Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold174
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: 2085601
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 6 of 15
Found at i:675686 original size:20 final size:22
Alignment explanation
Indices: 675648--675690 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
675638 AGCAAATAGC
675648 TTTTGAATTTTTAAAAAATTAT
1 TTTTGAATTTTTAAAAAATTAT
675670 TTTTGAA-TTTT-AAAAATTAT
1 TTTTGAATTTTTAAAAAATTAT
675690 T
1 T
675691 AAAGTCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 4 0.19
22 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTGAATTTTTAAAAAATTAT
Found at i:679119 original size:20 final size:19
Alignment explanation
Indices: 679096--679136 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
679086 AAATATTTTT
679096 TAAAAT-TTAAT-TATAAAA
1 TAAAATATTAATATA-AAAA
679114 TATAAATATTAATATAAAAA
1 TA-AAATATTAATATAAAAA
679134 TAA
1 TAA
679137 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.10
19 5 0.25
20 11 0.55
21 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATATTAATATAAAAA
Found at i:680947 original size:3 final size:3
Alignment explanation
Indices: 680939--680969 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
680929 CTAGATGGAG
680939 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
680970 GATTAATGGA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:681889 original size:6 final size:6
Alignment explanation
Indices: 681878--681911 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
681868 CAAATACGAG
681878 AGCCAT AGCCAT AGCCAT AGCCAT AGCCAT AGCC
1 AGCCAT AGCCAT AGCCAT AGCCAT AGCCAT AGCC
681912 TGGCGGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.18, T:0.15
Consensus pattern (6 bp):
AGCCAT
Found at i:682156 original size:30 final size:31
Alignment explanation
Indices: 682089--682162 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 31
682079 TTATACGATT
* * *
682089 ATATTTATCATAAATAAAAAATTATTTTTTAA
1 ATATTTATTAAAAATAAAAAA-TATTTATTAA
682121 ATATTTACTTAAAAATAAAAAA-ATTTATT-A
1 ATATTTA-TTAAAAATAAAAAATATTTATTAA
682151 ATATTTATTAAA
1 ATATTTATTAAA
682163 TTTAATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 5 0.13
30 8 0.21
31 6 0.16
32 7 0.18
33 12 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATTTATTAAAAATAAAAAATATTTATTAA
Found at i:682907 original size:48 final size:48
Alignment explanation
Indices: 682851--682976 Score: 189
Period size: 48 Copynumber: 2.6 Consensus size: 48
682841 TTGGCAACTA
*
682851 AATTGCTTGGCAGAAAGCAAGGAACACCAAGACTTGCGAACACAAATG
1 AATTGCTTGGCAGAAAGCAAGGAACACCAAGACTTACGAACACAAATG
* * ** **
682899 AATTGCTTGGCAGAATGCTAGGAACATAAAGACTTACGAACACACGTG
1 AATTGCTTGGCAGAAAGCAAGGAACACCAAGACTTACGAACACAAATG
682947 AATTGCTTGGCAGAAAGCAAGGAACACCAA
1 AATTGCTTGGCAGAAAGCAAGGAACACCAA
682977 CTCGCATGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (48 bp):
AATTGCTTGGCAGAAAGCAAGGAACACCAAGACTTACGAACACAAATG
Found at i:686529 original size:156 final size:163
Alignment explanation
Indices: 686321--686641 Score: 451
Period size: 164 Copynumber: 2.0 Consensus size: 163
686311 GCAGGAAAAG
* * * *
686321 GCAAGATGAATTCGTGCTAGGAGACAATTCGTCAAAAGTAGCAGCATAATAT-ATAA-A-A-A-A
1 GCAAGATAAATCCATGCTAGGAGACAATTCGTCAAAAGTAGCAGCATAATATAAAAATATATATA
** * * *
686381 -ATATAT-T-CATCTTGAATGTTTTAGCCTTACTGATTAATCTTTTTCTTATTTAAGTTTGCATT
66 TATATATGTACATCTCAAATGTTTTAGCCTTACTGA-TAATCTTTCTCTTATTCAAGTTTGAATT
* *
686443 GGTAGAGGGTAGACAAAAGCAAAGAAAGATGGGA
130 GGTAGAAGGTAGACAAAAGCAAAGAAAGATAGGA
* *
686477 GCAAGATAAATCCATGCTAGGAGACAATTCGTCGAAAGTAGCAGCTTAATATAAAAAATATATAT
1 GCAAGATAAATCCATGCTAGGAGACAATTCGTCAAAAGTAGCAGCATAATAT-AAAAATATATAT
686542 ATATATATGTACATCTCAAATGTTTTAGCCTTACTGATAATCTTTCTCTTATTCAAGTTTGAATT
65 ATATATATGTACATCTCAAATGTTTTAGCCTTACTGATAATCTTTCTCTTATTCAAGTTTGAATT
686607 GGTAGAAGGTAGACAAAAGCAAAGAAAGATAGGA
130 GGTAGAAGGTAGACAAAAGCAAAGAAAGATAGGA
686641 G
1 G
686642 AATGGTTAGG
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
156 47 0.33
158 3 0.02
159 1 0.01
160 1 0.01
161 1 0.01
162 1 0.01
163 6 0.04
164 59 0.41
165 24 0.17
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (163 bp):
GCAAGATAAATCCATGCTAGGAGACAATTCGTCAAAAGTAGCAGCATAATATAAAAATATATATA
TATATATGTACATCTCAAATGTTTTAGCCTTACTGATAATCTTTCTCTTATTCAAGTTTGAATTG
GTAGAAGGTAGACAAAAGCAAAGAAAGATAGGA
Found at i:690259 original size:21 final size:20
Alignment explanation
Indices: 690235--690291 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
690225 ATTTATATTA
690235 TATTTAGATTTAATAAAAAAT
1 TATTTA-ATTTAATAAAAAAT
*
690256 TATTTAATTATGATAAAAAAT
1 TATTTAATT-TAATAAAAAAT
690277 T-TATTATATTTAATA
1 TAT-TTA-ATTTAATA
690292 TATTACTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 4 0.13
21 24 0.77
22 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TATTTAATTTAATAAAAAAT
Found at i:694346 original size:2 final size:2
Alignment explanation
Indices: 694334--694368 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
694324 TTAAACATTA
*
694334 AT AT AT GT AT AT A- 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
694369 CTCACACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:696184 original size:6 final size:6
Alignment explanation
Indices: 696168--696204 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
696158 ATTTAAAAAA
*
696168 ATTTAT CTTTAT ATTTAT ATTTAT ATTTAT ATTTAT A
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A
696205 AATATGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTAT
Found at i:701184 original size:23 final size:24
Alignment explanation
Indices: 701141--701215 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 24
701131 TGGATCGAAT
701141 TTTAATATTTTTTAAATATTTAAA
1 TTTAATATTTTTTAAATATTTAAA
701165 TTTAA-ATTTATTTAAA-ATTTAAA
1 TTTAATATTT-TTTAAATATTTAAA
* * *
701188 TTTATTTATTATTTTTACTATTTAAA
1 TTTA-ATATT-TTTTAAATATTTAAA
701214 TT
1 TT
701216 CGTATATGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 15 0.35
24 11 0.26
25 7 0.16
26 10 0.23
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTAATATTTTTTAAATATTTAAA
Found at i:701201 original size:17 final size:17
Alignment explanation
Indices: 701157--701195 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
701147 ATTTTTTAAA
701157 TATTT-AAATTTAAATT
1 TATTTAAAATTTAAATT
701173 TATTTAAAATTTAAATT
1 TATTTAAAATTTAAATT
701190 TATTTA
1 TATTTA
701196 TTATTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTTAAAATTTAAATT
Found at i:702233 original size:15 final size:15
Alignment explanation
Indices: 702215--702243 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
702205 ATATGTTAAT
702215 AATTTATATTTTATA
1 AATTTATATTTTATA
702230 AATTTATATTTTAT
1 AATTTATATTTTAT
702244 TTATATCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTATATTTTATA
Found at i:702264 original size:8 final size:8
Alignment explanation
Indices: 702162--702269 Score: 51
Period size: 8 Copynumber: 13.0 Consensus size: 8
702152 TCGTATATAA
702162 TATTTT-T
1 TATTTTAT
*
702169 TATTATAAT
1 TATT-TTAT
*
702178 TATATTTAA
1 TAT-TTTAT
702187 TATTTTAT
1 TATTTTAT
*
702195 TAAAATTTTAA
1 T---ATTTTAT
* *
702206 TATGTTAA
1 TATTTTAT
*
702214 TAATTTA-
1 TATTTTAT
702221 TATTTTAT
1 TATTTTAT
* *
702229 AAATTTA-
1 TATTTTAT
702236 TATTTTATT
1 TATTTTA-T
*
702245 TATATCTAT
1 TAT-TTTAT
702254 TATTTTAT
1 TATTTTAT
702262 TATTTTAT
1 TATTTTAT
702270 AATATGTTTA
Statistics
Matches: 76, Mismatches: 15, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
7 15 0.20
8 34 0.45
9 16 0.21
10 4 0.05
11 7 0.09
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (8 bp):
TATTTTAT
Found at i:702269 original size:33 final size:31
Alignment explanation
Indices: 702218--702307 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 31
702208 TGTTAATAAT
* * *
702218 TTATATTTTATAAATTTATATTTTATTTATA
1 TTATATTTTATTATTTTATATTATATTTATA
* *
702249 TCTATTATTTTATTATTTTATAATATGTTTATA
1 T-TA-TATTTTATTATTTTATATTATATTTATA
*
702282 TTAT-TTTTATTATATTTATATCATAT
1 TTATATTTTATTAT-TTTATATTATAT
702308 AATTATATCT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
30 9 0.19
31 11 0.23
32 4 0.08
33 24 0.50
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (31 bp):
TTATATTTTATTATTTTATATTATATTTATA
Found at i:702307 original size:11 final size:11
Alignment explanation
Indices: 702218--702307 Score: 75
Period size: 11 Copynumber: 8.5 Consensus size: 11
702208 TGTTAATAAT
702218 TTATATTT-TA
1 TTATATTTATA
*
702228 -TAAATTTATA
1 TTATATTTATA
*
702238 TTTTATTTATA
1 TTATATTTATA
702249 TCTATTATTT-TA
1 T-TA-TATTTATA
702261 TTAT-TTTATA
1 TTATATTTATA
* *
702271 ATATGTTTATA
1 TTATATTTATA
702282 TTAT-TTT-TA
1 TTATATTTATA
702291 TTATATTTATA
1 TTATATTTATA
*
702302 TCATAT
1 TTATAT
702308 AATTATATCT
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
9 15 0.23
10 14 0.22
11 27 0.42
12 4 0.06
13 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (11 bp):
TTATATTTATA
Found at i:703201 original size:10 final size:10
Alignment explanation
Indices: 703169--703212 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
703159 TTGTGTTGAG
703169 TTTAAATTATA
1 TTTAAATTA-A
*
703180 TTTTAA-TAA
1 TTTAAATTAA
703189 TTTAAATTAA
1 TTTAAATTAA
*
703199 TTTAATTTAA
1 TTTAAATTAA
703209 TTTA
1 TTTA
703213 TTATTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 6 0.21
10 18 0.62
11 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTAAATTAA
Found at i:703257 original size:25 final size:24
Alignment explanation
Indices: 703197--703257 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
703187 AATTTAAATT
703197 AATTTAATT-TAATTTATTATTTA
1 AATTTAATTATAATTTATTATTTA
* * *
703220 AATAATAA-AATAATATTTTTATTTA
1 AAT-TTAATTATAAT-TTATTATTTA
703245 AATTTAATTATAA
1 AATTTAATTATAA
703258 AAAATATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 3 0.10
24 10 0.34
25 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTTAATTATAATTTATTATTTA
Found at i:703986 original size:2 final size:2
Alignment explanation
Indices: 703981--704012 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
703971 AAACATTTTC
703981 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
704013 CACTTCTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:704485 original size:14 final size:14
Alignment explanation
Indices: 704434--704514 Score: 58
Period size: 14 Copynumber: 5.6 Consensus size: 14
704424 TAATATAAAA
*
704434 ATAATATAATAAAT
1 ATAATATAATTAAT
* *
704448 ATTATA-AAGT-AT
1 ATAATATAATTAAT
*
704460 TTAATAATAATTAAT
1 ATAAT-ATAATTAAT
*
704475 ATGATATAATTAAT
1 ATAATATAATTAAT
704489 ATAATATGAATATATAT
1 ATAATAT-AAT-TA-AT
704506 ATATATATA
1 ATA-ATATA
704515 TATATTATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
12 5 0.10
13 3 0.06
14 23 0.45
15 8 0.16
16 2 0.04
17 6 0.12
18 4 0.08
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (14 bp):
ATAATATAATTAAT
Found at i:704487 original size:24 final size:24
Alignment explanation
Indices: 704460--704506 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
704450 TATAAAGTAT
704460 TTAATAATAAT-T-AATATGATATAA
1 TTAAT-ATAATATGAATAT-ATATAA
704484 TTAATATAATATGAATATATATA
1 TTAATATAATATGAATATATATA
704507 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAATATAATATGAATATATATAA
Found at i:704792 original size:9 final size:9
Alignment explanation
Indices: 704781--704845 Score: 55
Period size: 8 Copynumber: 7.3 Consensus size: 9
704771 TTTTATTTTT
*
704781 TATATTAAT
1 TATATTAAA
704790 TATA-TAAA
1 TATATTAAA
704798 TATA-TAAA
1 TATATTAAA
*
704806 TTATAATAAA
1 -TATATTAAA
*
704816 AATTATTAAA
1 TA-TATTAAA
704826 TATATTAAA
1 TATATTAAA
*
704835 -ATTTTAAA
1 TATATTAAA
704843 TAT
1 TAT
704846 GAATACAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
8 18 0.38
9 18 0.38
10 11 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TATATTAAA
Found at i:704807 original size:17 final size:18
Alignment explanation
Indices: 704781--704815 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
704771 TTTTATTTTT
*
704781 TATATTAATTAT-ATAAA
1 TATATAAATTATAATAAA
704798 TATATAAATTATAATAAA
1 TATATAAATTATAATAAA
704816 AATTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATAAATTATAATAAA
Found at i:705911 original size:22 final size:21
Alignment explanation
Indices: 705875--705926 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
705865 ACTATTTAAA
705875 AATATTTAAAATTTT-TATATT
1 AATATTTAAAATTTTAT-TATT
705896 AATATTTATAAATTTTATTATT
1 AATATTTA-AAATTTTATTATT
705918 AA-ATTTAAA
1 AATATTTAAA
705927 TAAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.07
21 13 0.45
22 13 0.45
23 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTTAAAATTTTATTATT
Found at i:706560 original size:21 final size:20
Alignment explanation
Indices: 706513--706560 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
706503 AATTTTTAAA
*
706513 ATTATTTTTAATTAATATTT
1 ATTATTTTTAATAAATATTT
706533 ATATATTTTTAAAATAAATATTT
1 AT-TATTTTT--AATAAATATTT
706556 -TTATT
1 ATTATT
706561 AATTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 11 0.46
22 1 0.04
23 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATTTTTAATAAATATTT
Found at i:707442 original size:14 final size:15
Alignment explanation
Indices: 707401--707459 Score: 56
Period size: 14 Copynumber: 4.3 Consensus size: 15
707391 AATAAATATT
*
707401 ATTAA-AATTA-AAT
1 ATTAATAATTATAAA
*
707414 ATTAATAA-TAAAAA
1 ATTAATAATTATAAA
707428 ATTAA-AATTATAAA
1 ATTAATAATTATAAA
*
707442 A-TAATAATTATATA
1 ATTAATAATTATAAA
707456 ATTA
1 ATTA
707460 CGTTTTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 12 0.32
14 24 0.63
15 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAATAATTATAAA
Found at i:707444 original size:21 final size:21
Alignment explanation
Indices: 707404--707445 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
707394 AAATATTATT
*
707404 AAAATTAAATATTAATAATAA
1 AAAATTAAATATTAAAAATAA
707425 AAAATTAAA-ATTATAAAATAA
1 AAAATTAAATATTA-AAAATAA
707446 TAATTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATTAAATATTAAAAATAA
Found at i:709374 original size:15 final size:15
Alignment explanation
Indices: 709356--709403 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
709346 AATTTTATCA
709356 AATTTAATCATTTTG
1 AATTTAATCATTTTG
* *
709371 AATTTGAATAATTTTA
1 AATTT-AATCATTTTG
*
709387 AATTTAAGTCACTTTG
1 AATTTAA-TCATTTTG
709403 A
1 A
709404 GGTTTGAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (15 bp):
AATTTAATCATTTTG
Found at i:713543 original size:17 final size:18
Alignment explanation
Indices: 713513--713546 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
713503 TAATTATTTT
713513 TTTAAAAAATTTCATATA
1 TTTAAAAAATTTCATATA
713531 TTTAAAAAA-TTCATAT
1 TTTAAAAAATTTCATAT
713547 CTACAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAAAAATTTCATATA
Found at i:714288 original size:15 final size:17
Alignment explanation
Indices: 714268--714300 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
714258 CAATTCATTG
714268 ATTTTTAA-AAT-TTTT
1 ATTTTTAATAATATTTT
714283 ATTTTTAATAATATTTT
1 ATTTTTAATAATATTTT
714300 A
1 A
714301 AAGTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTAATAATATTTT
Found at i:714368 original size:17 final size:18
Alignment explanation
Indices: 714341--714376 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
714331 TTTTATATCA
*
714341 TAAAAATTAAAATTTAAT
1 TAAAAATTAAAATTCAAT
714359 TAAAAA-TAAAATTCAAT
1 TAAAAATTAAAATTCAAT
714376 T
1 T
714377 CAGTTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAATTAAAATTCAAT
Found at i:714463 original size:19 final size:17
Alignment explanation
Indices: 714439--714484 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
714429 TTATTCAAAT
714439 TAAAATCAAATCGAAATAA
1 TAAAATCAAATC-AAA-AA
714458 TAAAATCAAA-CAAAAA
1 TAAAATCAAATCAAAAA
*
714474 TTAAATCAAAT
1 TAAAATCAAAT
714485 ATTACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 3 0.12
18 1 0.04
19 10 0.40
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.22
Consensus pattern (17 bp):
TAAAATCAAATCAAAAA
Found at i:715075 original size:21 final size:21
Alignment explanation
Indices: 715051--715090 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
715041 TATTTTTATT
715051 TAAAT-TTAATTATAAAATATA
1 TAAATATTAATTA-AAAATATA
715072 TAAATATTAATTAAAAATA
1 TAAATATTAATTAAAAATA
715091 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATTAAAAATATA
Found at i:715787 original size:24 final size:24
Alignment explanation
Indices: 715747--715794 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
715737 TATTTATTAG
715747 TATAAATTAAAATATTTAA-AATA
1 TATAAATTAAAATATTTAATAATA
715770 TATATAATTATAAA-ATTTAATAATA
1 TATA-AATTA-AAATATTTAATAATA
715795 AAGTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 11 0.50
25 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TATAAATTAAAATATTTAATAATA
Found at i:718696 original size:2 final size:2
Alignment explanation
Indices: 718689--718722 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
718679 TTTATAGATT
718689 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
718723 CTTGTGAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:719121 original size:20 final size:20
Alignment explanation
Indices: 719092--719170 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 20
719082 TTCGTTTTAT
719092 TATTAATTTTATTATTAAAA
1 TATTAATTTTATTATTAAAA
* *
719112 TATT-ATTTTTTATATTAATA
1 TATTAATTTTAT-TATTAAAA
719132 TA-T-ATTTTAATTAAATTTAAAA
1 TATTAATTTT-ATT--A-TTAAAA
719154 TATTAATTTTATTATTA
1 TATTAATTTTATTATTA
719171 GATAATAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 13 0.27
20 17 0.35
21 2 0.04
22 7 0.15
23 4 0.08
24 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTAATTTTATTATTAAAA
Found at i:721990 original size:5 final size:5
Alignment explanation
Indices: 721967--722029 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
721957 ATTATGTATA
* *
721967 AATTT ATTTT AATTGT AATTT AATTT --TTT -ATTT AAATTT AATTT AAATTA
1 AATTT AATTT AATT-T AATTT AATTT AATTT AATTT -AATTT AATTT -AATTT
722017 AATTAT AATTT AA
1 AATT-T AATTT AA
722030 AAATATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.06
4 3 0.06
5 25 0.52
6 17 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:722010 original size:11 final size:11
Alignment explanation
Indices: 721965--722029 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
721955 TTATTATGTA
721965 TAAATTT-ATT
1 TAAATTTAATT
*
721975 TTAATTGTAATT
1 TAAATT-TAATT
* *
721987 TAATTTTTTATT
1 TAA-ATTTAATT
721999 TAAATTTAATT
1 TAAATTTAATT
*
722010 TAAA-TTAAAT
1 TAAATTTAATT
722020 TATAATTTAA
1 TA-AATTTAA
722030 AAATATTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
10 12 0.28
11 13 0.30
12 16 0.37
13 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:722443 original size:6 final size:6
Alignment explanation
Indices: 722432--722468 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
722422 TGATGTTTTG
722432 TTTTAT TTTTAT TTTTA- TTTTAT TTTT-T TATTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TT
722469 GGGAGGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 7 0.25
6 19 0.68
7 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:722452 original size:17 final size:16
Alignment explanation
Indices: 722427--722468 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
722417 ATTAATGATG
*
722427 TTTTGTTTTATTTTTAT
1 TTTTATTTTATTTTT-T
722444 TTTTATTTTATTTTTT
1 TTTTATTTTATTTTTT
722460 TATTTATTT
1 T-TTTATTT
722469 GGGAGGGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTATTTTATTTTTT
Found at i:722766 original size:22 final size:20
Alignment explanation
Indices: 722753--722793 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
722743 ATATGATATT
722753 TAATAAATATAAATATAATA
1 TAATAAATATAAATATAATA
*
722773 TAATAAATAT-GATATAATA
1 TAATAAATATAAATATAATA
722792 TA
1 TA
722794 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAATAAATATAAATATAATA
Found at i:722774 original size:5 final size:5
Alignment explanation
Indices: 722753--722793 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
722743 ATATGATATT
*
722753 TAATA -AATA TAAATA TAATA TAATA -AATA TGATA TAATA TA
1 TAATA TAATA T-AATA TAATA TAATA TAATA TAATA TAATA TA
722794 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 8 0.26
5 18 0.58
6 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
TAATA
Found at i:722780 original size:14 final size:14
Alignment explanation
Indices: 722761--722791 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
722751 TTTAATAAAT
722761 ATAAATATAATATA
1 ATAAATATAATATA
*
722775 ATAAATATGATATA
1 ATAAATATAATATA
722789 ATA
1 ATA
722792 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATAAATATAATATA
Found at i:722803 original size:36 final size:35
Alignment explanation
Indices: 722727--722807 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
722717 TTAATTATGA
*
722727 AAAATGTAATATAAAAATATGATATTTAATAAATAT
1 AAAATATAATATAAAAATATGATA-TTAATAAATAT
* *
722763 -AAATATAATATAATAAATATGATA-TAATATATTTT
1 AAAATATAATATAA-AAATATGATATTAATA-AATAT
722798 AAAATATAAT
1 AAAATATAAT
722808 TAAGATGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 5 0.13
35 15 0.38
36 19 0.49
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (35 bp):
AAAATATAATATAAAAATATGATATTAATAAATAT
Found at i:723300 original size:14 final size:15
Alignment explanation
Indices: 723264--723304 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
723254 TGTTTTTGTT
*
723264 TAAAATAAAATAATA
1 TAAAATTAAATAATA
723279 TAAAATTAAATAA-A
1 TAAAATTAAATAATA
*
723293 TTAAATTAAATA
1 TAAAATTAAATA
723305 TAACCTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAATTAAATAATA
Found at i:723490 original size:16 final size:16
Alignment explanation
Indices: 723455--723511 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
723445 AATCTGAAAC
* *
723455 TCAAAATGATTTGAAC
1 TCAAAATGATTTAAAT
*
723471 TCAAAATGATTCAAAT
1 TCAAAATGATTTAAAT
*
723487 TCAAAATAATTTAAAT
1 TCAAAATGATTTAAAT
*
723503 TCGAAATGA
1 TCAAAATGA
723512 CCCGAACTCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (16 bp):
TCAAAATGATTTAAAT
Found at i:723544 original size:16 final size:16
Alignment explanation
Indices: 723503--723545 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
723493 TAATTTAAAT
*
723503 TCGAAATGACCCGAAC
1 TCGAAATGATCCGAAC
723519 TCGAAATGATCCGAAGC
1 TCGAAATGATCCGAA-C
723536 -CGAAATGATC
1 TCGAAATGATC
723546 TGAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 24 0.96
17 1 0.04
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (16 bp):
TCGAAATGATCCGAAC
Found at i:724268 original size:53 final size:54
Alignment explanation
Indices: 724175--724285 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 54
724165 AAATTGACTT
* * *
724175 GAACCTGATTTAATCCGAATGTTAAACTCAATTAAACCGAATCTA-AAATGACCC
1 GAACCTGATTTAACCCGAATGCTAAACCCAATTAAACCGAATC-AGAAATGACCC
* * * *
724229 GAACCTGA-TTAACCCGAGTGCTAAACCCAATTGACCCGAATCAGAAATTACCC
1 GAACCTGATTTAACCCGAATGCTAAACCCAATTAAACCGAATCAGAAATGACCC
724282 GAAC
1 GAAC
724286 TCGAAATAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.02
53 40 0.82
54 8 0.16
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (54 bp):
GAACCTGATTTAACCCGAATGCTAAACCCAATTAAACCGAATCAGAAATGACCC
Found at i:724291 original size:16 final size:16
Alignment explanation
Indices: 724257--724307 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
724247 TGCTAAACCC
724257 AATTGACCCGAA-TCAGA
1 AATT-ACCCGAACTC-GA
724274 AATTACCCGAACTCGA
1 AATTACCCGAACTCGA
* * *
724290 AATAATCCGAACCCGA
1 AATTACCCGAACTCGA
724306 AA
1 AA
724308 CAACCCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (16 bp):
AATTACCCGAACTCGA
Found at i:724334 original size:16 final size:16
Alignment explanation
Indices: 724280--724334 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
724270 CAGAAATTAC
*
724280 CCGAACTCGAAATAAT
1 CCGAACCCGAAATAAT
* *
724296 CCGAACCCGAAACAAC
1 CCGAACCCGAAATAAT
*
724312 CCAAACCCGAAATAAT
1 CCGAACCCGAAATAAT
*
724328 CTGAACC
1 CCGAACC
724335 TAAAAATGAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.44, C:0.35, G:0.11, T:0.11
Consensus pattern (16 bp):
CCGAACCCGAAATAAT
Found at i:724513 original size:17 final size:18
Alignment explanation
Indices: 724490--724532 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
724480 CATTTATATA
724490 AAAAAATAAATTTT-TTT
1 AAAAAATAAATTTTATTT
* *
724507 CAAAAAT-TATTTTATTT
1 AAAAAATAAATTTTATTT
724524 AAAAAATAA
1 AAAAAATAA
724533 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAAATAAATTTTATTT
Found at i:724540 original size:15 final size:15
Alignment explanation
Indices: 724522--724552 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
724512 ATTATTTTAT
*
724522 TTAAAAAATAATAAA
1 TTAAAAAATAAAAAA
724537 TTAAAAAATAAAAAA
1 TTAAAAAATAAAAAA
724552 T
1 T
724553 AATTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAAAAATAAAAAA
Found at i:724991 original size:11 final size:11
Alignment explanation
Indices: 724975--725004 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
724965 TATATACACA
724975 AAAATATAATT
1 AAAATATAATT
724986 AAAATATAATT
1 AAAATATAATT
724997 AATAATAT
1 AA-AATAT
725005 TTACATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATATAATT
Found at i:725912 original size:2 final size:2
Alignment explanation
Indices: 725907--725935 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
725897 ATATAATGAA
725907 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
725936 AAGAAACAGA
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:728674 original size:3 final size:3
Alignment explanation
Indices: 728666--728694 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
728656 AAATGAGAAC
728666 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
728695 AAGAAATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:729548 original size:15 final size:16
Alignment explanation
Indices: 729526--729561 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
729516 ATAAATTAAT
729526 TAAAAAAATTAATA-AA
1 TAAAAAAA-TAATATAA
729542 TAAAAAAATAATATAA
1 TAAAAAAATAATATAA
729558 TAAA
1 TAAA
729562 TATAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAAAAATAATATAA
Found at i:729560 original size:20 final size:18
Alignment explanation
Indices: 729527--729563 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
729517 TAAATTAATT
729527 AAAAAAATTAATAAATAA
1 AAAAAAATTAATAAATAA
729545 AAAAATAATATAATAAATA
1 AAAAA-AAT-TAATAAATA
729564 TAATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAAATTAATAAATAA
Found at i:729905 original size:3 final size:3
Alignment explanation
Indices: 729897--729930 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
729887 TTTTTATTCA
729897 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
729931 TATTTACGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:730986 original size:16 final size:16
Alignment explanation
Indices: 730966--731036 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
730956 AATATACACA
730966 AAATAATATATAATAT
1 AAATAATATATAATAT
*
730982 TAATAA-A-ATAATAT
1 AAATAATATATAATAT
*
730996 AAAT-ATATATTAAAAT
1 AAATAATATA-TAATAT
*
731012 CAAATTATATAT-ATAT
1 -AAATAATATATAATAT
*
731028 ATATAATAT
1 AAATAATAT
731037 TTTAACATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
13 1 0.02
14 11 0.25
15 9 0.20
16 13 0.30
17 5 0.11
18 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAATATATAATAT
Found at i:730989 original size:21 final size:21
Alignment explanation
Indices: 730947--731011 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
730937 AAACAGAAAT
*
730947 AATAAT-TAAA-ATATACACAA
1 AATAATATAAATATATA-ATAA
730967 AATAATATATAATAT-TAATAA
1 AATAATATA-AATATATAATAA
*
730988 AATAATATAAATATATATTAA
1 AATAATATAAATATATAATAA
731009 AAT
1 AAT
731012 CAAATTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 11 0.28
21 22 0.56
22 4 0.10
23 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAATATAAATATATAATAA
Found at i:730997 original size:26 final size:29
Alignment explanation
Indices: 730968--731037 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 29
730958 TATACACAAA
730968 ATAATATATAATATT-AAT-AAAATA-AT
1 ATAATATATAATATTAAATCAAAATATAT
*
730994 ATAA-ATAT-ATATTAAAATCAAATTATAT
1 ATAATATATAATATT-AAATCAAAATATAT
731022 ATATATATATAATATT
1 ATA-ATATATAATATT
731038 TTAACATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 5 0.14
25 4 0.11
26 7 0.19
27 5 0.14
28 5 0.14
29 1 0.03
30 4 0.11
31 5 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (29 bp):
ATAATATATAATATTAAATCAAAATATAT
Found at i:731005 original size:24 final size:23
Alignment explanation
Indices: 730965--731035 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
730955 AAATATACAC
730965 AAAATAATAT-ATA-ATATTAAT
1 AAAATAATATAATATATATTAAT
730986 AAAATAATATAAATATATATTAAAAT
1 AAAATAATAT-AATATATATT--AAT
* *
731012 CAAATTATAT-ATATATATATAAT
1 AAAATAATATAATATATAT-TAAT
731035 A
1 A
731036 TTTTAACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
21 10 0.24
23 6 0.15
24 13 0.32
25 1 0.02
26 11 0.27
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATAATATAATATATATTAAT
Found at i:732437 original size:22 final size:21
Alignment explanation
Indices: 732411--732451 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
732401 ATATTTTATT
732411 TAAATA-TAATTATAAAAATATA
1 TAAATATTAA-TA-AAAAATATA
732433 TAAATATTAATAAAAAATA
1 TAAATATTAATAAAAAATA
732452 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAATATTAATAAAAAATATA
Found at i:734128 original size:2 final size:2
Alignment explanation
Indices: 734092--734119 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
734082 ACTCTGTGCA
734092 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
734120 AATCTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:738977 original size:13 final size:14
Alignment explanation
Indices: 738953--739006 Score: 51
Period size: 13 Copynumber: 4.0 Consensus size: 14
738943 ATAAATTTAA
738953 AATTTAATATAATT
1 AATTTAATATAATT
738967 AATTT-ATATAATT
1 AATTTAATATAATT
* * *
738980 ATTTTTAA-AAAATA
1 A-ATTTAATATAATT
738994 AATTTAATA-AATT
1 AATTTAATATAATT
739007 TATAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 17 0.53
14 14 0.44
15 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTAATATAATT
Found at i:739828 original size:22 final size:21
Alignment explanation
Indices: 739797--739851 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
739787 AAGTTCATTT
739797 TATTATTTATAATAATATTAAAA
1 TATT-TTTATAATAATATT-AAA
* *
739820 TATTTTTATATTAATATTATA
1 TATTTTTATAATAATATTAAA
739841 TA-TTTTATAAT
1 TATTTTTATAAT
739852 TAAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 13 0.45
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTTATAATAATATTAAA
Found at i:739845 original size:21 final size:22
Alignment explanation
Indices: 739797--739863 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
739787 AAGTTCATTT
*
739797 TATTATTTATAATAATATTAAAA
1 TATT-TTTATATTAATATTAAAA
*
739820 TATTTTTATATTAATATT-ATA
1 TATTTTTATATTAATATTAAAA
*
739841 TA-TTTTATAATTAA-ATTTAAA
1 TATTTTTAT-ATTAATATTAAAA
739862 TA
1 TA
739864 AAAATATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.23
21 13 0.33
22 13 0.33
23 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTTATATTAATATTAAAA
Found at i:742353 original size:8 final size:8
Alignment explanation
Indices: 742336--742424 Score: 67
Period size: 8 Copynumber: 10.5 Consensus size: 8
742326 TTAATACAAC
742336 TTAT-TAT
1 TTATATAT
742343 TTATATAT
1 TTATATAT
742351 TTATATATT
1 TTATATA-T
742360 TTATATAT
1 TTATATAT
742368 TATAATAATAT
1 T-T-AT-ATAT
742379 TTA-ATAT
1 TTATATAT
742386 ATTATAT-T
1 -TTATATAT
* *
742394 CATATAAATT
1 -TTATATA-T
742404 TTAATATAT
1 TT-ATATAT
742413 TTATATAT
1 TTATATAT
742421 TTAT
1 TTAT
742425 TTTTTTCATT
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
7 8 0.12
8 30 0.45
9 16 0.24
10 8 0.12
11 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATATAT
Found at i:742380 original size:20 final size:19
Alignment explanation
Indices: 742342--742391 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
742332 CAACTTATTA
742342 TTTATATATT-T-ATATAT
1 TTTATATATTATAATATAT
742359 TTTATATATTATAATAATAT
1 TTTATATATTATAAT-ATAT
*
742379 TTAATATATTATA
1 TTTATATATTATA
742392 TTCATATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.34
18 1 0.03
19 2 0.07
20 16 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATATTATAATATAT
Found at i:742398 original size:20 final size:17
Alignment explanation
Indices: 742340--742421 Score: 71
Period size: 17 Copynumber: 4.7 Consensus size: 17
742330 TACAACTTAT
742340 TATTTATATATT-TATA
1 TATTTATATATTATATA
742356 TATTTTATATATTATAATAA
1 TA-TTTATATATTAT-AT-A
742376 TATTTAATATATTATAT-
1 TATTT-ATATATTATATA
* * *
742393 TCATATAAATTTTA-ATA
1 T-ATTTATATATTATATA
742410 TATTTATATATT
1 TATTTATATATT
742422 TATTTTTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
16 12 0.23
17 18 0.34
18 4 0.08
19 7 0.13
20 12 0.23
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTATATATTATATA
Found at i:742478 original size:18 final size:18
Alignment explanation
Indices: 742412--742479 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
742402 TTTTAATATA
742412 TTTA-TATATTT-ATTTT
1 TTTATTATATTTAATTTT
* * *
742428 TTTCATTTTATGTCAAATTT
1 TTT-ATTATAT-TTAATTTT
*
742448 TTTATCA-ATTTTAATTTT
1 TTTATTATA-TTTAATTTT
742466 TTTATTATATTTAA
1 TTTATTATATTTAA
742480 AATTATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 22 0.58
19 5 0.13
20 7 0.18
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTATTATATTTAATTTT
Found at i:742721 original size:22 final size:20
Alignment explanation
Indices: 742681--742734 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
742671 AATATAAAAA
742681 TAAATTTTTAAAT-AT--TT
1 TAAATTTTTAAATAATAATT
*
742698 TATTATTTTATAAATAATAATT
1 TA-AATTTT-TAAATAATAATT
742720 TAAATTTTTAAATAA
1 TAAATTTTTAAATAA
742735 CTCAATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 5 0.17
20 9 0.30
21 5 0.17
22 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAATTTTTAAATAATAATT
Found at i:743634 original size:22 final size:22
Alignment explanation
Indices: 743592--743644 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
743582 TTATTCTAAA
*
743592 ATTTTAATTTTATTAACATAAT
1 ATTTTAATATTATTAACATAAT
*
743614 ATTTT-ATATTATTATAGATAAT
1 ATTTTAATATTATTA-ACATAAT
*
743636 -TTTAAATAT
1 ATTTTAATAT
743645 AAATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTAATATTATTAACATAAT
Found at i:744081 original size:15 final size:16
Alignment explanation
Indices: 744063--744098 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
744053 AAATATATTT
744063 TTTTTAAAATTTAA-A
1 TTTTTAAAATTTAATA
*
744078 TTTTTATAATTTAATA
1 TTTTTAAAATTTAATA
744094 TTTTT
1 TTTTT
744099 TATTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTAAAATTTAATA
Found at i:744123 original size:36 final size:34
Alignment explanation
Indices: 744057--744127 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
744047 TTTAAAAAAT
* **
744057 ATATTTTTTTTAAAATTTAAATTTTTATAATTTA
1 ATATTTTTTTTAAAATTTAAATATAAATAATTTA
*
744091 ATATTTTTTATTAAATTTTAAAATATAAATAATTTA
1 ATATTTTTT-TTAAAATTT-AAATATAAATAATTTA
744127 A
1 A
744128 CATAATTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 9 0.29
35 8 0.26
36 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
ATATTTTTTTTAAAATTTAAATATAAATAATTTA
Found at i:744311 original size:13 final size:13
Alignment explanation
Indices: 744295--744334 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
744285 CAATTTTTTA
744295 TTTAAATTTAAAT
1 TTTAAATTTAAAT
744308 TTTAAATTTAATAT
1 TTTAAATTTAA-AT
*
744322 TTT-TATTTAAAT
1 TTTAAATTTAAAT
744334 T
1 T
744335 CTTCTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 3 0.12
13 17 0.68
14 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAATTTAAAT
Found at i:744575 original size:22 final size:21
Alignment explanation
Indices: 744550--744601 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
744540 AAAAAGATAT
744550 ATAAAATATTTTAAAAAATAAA
1 ATAAAA-ATTTTAAAAAATAAA
*
744572 ATAATAATTTTAAAAAATAAA
1 ATAAAAATTTTAAAAAATAAA
744593 ATTAAAAAT
1 A-TAAAAAT
744602 GATCATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATTTTAAAAAATAAA
Found at i:747041 original size:175 final size:177
Alignment explanation
Indices: 746733--747206 Score: 571
Period size: 175 Copynumber: 2.7 Consensus size: 177
746723 TTGCTCTGGG
* * *
746733 GATGTGATTGGTGATGACCTCGGGAATTCAGCCACGTGGTCATCCTCTCATGTTCATCACCTTCT
1 GATGTGATTGGTGATGACCTCGGGAATTCAGCCACGTGGTCATCCTCTCGTGTTCGTCACCTCCT
* ** * *
746798 TTTGGAGGTGTATAATGGGA-AACAACACAAGGGTTCTCTGTTTCTTTCCAATTTCAATAACGAG
66 TTTGGAGGTGTATGATGGGATAA-GGCACACGGGTTCTCTGTTTCTTTCCGATTTCAATAACGAG
* * ** *
746862 ATTGTCGCCTTGTAGCTTATTATTTGTCTTCTAGTGC-CT-AACGGGT
130 ATTGTCGCCTTGTAGCTTATAATTTGTCGTCTACCGCAATAAACGGGT
* * * *
746908 GGTGTGATTGGTGATGACCTTGGGAATTCAGCCACGTGGTCATCCTCCCGTGTTCGTCCCCTCCT
1 GATGTGATTGGTGATGACCTCGGGAATTCAGCCACGTGGTCATCCTCTCGTGTTCGTCACCTCCT
* * **
746973 TTTGGAGGTGTATGATAGGATAAGGCGA-ACGGTTTCTCTGTTTCTTTCCGATTTTGATAATC-A
66 TTTGGAGGTGTATGATGGGATAAGGC-ACACGGGTTCTCTGTTTCTTTCCGATTTCAATAA-CGA
747036 GATTGTCGCCTTGTAGCTTATAATTTGTCGTCTACCGCATAATGAAACGGGT
129 GATTGTCGCCTTGTAGCTTATAATTTGTCGTCTACCGC--AAT-AAACGGGT
* * ** * * * *
747088 GATGTGATTGGTGATAACCTCAGGTTTTCAGCCACATTGTCATCCTCTCGTGTTAGTCTCCTCCT
1 GATGTGATTGGTGATGACCTCGGGAATTCAGCCACGTGGTCATCCTCTCGTGTTCGTCACCTCCT
* * *
747153 TTTGGAGGTATATGACGGGATAAGGCACAAGGGTTCTCTGTTTCTTTCCGATTT
66 TTTGGAGGTGTATGATGGGATAAGGCACACGGGTTCTCTGTTTCTTTCCGATTT
747207 GATTAGTCTT
Statistics
Matches: 253, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
175 139 0.55
176 4 0.02
178 1 0.00
179 1 0.00
180 108 0.43
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (177 bp):
GATGTGATTGGTGATGACCTCGGGAATTCAGCCACGTGGTCATCCTCTCGTGTTCGTCACCTCCT
TTTGGAGGTGTATGATGGGATAAGGCACACGGGTTCTCTGTTTCTTTCCGATTTCAATAACGAGA
TTGTCGCCTTGTAGCTTATAATTTGTCGTCTACCGCAATAAACGGGT
Found at i:753354 original size:26 final size:25
Alignment explanation
Indices: 753314--753363 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
753304 TAAATTATAA
* *
753314 TTATTATCATAAATTCGTAATAAATT
1 TTATTATAATAAATT-ATAATAAATT
*
753340 TTATTATAATTAATTATAATAAAT
1 TTATTATAATAAATTATAATAAAT
753364 ATTAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTATTATAATAAATTATAATAAATT
Found at i:753821 original size:3 final size:3
Alignment explanation
Indices: 753813--753847 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
753803 TCATTCTGCA
*
753813 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
753848 AATTACAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:754757 original size:191 final size:191
Alignment explanation
Indices: 754433--755005 Score: 1101
Period size: 191 Copynumber: 3.0 Consensus size: 191
754423 TGACCTATAT
754433 GAACTAAATTACTTTATCTAACAAGTGGTTCAACCTTTTGACAGATATAATTTAAGTCTATGTAA
1 GAACTAAATTACTTTATCTAACAAGTGGTTCAACCTTTTGACAGATATAATTTAAGTCTATGTAA
*
754498 GAATAATTACAATTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
66 GAATAATTACAGTTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
754563 ATGAAAATACTATAATTGTCATATAATCTAGGTAGAGGTTTCATAATTGTCATATAATTAC
131 ATGAAAATACTATAATTGTCATATAATCTAGGTAGAGGTTTCATAATTGTCATATAATTAC
*
754624 GAACTAAATTACTTTATCTAACAAGTGGTTTAACCTTTTGACAGATATAATTTAAGTCTATGTAA
1 GAACTAAATTACTTTATCTAACAAGTGGTTCAACCTTTTGACAGATATAATTTAAGTCTATGTAA
754689 GAATAATTACAGTTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
66 GAATAATTACAGTTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
*
754754 ATGAAAATACTATAATTGTCATATAATCTAGGTATAGGTTTCATAATTGTCATATAATTAC
131 ATGAAAATACTATAATTGTCATATAATCTAGGTAGAGGTTTCATAATTGTCATATAATTAC
* *
754815 GAATTAAATTACTTTATCTAACAAGTGGTTCAACCTTTTGACAGATATAATTTAAGTTTATGTAA
1 GAACTAAATTACTTTATCTAACAAGTGGTTCAACCTTTTGACAGATATAATTTAAGTCTATGTAA
754880 GAATAATTACAGTTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
66 GAATAATTACAGTTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
754945 ATGAAAATACTATAATTGTCATATAATCTAGGTAGAGGTTTCATAATTGTCATATAATTAC
131 ATGAAAATACTATAATTGTCATATAATCTAGGTAGAGGTTTCATAATTGTCATATAATTAC
755006 AAAGAAATAA
Statistics
Matches: 375, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 375 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (191 bp):
GAACTAAATTACTTTATCTAACAAGTGGTTCAACCTTTTGACAGATATAATTTAAGTCTATGTAA
GAATAATTACAGTTAATATATCATAAAAAATAGAAGAAAGGAAGAACAAGGAATACTAAAAATAC
ATGAAAATACTATAATTGTCATATAATCTAGGTAGAGGTTTCATAATTGTCATATAATTAC
Found at i:755198 original size:23 final size:23
Alignment explanation
Indices: 755159--755213 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
755149 TATTTAAATA
* *
755159 TAAATAT--AAAATAAAATTTTT
1 TAAATATAAAAAATAAAATATAT
*
755180 TAAATATAAAAAATTAAATATAT
1 TAAATATAAAAAATAAAATATAT
*
755203 CAAATATAAAA
1 TAAATATAAAA
755214 TACATATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 7 0.25
23 21 0.75
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATATAAAAAATAAAATATAT
Found at i:755323 original size:3 final size:3
Alignment explanation
Indices: 755315--755341 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
755305 CTGAAGTTAC
755315 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
755342 AAATTGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:756790 original size:15 final size:15
Alignment explanation
Indices: 756772--756804 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
756762 TAATTTTGAG
*
756772 TTAGTTTATTTTAGA
1 TTAGATTATTTTAGA
756787 TTAGATTATTTTAGA
1 TTAGATTATTTTAGA
756802 TTA
1 TTA
756805 TAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
TTAGATTATTTTAGA
Found at i:756912 original size:32 final size:32
Alignment explanation
Indices: 756861--756937 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
756851 TTCGTGTCAC
* * *
756861 TTTAGA-TTCGAGTTATTTCGGGTTCGGATCA
1 TTTAGAGTTCGGGTTGTTTCGGGTTCAGATCA
* *
756892 TTTCGAGTTTGGGTTGTTTCGGGTTCAGATCA
1 TTTAGAGTTCGGGTTGTTTCGGGTTCAGATCA
756924 TTTAGAGTTCGGGT
1 TTTAGAGTTCGGGT
756938 CAATTGGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.16, C:0.12, G:0.30, T:0.43
Consensus pattern (32 bp):
TTTAGAGTTCGGGTTGTTTCGGGTTCAGATCA
Found at i:758019 original size:16 final size:17
Alignment explanation
Indices: 758000--758083 Score: 61
Period size: 16 Copynumber: 5.2 Consensus size: 17
757990 TCGGATTGGG
758000 GTCATTTTGAG-TTCGA
1 GTCATTTTGAGATTCGA
* *
758016 GTCA-TTTCAGATTTGA
1 GTCATTTTGAGATTCGA
* * *
758032 GTTATTCTG-GATTCGG
1 GTCATTTTGAGATTCGA
*
758048 GTCA-TTTCAGATTCGA
1 GTCATTTTGAGATTCGA
* *
758064 GTTATTTCGAG-TTCGA
1 GTCATTTTGAGATTCGA
758080 GTCA
1 GTCA
758084 GTTCGGATTC
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
15 7 0.14
16 36 0.73
17 6 0.12
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (17 bp):
GTCATTTTGAGATTCGA
Found at i:758023 original size:32 final size:32
Alignment explanation
Indices: 758000--758094 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
757990 TCGGATTGGG
*
758000 GTCATTTTGAGTTCGAGTCATTTCAGATTTGA
1 GTCATTTTGAGTTCGAGTCATTTCAGATTCGA
* * *
758032 GTTATTCTG-GATTCGGGTCATTTCAGATTCGA
1 GTCATTTTGAG-TTCGAGTCATTTCAGATTCGA
* * * *
758064 GTTATTTCGAGTTCGAGTCAGTTCGGATTCG
1 GTCATTTTGAGTTCGAGTCATTTCAGATTCG
758095 GGATGTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 1 0.02
32 50 0.96
33 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (32 bp):
GTCATTTTGAGTTCGAGTCATTTCAGATTCGA
Found at i:758050 original size:48 final size:48
Alignment explanation
Indices: 757989--758096 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 48
757979 TTCGGATAAT
* * * *
757989 TTCGGATTGGGGTCATTT-TGAGTTCGAGTCATTTC-AGATTTGAGTTA-
1 TTCGGATTCGGGTCATTTCAGA-TTCGAGTCATTTCGAG-TTCGAGTCAG
*
758036 TTCTGGATTCGGGTCATTTCAGATTCGAGTTATTTCGAGTTCGAGTCAG
1 TTC-GGATTCGGGTCATTTCAGATTCGAGTCATTTCGAGTTCGAGTCAG
758085 TTCGGATTCGGG
1 TTCGGATTCGGG
758097 ATGTTGACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
47 3 0.06
48 42 0.81
49 7 0.13
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.40
Consensus pattern (48 bp):
TTCGGATTCGGGTCATTTCAGATTCGAGTCATTTCGAGTTCGAGTCAG
Found at i:758094 original size:16 final size:16
Alignment explanation
Indices: 758011--758094 Score: 73
Period size: 16 Copynumber: 5.2 Consensus size: 16
758001 TCATTTTGAG
758011 TTCGAGTCATTTCAGA
1 TTCGAGTCATTTCAGA
* * *
758027 TTTGAGTTA-TTCTGGA
1 TTCGAGTCATTTC-AGA
*
758043 TTCGGGTCATTTCAGA
1 TTCGAGTCATTTCAGA
*
758059 TTCGAGTTATTTC-GA
1 TTCGAGTCATTTCAGA
* *
758074 GTTCGAGTCAGTTCGGA
1 -TTCGAGTCATTTCAGA
758091 TTCG
1 TTCG
758095 GGATGTTGAC
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
15 5 0.09
16 43 0.81
17 5 0.09
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (16 bp):
TTCGAGTCATTTCAGA
Found at i:759428 original size:9 final size:9
Alignment explanation
Indices: 759414--759440 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
759404 GCAGCCGAGC
759414 TTCTAGAAG
1 TTCTAGAAG
759423 TTCTAGAAG
1 TTCTAGAAG
759432 TTCTAGAAG
1 TTCTAGAAG
759441 GGCCTAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (9 bp):
TTCTAGAAG
Found at i:759559 original size:30 final size:31
Alignment explanation
Indices: 759507--759585 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 31
759497 GCCTAATTAA
759507 TTAAATTAATTTAAATTAAATTT-TTTTAAATT
1 TTAAATT-ATTTAAATTAAATTTATTTT-AATT
* *
759539 TTAAATT-TTTAAGTTTAATTTATTTTAATT
1 TTAAATTATTTAAATTAAATTTATTTTAATT
759569 TTAAATTATTTTAAATT
1 TTAAATTA-TTTAAATT
759586 TAAGTTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 23 0.56
31 4 0.10
32 14 0.34
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (31 bp):
TTAAATTATTTAAATTAAATTTATTTTAATT
Found at i:759597 original size:16 final size:16
Alignment explanation
Indices: 759507--759588 Score: 89
Period size: 16 Copynumber: 5.2 Consensus size: 16
759497 GCCTAATTAA
*
759507 TTAAATTAATTTAAA-
1 TTAAATTATTTTAAAT
*
759522 TTAAATTTTTTTAAATT
1 TTAAATTATTTTAAA-T
*
759539 TTAAA-T-TTTTAAGT
1 TTAAATTATTTTAAAT
* *
759553 TTAATTTATTTTAATT
1 TTAAATTATTTTAAAT
759569 TTAAATTATTTTAAAT
1 TTAAATTATTTTAAAT
759585 TTAA
1 TTAA
759589 GTTAATTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.09
15 20 0.36
16 26 0.46
17 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (16 bp):
TTAAATTATTTTAAAT
Found at i:759748 original size:16 final size:16
Alignment explanation
Indices: 759727--759770 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
759717 GAATTAATTG
759727 TTTAAATTAATTTAAA
1 TTTAAATTAATTTAAA
* *
759743 TTTAAATTATTTTTAA
1 TTTAAATTAATTTAAA
*
759759 TTTGAA-TAATTT
1 TTTAAATTAATTT
759771 TATGTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTAAATTAATTTAAA
Found at i:760049 original size:21 final size:22
Alignment explanation
Indices: 760023--760064 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
760013 CTTAAACATT
760023 GAAAC-ATACTAAAAATCTATC
1 GAAACAATACTAAAAATCTATC
760044 GAAACATATACTAAAAATCTA
1 GAAACA-ATACTAAAAATCTA
760065 ACTCAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.24
Consensus pattern (22 bp):
GAAACAATACTAAAAATCTATC
Found at i:762524 original size:19 final size:19
Alignment explanation
Indices: 762495--762554 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
762485 GTTTTGATAA
762495 AAATATTAAATTTAAAAATT
1 AAAT-TTAAATTTAAAAATT
* *
762515 ATATTTAAATATAAAAATT
1 AAATTTAAATTTAAAAATT
762534 AAATTT--ATTTAAAAGATT
1 AAATTTAAATTTAAAA-ATT
762552 AAA
1 AAA
762555 AAAGTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.20
18 6 0.17
19 19 0.54
20 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATTTAAATTTAAAAATT
Found at i:762555 original size:24 final size:24
Alignment explanation
Indices: 762510--762556 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
762500 TTAAATTTAA
*
762510 AAATTATATTTAAATATAAAAATT
1 AAATTATATTTAAAGATAAAAATT
762534 AAATT-TATTTAAAAGATTAAAAA
1 AAATTATATTT-AAAGA-TAAAAA
762557 AGTTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 9 0.45
25 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTATATTTAAAGATAAAAATT
Found at i:762679 original size:12 final size:12
Alignment explanation
Indices: 762664--762693 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
762654 CTAAATATAA
762664 ATATTAAAAAAT
1 ATATTAAAAAAT
*
762676 ATATTAATAAAT
1 ATATTAAAAAAT
762688 ATATTA
1 ATATTA
762694 TATCGAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTAAAAAAT
Found at i:763654 original size:32 final size:32
Alignment explanation
Indices: 763618--763725 Score: 81
Period size: 32 Copynumber: 3.6 Consensus size: 32
763608 TAAAAAAATT
* *
763618 TATTTTATTATTTAAAAATT-ATTTTATATTAA
1 TATTTTATTATTTAAAAATTAAATTTA-AATAA
* *
763650 TA-TTTATATATTTTATAATTAAATTTAAATAA
1 TATTTTAT-TATTTAAAAATTAAATTTAAATAA
*
763682 TTTTTTATTA-TTAAATAA-T-AATTTAAAT--
1 TATTTTATTATTTAAA-AATTAAATTTAAATAA
763710 TA-TTT-TTATTTAAAAA
1 TATTTTATTATTTAAAAA
763726 GGCTTGACCC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
26 5 0.08
27 8 0.13
28 1 0.02
30 9 0.14
31 9 0.14
32 21 0.33
33 10 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TATTTTATTATTTAAAAATTAAATTTAAATAA
Found at i:763694 original size:24 final size:24
Alignment explanation
Indices: 763602--763697 Score: 73
Period size: 21 Copynumber: 4.2 Consensus size: 24
763592 TATATTTTTT
* * *
763602 TTAAATTAAAAAAATTTATT-TTA
1 TTAAATTTAAATAATTTTTTATTA
763625 TT--ATTTAAA-AATTATTTTA-TA
1 TTAAATTTAAATAATT-TTTTATTA
* *
763646 TTAATATTT--AT-ATATTTTATAA
1 TTAA-ATTTAAATAATTTTTTATTA
763668 TTAAATTTAAATAATTTTTTATTA
1 TTAAATTTAAATAATTTTTTATTA
763692 TTAAAT
1 TTAAAT
763698 AATAATTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
20 4 0.07
21 22 0.39
22 8 0.14
23 4 0.07
24 19 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAATTTAAATAATTTTTTATTA
Found at i:763963 original size:17 final size:17
Alignment explanation
Indices: 763941--763988 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
763931 TAAATATACA
763941 ATATTA-ATCATAATTAT
1 ATATTATATCAT-ATTAT
*
763958 ATATTATATTATATTAT
1 ATATTATATCATATTAT
763975 AT-TTAT-T-ATATTAT
1 ATATTATATCATATTAT
763989 TTTCGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.24
15 1 0.03
16 4 0.14
17 13 0.45
18 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTATATCATATTAT
Found at i:763967 original size:5 final size:5
Alignment explanation
Indices: 763957--763988 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
763947 ATCATAATTA
763957 TATAT TATAT TATAT TATAT T-TAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
763989 TTTCGTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:763983 original size:14 final size:15
Alignment explanation
Indices: 763957--763988 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
763947 ATCATAATTA
763957 TATATTATATTATAT
1 TATATTATATTATAT
763972 TATATT-TATTATAT
1 TATATTATATTATAT
763986 TAT
1 TAT
763989 TTTCGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTATATTATAT
Found at i:764260 original size:16 final size:16
Alignment explanation
Indices: 764214--764271 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
764204 TTTTAAGAGT
764214 ATATTTATATGAATTTTA
1 ATATTTATAT--ATTTTA
*
764232 AT-TTTA-ATTTTTTA
1 ATATTTATATATTTTA
764246 ATATTTATATATTTTA
1 ATATTTATATATTTTA
* *
764262 TTACTTATAT
1 ATATTTATAT
764272 CACATTATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.21
15 4 0.12
16 17 0.50
17 4 0.12
18 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
ATATTTATATATTTTA
Found at i:764958 original size:33 final size:33
Alignment explanation
Indices: 764916--765058 Score: 151
Period size: 33 Copynumber: 4.0 Consensus size: 33
764906 AAAAAAGGGA
764916 AAGTGACTAATGCATGGATTAGATTTGAACCTT
1 AAGTGACTAATGCATGGATTAGATTTGAACCTT
*
764949 AAGTGACTAATGCAAGTGTTGGATTTGAACCTTAAGTGAACCTT
1 AAGTGACTAATGC-A----TGGATTAG-A--TT---TGAACCTT
*
764993 AAGTGACTAATGCATGGGTTAGATTTGAACCTT
1 AAGTGACTAATGCATGGATTAGATTTGAACCTT
* *
765026 AAGTGACTAATGCATGGGTTAGATTCGAACCTT
1 AAGTGACTAATGCATGGATTAGATTTGAACCTT
765059 TCATTAATAT
Statistics
Matches: 95, Mismatches: 4, Indels: 22
0.79 0.03 0.18
Matches are distributed among these distances:
33 53 0.56
34 1 0.01
36 2 0.02
38 8 0.08
39 7 0.07
41 2 0.02
43 1 0.01
44 21 0.22
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (33 bp):
AAGTGACTAATGCATGGATTAGATTTGAACCTT
Found at i:764990 original size:11 final size:11
Alignment explanation
Indices: 764974--764998 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
764964 GTGTTGGATT
764974 TGAACCTTAAG
1 TGAACCTTAAG
764985 TGAACCTTAAG
1 TGAACCTTAAG
764996 TGA
1 TGA
764999 CTAATGCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (11 bp):
TGAACCTTAAG
Found at i:764991 original size:44 final size:44
Alignment explanation
Indices: 764941--765031 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
764931 GGATTAGATT
* *
764941 TGAACCTTAAGTGACTAATGCAAGTGTTGGATTTGAACCTTAAG
1 TGAACCTTAAGTGACTAATGCAAGGGTTAGATTTGAACCTTAAG
*
764985 TGAACCTTAAGTGACTAATGCATGGGTTAGATTTGAACCTTAAG
1 TGAACCTTAAGTGACTAATGCAAGGGTTAGATTTGAACCTTAAG
765029 TGA
1 TGA
765032 CTAATGCATG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (44 bp):
TGAACCTTAAGTGACTAATGCAAGGGTTAGATTTGAACCTTAAG
Found at i:765056 original size:77 final size:77
Alignment explanation
Indices: 764916--765058 Score: 241
Period size: 77 Copynumber: 1.9 Consensus size: 77
764906 AAAAAAGGGA
* * *
764916 AAGTGACTAATGCATGGATTAGATTTGAACCTTAAGTGACTAATGCAAGTGTTGGATTTGAACCT
1 AAGTGACTAATGCATGGATTAGATTTGAACCTTAAGTGACTAATGCAAGGGTTAGATTCGAACCT
764981 TAAGTGAACCTT
66 TAAGTGAACCTT
* *
764993 AAGTGACTAATGCATGGGTTAGATTTGAACCTTAAGTGACTAATGCATGGGTTAGATTCGAACCT
1 AAGTGACTAATGCATGGATTAGATTTGAACCTTAAGTGACTAATGCAAGGGTTAGATTCGAACCT
765058 T
66 T
765059 TCATTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (77 bp):
AAGTGACTAATGCATGGATTAGATTTGAACCTTAAGTGACTAATGCAAGGGTTAGATTCGAACCT
TAAGTGAACCTT
Found at i:766737 original size:19 final size:19
Alignment explanation
Indices: 766710--766748 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
766700 TGGACTTCTA
*
766710 AACTATGTATCAAGTTATG
1 AACTATGTATCAAATTATG
*
766729 AACTTTGTATCAAATTATG
1 AACTATGTATCAAATTATG
766748 A
1 A
766749 TTACTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (19 bp):
AACTATGTATCAAATTATG
Found at i:770091 original size:4 final size:4
Alignment explanation
Indices: 770074--770103 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
770064 CATATCTATA
*
770074 TTAT TTAT TCAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
770104 TTATCTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:770412 original size:12 final size:13
Alignment explanation
Indices: 770384--770410 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
770374 AATATAACTT
770384 AATATTTATAAAA
1 AATATTTATAAAA
770397 AATATTTATAAAA
1 AATATTTATAAAA
770410 A
1 A
770411 TAAATTGATT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATTTATAAAA
Found at i:770943 original size:18 final size:17
Alignment explanation
Indices: 770902--770952 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
770892 AAAATATTAA
*
770902 ATTTAAAAATTATATTT
1 ATTTAAAAATTAAATTT
**
770919 AAATAAAATATTAAATTT
1 ATTTAAAA-ATTAAATTT
*
770937 ATTTAAAAAATAAATT
1 ATTTAAAAATTAAATT
770953 AAGTTTTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTAAAAATTAAATTT
Found at i:770953 original size:22 final size:23
Alignment explanation
Indices: 770908--770954 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
770898 TTAAATTTAA
*
770908 AAATTATATTTAAATAAAATATT
1 AAATTATATTTAAATAAAAAATT
770931 AAATT-TATTTAAA-AAATAAATT
1 AAATTATATTTAAATAAA-AAATT
770953 AA
1 AA
770955 GTTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTATATTTAAATAAAAAATT
Found at i:771007 original size:26 final size:26
Alignment explanation
Indices: 770981--771094 Score: 87
Period size: 26 Copynumber: 4.5 Consensus size: 26
770971 TAATTTAATT
770981 TAAATAATTATATAATATATATTAT-
1 TAAATAATTATATAATATATATTATA
** * * *
771006 TTTATACATTAAATAATTTTTATTATA
1 TAAATA-ATTATATAATATATATTATA
* *
771033 TAAAAAATATATATAATAT-TATAATA
1 TAAATAAT-TATATAATATATATTATA
*
771059 TAAAT-ATTA-A-AAAATATATTA-A
1 TAAATAATTATATAATATATATTATA
771081 TAAATATATTATAT
1 TAAATA-ATTATAT
771095 CGAATAAGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
22 10 0.15
23 5 0.07
24 6 0.09
25 7 0.10
26 28 0.42
27 11 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAATAATTATATAATATATATTATA
Found at i:771100 original size:14 final size:12
Alignment explanation
Indices: 771062--771091 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
771052 TATAATATAA
*
771062 ATATTAAAAAAT
1 ATATTAATAAAT
771074 ATATTAATAAAT
1 ATATTAATAAAT
771086 ATATTA
1 ATATTA
771092 TATCGAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTAATAAAT
Found at i:771172 original size:19 final size:19
Alignment explanation
Indices: 771128--771177 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
771118 ATTTTAAAAA
* *
771128 ATTTAAAAAAA-TATATTT
1 ATTTAAAAAAATTAAATTC
*
771146 AATT-AAAAAATTAAATTC
1 ATTTAAAAAAATTAAATTC
771164 ATTTAAAAAAATTA
1 ATTTAAAAAAATTA
771178 GTGCTGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTAAAAAAATTAAATTC
Found at i:771923 original size:13 final size:13
Alignment explanation
Indices: 771905--771947 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
771895 TTGAAATTTC
771905 ATTATTTATTATT
1 ATTATTTATTATT
*
771918 ATTATTTGTTATT
1 ATTATTTATTATT
*
771931 TTTATTTTATT-TT
1 ATTA-TTTATTATT
771944 ATTA
1 ATTA
771948 AGATAAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:773219 original size:19 final size:19
Alignment explanation
Indices: 773172--773219 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
773162 TTTTTATATA
*
773172 ATTTATATTTATTTAATTT
1 ATTTATATATATTTAATTT
*
773191 AATTAT-TATATTTTAATTTT
1 ATTTATATATA-TTTAA-TTT
773211 ATTTATATA
1 ATTTATATA
773220 AGTCAACGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 8 0.35
21 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATATATATTTAATTT
Found at i:773703 original size:2 final size:2
Alignment explanation
Indices: 773696--773724 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
773686 CAACAAATTT
773696 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
773725 TAACTAACGC
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:777916 original size:2 final size:2
Alignment explanation
Indices: 777863--777899 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
777853 TTTATGTTTA
777863 AT AT AT AT 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 AT AT AT AT A
777900 ACACATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:779080 original size:16 final size:15
Alignment explanation
Indices: 779050--779083 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
779040 TAATACATAC
*
779050 AAATTAAATATAAAT
1 AAATTAAAAATAAAT
779065 AAATTAAAAAATAAAT
1 AAATT-AAAAATAAAT
779081 AAA
1 AAA
779084 CAAGATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATTAAAAATAAAT
Done.