAATTCCCTTTTTACCCCC
1 AAACT-TCCAAAAA-TCCCTTTTTACCCCC
*** *
173975 AAACTTCCAAAAATTTTATTTTTACCCGC
1 AAACTTCCAAAAA-TCCCTTTTTACCCCC
*
174004 AAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATCCC-TTTTT-ACCCCC
*
174034 AAACTTCCAAAAAT-CCTATTTTACCCCT
1 AAACTTCCAAAAATCCCT-TTTTACCCCC
*
174062 AAACCTT-AAAAAATCCCATTTTTA
1 AAA-CTTCCAAAAATCCC-TTTTTA
174086 ACCTCGAATT
Statistics
Matches: 94, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
28 16 0.17
29 54 0.57
30 24 0.26
ACGTcount: A:0.37, C:0.30, G:0.01, T:0.32
Consensus pattern (28 bp):
AAACTTCCAAAAATCCCTTTTTACCCCC
Found at i:174056 original size:58 final size:58
Alignment explanation
Indices: 173941--174085 Score: 181
Period size: 58 Copynumber: 2.5 Consensus size: 58
173931 CCCCGAAGGT
* **
173941 CCCTAAACTATCCAAAAATTCCC-TTTTTACCCCCAAACTTCCAAAAATTTTATTTTTAC
1 CCCTAAACT-TCCAAAAA-TCCCATTTTTACCCCAAAACTTCCAAAAATCCTATTTTTAC
174000 CCGC-AAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTCCAAAAATCCTA-TTTTAC
1 CC-CTAAACTTCCAAAAATCCCATTTTT-ACCCCAAAACTTCCAAAAATCCTATTTTTAC
*
174058 CCCTAAACCTT-AAAAAATCCCATTTTTA
1 CCCTAAA-CTTCCAAAAATCCCATTTTTA
174086 ACCTCGAATT
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
57 6 0.08
58 39 0.51
59 31 0.40
60 1 0.01
ACGTcount: A:0.36, C:0.31, G:0.01, T:0.32
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATCCCATTTTTACCCCAAAACTTCCAAAAATCCTATTTTTAC
Found at i:174131 original size:28 final size:29
Alignment explanation
Indices: 174099--174162 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
174089 TCGAATTTTC
174099 CCAAAATTACCA-TTCCGCCCCCGAGAAT
1 CCAAAATTACCATTTCCGCCCCCGAGAAT
* **
174127 CCAAAATTATCATTTTTGCCCCCGAGAAT
1 CCAAAATTACCATTTCCGCCCCCGAGAAT
174156 CCGAAAA
1 CC-AAAA
174163 GTCTCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 11 0.35
29 16 0.52
30 4 0.13
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.22
Consensus pattern (29 bp):
CCAAAATTACCATTTCCGCCCCCGAGAAT
Found at i:174157 original size:29 final size:30
Alignment explanation
Indices: 174115--174172 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
174105 TTACCATTCC
*
174115 GCCCCCGAGAATCC-AAAATTATCATTTTT
1 GCCCCCGAGAATCCGAAAAGTATCATTTTT
*
174144 GCCCCCGAGAATCCGAAAAGTCTCATTTT
1 GCCCCCGAGAATCCGAAAAGTATCATTTT
174173 GAACTCCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
GCCCCCGAGAATCCGAAAAGTATCATTTTT
Found at i:197219 original size:218 final size:218
Alignment explanation
Indices: 196841--198019 Score: 1894
Period size: 218 Copynumber: 5.4 Consensus size: 218
196831 ATTATCCACA
* * * * *
196841 AAACAATGCGGTCATCTTCCTGATGAGATACTAGGAAGAAGACCAAACCAAACCCATGCTCGATG
1 AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
*
196906 TGAGTAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
66 TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
196971 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
131 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
197036 GATACAGAGAAGTGAATTGAAAC
196 GATACAGAGAAGTGAATTGAAAC
* *
197059 AAACAATGCAGTCATCTTCCCGATAAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
1 AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
*
197124 TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTAAGAAGCGTGCCGAAGTAATAAAACG
66 TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
*
197189 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATAA
131 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
197254 GATACAGAGAAGTGAATTGAAAC
196 GATACAGAGAAGTGAATTGAAAC
* *
197277 AAACGATGCAGTCATCTTCCCGATGAGATACTGAGAAGAAGACTGAACCAAACCCATGCTCGATG
1 AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
* * * * *
197342 TGAGCAAATATTCAAACCACAGCTTCCTGATGAGATATTGAGAAGCGTGCCGAAATAATAAAACT
66 TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
* * * *
197407 GTTAGCTTTCGGACCATCTTTCTAATGAGGTACGGAGAAGTGGACCAAATTCGTCTTCCTGATGA
131 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
*
197472 GATACAAAGAAGTGAATTGAAAC
196 GATACAGAGAAGTGAATTGAAAC
* *
197495 AAACGACGTAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
1 AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
* * *
197560 TGAGAAAATCTTCGAACCATAGCTTCCTGATGAGATACTGAGAAGCGTACCGAAGTAATAAAACG
66 TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
**
197625 GTTAGCTTCTTGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
131 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
197690 GATACAGAGAAGTGAATTGAAAC
196 GATACAGAGAAGTGAATTGAAAC
*
197713 AAACGATGCAGTCATCTTCCCGATGAGATACTGAGAAGAAGACCGAACCAAACCCATGCTCGATG
1 AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
* **
197778 TGAGCAAATCTTCGAACCACAACTT-CTGATGAGATACTGAGAAGCGTGCTAAAGTAATAAAACG
66 TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
* ** * * *
197842 GTTGGCTTCTTGACCATCTTCTTGATGAAGTACGGAGAAGTGGACCAAATTCGTCTTCCTGATGA
131 GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
*
197907 GATACAGAGAATTGAATTGAAAC
196 GATACAGAGAAGTGAATTGAAAC
* * * * * * *
197930 AAACGACGCTGTCATCTTCCCGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGC-CTGAT
1 AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTC-GAT
* *
197994 GTAAGCAAATCTTCGAACCCCAGCTT
65 GTGAGCAAATCTTCGAACCACAGCTT
198020 TTTGGTGATA
Statistics
Matches: 894, Mismatches: 66, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
216 1 0.00
217 198 0.22
218 695 0.78
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (218 bp):
AAACGATGCAGTCATCTTCCCGATGAGATACTAAGAAGAAGACCGAACCAAACCCATGCTCGATG
TGAGCAAATCTTCGAACCACAGCTTCCTGATGAGATACTGAGAAGCGTGCCGAAGTAATAAAACG
GTTAGCTTCCGGACCATCTTCCTGATGAGGTACGGAGAAGTGGACCAAATTCGTTTTCCTGATGA
GATACAGAGAAGTGAATTGAAAC
Found at i:198527 original size:17 final size:17
Alignment explanation
Indices: 198504--198577 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
198494 CAAGCTCCCC
198504 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
198522 -TTAAATTTGTTTAAAAA
1 TTTAAATTTATTT-TAAA
*
198539 TTTAAATGTATTTTAAA
1 TTTAAATTTATTTTAAA
*
198556 TTTAAATTTAAGTTTAAA
1 TTTAAATTT-ATTTTAAA
198574 TTTA
1 TTTA
198578 TTATCAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
17 23 0.50
18 23 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:198543 original size:35 final size:36
Alignment explanation
Indices: 198504--198573 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 36
198494 CAAGCTCCCC
*
198504 TTTAAATTTATTTTAAGA-TTAAATTT-GTTTAAAAA
1 TTTAAATGTATTTTAA-ATTTAAATTTAGTTTAAAAA
198539 TTTAAATGTATTTTAAATTTAAATTTAAGTTTAAA
1 TTTAAATGTATTTTAAATTTAAATTT-AGTTTAAA
198574 TTTATTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 1 0.03
35 23 0.74
37 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (36 bp):
TTTAAATGTATTTTAAATTTAAATTTAGTTTAAAAA
Found at i:198559 original size:6 final size:6
Alignment explanation
Indices: 198536--198577 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
198526 ATTTGTTTAA
* * *
198536 AAATTT AAATGT -ATTTT AAATTT AAATTT AAGTTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT A
198578 TTATCAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
5 3 0.10
6 26 0.90
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:198587 original size:47 final size:47
Alignment explanation
Indices: 198504--198608 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
198494 CAAGCTCCCC
* *
198504 TTTAAATTT-ATTTTAAGATTAAATTTGTTTAAAAATTT-AAATGTAT
1 TTTAAATTTAAATTTAAGATTAAATTTATTTAAAAATTTAAAAT-TAT
* *
198550 TTTAAATTTAAATTTAAGTTTAAATTTA-TTATCAAATTTAAAATTAT
1 TTTAAATTTAAATTTAAGATTAAATTTATTTA-AAAATTTAAAATTAT
* *
198597 TATGAATTTAAA
1 TTTAAATTTAAA
198609 ATAAATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
46 12 0.24
47 34 0.68
48 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (47 bp):
TTTAAATTTAAATTTAAGATTAAATTTATTTAAAAATTTAAAATTAT
Found at i:198606 original size:17 final size:18
Alignment explanation
Indices: 198568--198610 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
198558 TAAATTTAAG
*
198568 TTTAAATTTATTATCAAA
1 TTTAAAATTATTATCAAA
*
198586 TTTAAAATTATTAT-GAA
1 TTTAAAATTATTATCAAA
198603 TTTAAAAT
1 TTTAAAAT
198611 AAATAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAAATTATTATCAAA
Found at i:200720 original size:17 final size:17
Alignment explanation
Indices: 200697--200770 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
200687 CAAGCTCCCC
200697 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
* *
200715 -TTAAATTTGTTTAAAAA
1 TTTAAATTTATTT-TAAA
*
200732 TTTAAATGTATTTTAAA
1 TTTAAATTTATTTTAAA
*
200749 TTTAAATTTAAGTTTAAA
1 TTTAAATTT-ATTTTAAA
200767 TTTA
1 TTTA
200771 TTATCAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
17 23 0.50
18 23 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:200736 original size:35 final size:36
Alignment explanation
Indices: 200697--200766 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 36
200687 CAAGCTCCCC
*
200697 TTTAAATTTATTTTAAGA-TTAAATTT-GTTTAAAAA
1 TTTAAATGTATTTTAA-ATTTAAATTTAGTTTAAAAA
200732 TTTAAATGTATTTTAAATTTAAATTTAAGTTTAAA
1 TTTAAATGTATTTTAAATTTAAATTT-AGTTTAAA
200767 TTTATTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 1 0.03
35 23 0.74
37 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (36 bp):
TTTAAATGTATTTTAAATTTAAATTTAGTTTAAAAA
Found at i:200752 original size:6 final size:6
Alignment explanation
Indices: 200729--200770 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
200719 ATTTGTTTAA
* * *
200729 AAATTT AAATGT -ATTTT AAATTT AAATTT AAGTTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT A
200771 TTATCAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
5 3 0.10
6 26 0.90
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:200780 original size:47 final size:47
Alignment explanation
Indices: 200697--200801 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 47
200687 CAAGCTCCCC
* *
200697 TTTAAATTT-ATTTTAAGATTAAATTTGTTTAAAAATTT-AAATGTAT
1 TTTAAATTTAAATTTAAGATTAAATTTATTTAAAAATTTAAAAT-TAT
* *
200743 TTTAAATTTAAATTTAAGTTTAAATTTA-TTATCAAATTTAAAATTAT
1 TTTAAATTTAAATTTAAGATTAAATTTATTTA-AAAATTTAAAATTAT
* *
200790 TATGAATTTAAA
1 TTTAAATTTAAA
200802 ATAAATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
46 12 0.24
47 34 0.68
48 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (47 bp):
TTTAAATTTAAATTTAAGATTAAATTTATTTAAAAATTTAAAATTAT
Found at i:200799 original size:17 final size:18
Alignment explanation
Indices: 200761--200803 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
200751 TAAATTTAAG
*
200761 TTTAAATTTATTATCAAA
1 TTTAAAATTATTATCAAA
*
200779 TTTAAAATTATTAT-GAA
1 TTTAAAATTATTATCAAA
200796 TTTAAAAT
1 TTTAAAAT
200804 AAATAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTAAAATTATTATCAAA
Found at i:202822 original size:60 final size:59
Alignment explanation
Indices: 202679--202945 Score: 324
Period size: 60 Copynumber: 4.5 Consensus size: 59
202669 AAAGGTCCCT
* * *
202679 AAACTATCCAAAAATTCCATTTTTACCCCCAAACTTCCAAAAATCCCA-TTTTGACCCCA
1 AAACT-TCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTTACCCCG
*
202738 AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTTTACCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCA-TTTTTTACCCCG
* * *
202798 AAACTTCCAAAAATTCCAATTTTACCCTCGAACTTCCAAAAATCTCATTTTTTACCCCG
1 AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTTACCCCG
* * ** * *
202857 AAACTTGCAAAAATCCCATTTTTGACCCAAAAACTTCCAAAAATCCTA-TTTTTACCCCT
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCAAACTTCCAAAAATCCCATTTTTTACCCCG
* * *
202916 AAACCTT-AAAAAAATCTCATTTTTAACCTC
1 AAA-CTTCCAAAAATTC-CATTTTTACCCTC
202946 GAATTTTCCC
Statistics
Matches: 182, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
58 40 0.22
59 59 0.32
60 83 0.46
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.31
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCCAAAAATCCCATTTTTTACCCCG
Found at i:202927 original size:29 final size:29
Alignment explanation
Indices: 202679--202940 Score: 276
Period size: 29 Copynumber: 8.8 Consensus size: 29
202669 AAAGGTCCCT
* *
202679 AAACTATCCAAAAATTCCATTTTTACCCCC
1 AAACT-TCCAAAAATCCCATTTTTACCCCA
*
202709 AAACTTCCAAAAATCCCATTTTGACCCCA
1 AAACTTCCAAAAATCCCATTTTTACCCCA
*
202738 AAACTTCCAAAAATTCCATTTTTACCCTC-
1 AAACTTCCAAAAATCCCATTTTTACCC-CA
* *
202767 GAACTTCCAAAAATCCCATTTTTTTACCCCG
1 AAACTTCCAAAAATCCCA--TTTTTACCCCA
* *
202798 AAACTTCCAAAAATTCCAATTTTACCCTC-
1 AAACTTCCAAAAATCCCATTTTTACCC-CA
* * *
202827 GAACTTCCAAAAATCTCATTTTTTACCCCG
1 AAACTTCCAAAAATCCCA-TTTTTACCCCA
* *
202857 AAACTTGCAAAAATCCCATTTTTGACCCAA
1 AAACTTCCAAAAATCCCATTTTT-ACCCCA
*
202887 AAACTTCCAAAAATCCTATTTTTACCCCTA
1 AAACTTCCAAAAATCCCATTTTTACCCC-A
* ** *
202917 AACCTTAAAAAAATCTCATTTTTA
1 AAACTTCCAAAAATCCCATTTTTA
202941 ACCTCGAATT
Statistics
Matches: 196, Mismatches: 27, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
29 95 0.48
30 76 0.39
31 25 0.13
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.31
Consensus pattern (29 bp):
AAACTTCCAAAAATCCCATTTTTACCCCA
Done.