Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 6198200
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 200361 characters in sequence are not A, C, G, or T
File 3 of 32
Found at i:255010 original size:14 final size:15
Alignment explanation
Indices: 254983--255016 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
254973 ATTCTATTAT
254983 TGATATTTACTAAAA
1 TGATATTTACTAAAA
*
254998 TGAT-TTTATTAAAA
1 TGATATTTACTAAAA
255012 TGATA
1 TGATA
255017 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (15 bp):
TGATATTTACTAAAA
Found at i:255385 original size:15 final size:15
Alignment explanation
Indices: 255352--255388 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
255342 GATAACAAAA
255352 ATAAAAAAATGTAAG
1 ATAAAAAAATGTAAG
255367 -TAAAAAAAT-TAAGG
1 ATAAAAAAATGTAA-G
255381 ATAAAAAA
1 ATAAAAAA
255389 GAGTTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (15 bp):
ATAAAAAAATGTAAG
Found at i:256017 original size:24 final size:24
Alignment explanation
Indices: 255990--256052 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
255980 ATATATAATG
* *
255990 TAAAATTATTTCATATATTAATT-A
1 TAAAATAATTT-ATAAATTAATTAA
*
256014 TAAAAAAAATTTATAAATTAATTAA
1 T-AAAATAATTTATAAATTAATTAA
*
256039 TAAAATAATATATA
1 TAAAATAATTTATA
256053 TTTTTTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 22 0.69
25 10 0.31
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TAAAATAATTTATAAATTAATTAA
Found at i:257980 original size:19 final size:19
Alignment explanation
Indices: 257927--257991 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
257917 TTTATTCAAA
257927 TTTAAAT-ATAAAAATATAAT
1 TTTAAATAAT-AAAATAT-AT
* **
257947 TTT-AATATTTTAATATAT
1 TTTAAATAATAAAATATAT
*
257965 TTTAAATAATAAAATAAATT
1 TTTAAATAATAAAATATA-T
257985 TTTAAAT
1 TTTAAAT
257992 TTAACCGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.14
19 18 0.51
20 12 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTAAATAATAAAATATAT
Found at i:258097 original size:2 final size:2
Alignment explanation
Indices: 258090--258124 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
258080 TGTTGTAAAT
*
258090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
258125 TCTAAAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:258585 original size:28 final size:30
Alignment explanation
Indices: 258543--258599 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
258533 ATCAAAATTA
* **
258543 TATTAATAGATATATTATTTTTTATTTTGT
1 TATTAATAGATATATCATCATTTATTTTGT
258573 TATTAA-A-ATATATCATCATTTATTTTG
1 TATTAATAGATATATCATCATTTATTTTG
258600 ATGTATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.71
29 1 0.04
30 6 0.25
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (30 bp):
TATTAATAGATATATCATCATTTATTTTGT
Found at i:258665 original size:20 final size:21
Alignment explanation
Indices: 258627--258674 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
258617 TACTAAATTT
* *
258627 TAAATATTTTTAATTTATATA
1 TAAATATTTTGAATGTATATA
*
258648 TAAATATTTTGAA-GTATAAAA
1 TAAATATTTTGAATGTAT-ATA
258669 TAAATA
1 TAAATA
258675 AGATTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TAAATATTTTGAATGTATATA
Found at i:259282 original size:19 final size:19
Alignment explanation
Indices: 259246--259284 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
259236 ATTAGTAAAG
* * *
259246 TTAAATTTTTTAATAATTA
1 TTAAATTTATAAAAAATTA
259265 TTAAATTTATAAAAAATTA
1 TTAAATTTATAAAAAATTA
259284 T
1 T
259285 ATCTAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTTATAAAAAATTA
Found at i:259303 original size:32 final size:32
Alignment explanation
Indices: 259256--259324 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
259246 TTAAATTTTT
* *
259256 TAATAATTATTAAATTTATAAAAAATTATATC
1 TAATAATTATCAAATTTATAAAAAAGTATATC
* *
259288 TAATATTTATCAAATTTATAAATAAGTATATC
1 TAATAATTATCAAATTTATAAAAAAGTATATC
259320 TAATA
1 TAATA
259325 CTCATTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (32 bp):
TAATAATTATCAAATTTATAAAAAAGTATATC
Found at i:259337 original size:32 final size:32
Alignment explanation
Indices: 259264--259338 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
259254 TTTAATAATT
* * *
259264 ATTAAATTTATAAAAAATTATATCTAATATTT
1 ATTAAATTTATAAAAAAGTATATCTAATACTC
* *
259296 ATCAAATTTATAAATAAGTATATCTAATACTC
1 ATTAAATTTATAAAAAAGTATATCTAATACTC
*
259328 ATTATATTTAT
1 ATTAAATTTAT
259339 GATAAATATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTAAATTTATAAAAAAGTATATCTAATACTC
Found at i:269480 original size:2 final size:2
Alignment explanation
Indices: 269473--269501 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
269463 TTTCTAATAC
269473 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
269502 TAAAAAAAAA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:269907 original size:2 final size:2
Alignment explanation
Indices: 269900--269931 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
269890 AATCCATAGT
269900 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
269932 CACACATATC
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:271592 original size:23 final size:23
Alignment explanation
Indices: 271558--271613 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
271548 AAATGAAGGG
271558 GAAA-AAAAAAA-G-AAAGAGAAA
1 GAAATAAAAAAAGGAAAAG-GAAA
*
271579 GAGATTAAAAAAAGGAAAAGGAAA
1 GA-AATAAAAAAAGGAAAAGGAAA
271603 GAAATAAAAAA
1 GAAATAAAAAA
271614 TGAAGAGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 2 0.07
22 1 0.03
23 15 0.52
24 7 0.24
25 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (23 bp):
GAAATAAAAAAAGGAAAAGGAAA
Found at i:271596 original size:24 final size:23
Alignment explanation
Indices: 271561--271663 Score: 65
Period size: 22 Copynumber: 4.6 Consensus size: 23
271551 TGAAGGGGAA
*
271561 AAAAAAAAG-AAAGAGAAAGAGATT
1 AAAAAAAAGAAAAG-GAAAGA-AAT
*
271585 AAAAAAAGGAAAAGGAAAGAAAT
1 AAAAAAAAGAAAAGGAAAGAAAT
* * *
271608 -AAAAAATGAAGAGGGAAG-AA-
1 AAAAAAAAGAAAAGGAAAGAAAT
** *
271628 AGGAAAAA-AAAAGGAAA-TAAT
1 AAAAAAAAGAAAAGGAAAGAAAT
271649 AAAAAAAAGAGAAAG
1 AAAAAAAAGA-AAAG
271664 TAATAAATGA
Statistics
Matches: 61, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
20 9 0.15
21 12 0.20
22 16 0.26
23 6 0.10
24 14 0.23
25 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (23 bp):
AAAAAAAAGAAAAGGAAAGAAAT
Found at i:271653 original size:19 final size:19
Alignment explanation
Indices: 271631--271670 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
271621 GGAAGAAAGG
*
271631 AAAAAAAAAGGAAA-TAAT
1 AAAAAAAAAAGAAAGTAAT
*
271649 AAAAAAAAGAGAAAGTAAT
1 AAAAAAAAAAGAAAGTAAT
271668 AAA
1 AAA
271671 TGATAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAGAAAGTAAT
Found at i:271654 original size:17 final size:19
Alignment explanation
Indices: 271632--271670 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
271622 GAAGAAAGGA
271632 AAAAAAAAG-GAAA-TAAT
1 AAAAAAAAGAGAAAGTAAT
271649 AAAAAAAAGAGAAAGTAAT
1 AAAAAAAAGAGAAAGTAAT
271668 AAA
1 AAA
271671 TGATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 4 0.20
19 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (19 bp):
AAAAAAAAGAGAAAGTAAT
Found at i:271964 original size:34 final size:32
Alignment explanation
Indices: 271918--271981 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 32
271908 TTAATTATAT
271918 TTAAAATATTATTATTTATATAAATTTTAATAAA
1 TTAAAATATTA-T-TTTATATAAATTTTAATAAA
271952 TTAATAAT-TTATTTTATATAAATTTTAATA
1 TTAA-AATATTATTTTATATAAATTTTAATA
271982 TATATTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 18 0.62
33 1 0.03
34 7 0.24
35 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTAAAATATTATTTTATATAAATTTTAATAAA
Found at i:271969 original size:32 final size:33
Alignment explanation
Indices: 271932--272003 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
271922 AATATTATTA
271932 TTTATATAAATTTTAATA-A-ATTAATAATTTAT
1 TTTATATAAATTTTAATATATATTAAT-ATTTAT
*
271964 TTTATATAAATTTTAATATATATTTATATTTAT
1 TTTATATAAATTTTAATATATATTAATATTTAT
*
271997 ATTATAT
1 TTTATAT
272004 TCATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 18 0.50
33 13 0.36
34 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTATATAAATTTTAATATATATTAATATTTAT
Found at i:271974 original size:22 final size:21
Alignment explanation
Indices: 271933--271992 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
271923 ATATTATTAT
*
271933 TTAT-ATAAATTTTA-ATAAA
1 TTATAATATATTTTATATAAA
*
271952 TTAATAATTTATTTTATATAAA
1 TT-ATAATATATTTTATATAAA
*
271974 TTTTAATATATATTTATAT
1 TTATAATATAT-TTTATAT
271993 TTATATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 15 0.45
22 14 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATAATATATTTTATATAAA
Found at i:271980 original size:21 final size:22
Alignment explanation
Indices: 271941--271992 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
271931 ATTTATATAA
*
271941 ATTTTA-ATAAATTAATAATTT
1 ATTTTATATAAATTAATAATAT
*
271962 ATTTTATATAAATT-TTAATAT
1 ATTTTATATAAATTAATAATAT
271983 ATATTTATAT
1 AT-TTTATAT
271993 TTATATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTTATATAAATTAATAATAT
Found at i:271993 original size:6 final size:6
Alignment explanation
Indices: 271982--272016 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
271972 AATTTTAATA
*
271982 TATATT TATATT TATA-T TATATT CATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT
272017 ATACTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:272002 original size:17 final size:17
Alignment explanation
Indices: 271982--272019 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
271972 AATTTTAATA
*
271982 TATATTTATATTTATAT
1 TATATTCATATTTATAT
271999 TATATTCATATTTATAT
1 TATATTCATATTTATAT
272016 TATA
1 TATA
272020 CTATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATTCATATTTATAT
Found at i:272009 original size:23 final size:22
Alignment explanation
Indices: 271983--272026 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
271973 ATTTTAATAT
*
271983 ATATTTATATTTATATTATATTC
1 ATATTTATA-TTATACTATATTC
272006 ATATTTATATTATACTATATT
1 ATATTTATATTATACTATATT
272027 TTAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTTATATTATACTATATTC
Found at i:272029 original size:17 final size:16
Alignment explanation
Indices: 271988--272027 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
271978 AATATATATT
*
271988 TATATTTATATTATAT
1 TATATTTATATTATAC
272004 TCATATTTATATTATAC
1 T-ATATTTATATTATAC
272021 TATATTT
1 TATATTT
272028 TAATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTATATTATAC
Found at i:272049 original size:14 final size:14
Alignment explanation
Indices: 272030--272065 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
272020 CTATATTTTA
272030 ATTAATTTTTTCAT
1 ATTAATTTTTTCAT
272044 ATTAA-TTTTTCAT
1 ATTAATTTTTTCAT
272057 ATTACATTT
1 ATTA-ATTT
272066 ATAACAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.60
14 6 0.30
15 2 0.10
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATTTTTTCAT
Found at i:272221 original size:14 final size:14
Alignment explanation
Indices: 272190--272237 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
272180 ATCTTATTTC
272190 AAAAATTATTTTAA
1 AAAAATTATTTTAA
* **
272204 AAAAACTATTTTTT
1 AAAAATTATTTTAA
*
272218 AAAAATTATTCTCAA
1 AAAAATTATT-TTAA
272233 AAAAA
1 AAAAA
272238 AATATTTTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAATTATTTTAA
Found at i:272245 original size:28 final size:28
Alignment explanation
Indices: 272184--272246 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
272174 ATTTATATCT
* * *
272184 TATTTCAAAAATTATTTTAAAAAAACTA
1 TATTTTAAAAATTATTTCAAAAAAACAA
*
272212 TTTTTTAAAAATTATTCTCAAAAAAA-AA
1 TATTTTAAAAATTATT-TCAAAAAAACAA
272240 TATTTTA
1 TATTTTA
272247 CCTAATGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (28 bp):
TATTTTAAAAATTATTTCAAAAAAACAA
Found at i:274135 original size:19 final size:18
Alignment explanation
Indices: 274113--274160 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
274103 AATTACTTTA
*
274113 ATTTAATTTATTTGGATT
1 ATTTAATTTATTTGAATT
* *
274131 GATTTAATTAATTTTAATT
1 -ATTTAATTTATTTGAATT
274150 ATTTAATTTAT
1 ATTTAATTTAT
274161 ATTTGTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
ATTTAATTTATTTGAATT
Found at i:274171 original size:15 final size:15
Alignment explanation
Indices: 274138--274187 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
274128 ATTGATTTAA
274138 TTAATTT-TAATTAT
1 TTAATTTATAATTAT
* *
274152 TTAATTTATATTTGT
1 TTAATTTATAATTAT
*
274167 TTAATTTA-AATAAAT
1 TTAATTTATAAT-TAT
274182 TTAATT
1 TTAATT
274188 AATTAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTAATTTATAATTAT
Found at i:274191 original size:9 final size:9
Alignment explanation
Indices: 274110--274248 Score: 61
Period size: 9 Copynumber: 14.4 Consensus size: 9
274100 TCAAATTACT
274110 TTAATTTAA
1 TTAATTTAA
* *
274119 TTTATTTGGA
1 TTAATTT-AA
*
274129 TTGATTTAA
1 TTAATTTAA
274138 TTAATTTTAA
1 TTAA-TTTAA
274148 TT-ATTTAA
1 TTAATTTAA
**
274156 TTTATATTTGT
1 -TTA-ATTTAA
274167 TTAATTTAAA
1 TTAATTT-AA
*
274177 TAAATTTAA
1 TTAATTTAA
274186 TTAA-TTAA
1 TTAATTTAA
274194 TTTATATTT--
1 -TTA-ATTTAA
274203 TTAAATTTTTAAA
1 TT-AA--TTT-AA
*
274216 TTAAATTAA
1 TTAATTTAA
*
274225 TTAATTAAA
1 TTAATTTAA
274234 TTAATATTAAA
1 TTAAT-TT-AA
274245 TTAA
1 TTAA
274249 AAAATTATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
8 12 0.12
9 40 0.41
10 30 0.31
11 12 0.12
12 2 0.02
13 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (9 bp):
TTAATTTAA
Found at i:274214 original size:39 final size:38
Alignment explanation
Indices: 274132--274241 Score: 125
Period size: 38 Copynumber: 2.8 Consensus size: 38
274122 ATTTGGATTG
* * * *
274132 ATTTAATTAATTTTAATTATTTAATTTATATTTGTTTA
1 ATTTAAATAAATTTAATTAATTAATTTATATTTGTTAA
274170 ATTTAAATAAATTTAATTAATTAATTTATATTT-TTAA
1 ATTTAAATAAATTTAATTAATTAATTTATATTTGTTAA
*
274207 ATTTTTAAATTAAA-TTAATTAATTAAATTAATATT
1 A--TTTAAA-TAAATTTAATTAATT-AATTTATATT
274242 AAATTAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
37 4 0.06
38 30 0.48
39 16 0.25
40 13 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (38 bp):
ATTTAAATAAATTTAATTAATTAATTTATATTTGTTAA
Found at i:274221 original size:5 final size:5
Alignment explanation
Indices: 274211--274249 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
274201 TTTTAAATTT
274211 TTAAA TTAAA TT-AA TT-AA TTAAA TTAATA TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAA-A TTAAA TTAAA
274250 AAATTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.25
5 19 0.59
6 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:274254 original size:24 final size:23
Alignment explanation
Indices: 274211--274260 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
274201 TTTTAAATTT
**
274211 TTAAATTAAATTAATTAATTAAA
1 TTAAATTAAATTAAAAAATTAAA
*
274234 TTAATATTAAATTAAAAAATTATA
1 TTAA-ATTAAATTAAAAAATTAAA
274258 TTA
1 TTA
274261 TTAATAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAAATTAAATTAAAAAATTAAA
Found at i:277351 original size:24 final size:23
Alignment explanation
Indices: 277323--277368 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
277313 CTTTTGATTT
277323 TCTATATAAATATTAATTATTTAC
1 TCTATAT-AATATTAATTATTTAC
* **
277347 TCTATCTAATATTTTTTATTTA
1 TCTATATAATATTAATTATTTA
277369 TAAATTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (23 bp):
TCTATATAATATTAATTATTTAC
Found at i:277518 original size:17 final size:17
Alignment explanation
Indices: 277496--277529 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
277486 AAGATAATTA
277496 AATAATTTATTTA-AAAT
1 AATAATTT-TTTATAAAT
277513 AATAATTTTTTATAAAT
1 AATAATTTTTTATAAAT
277530 CTTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATAATTTTTTATAAAT
Found at i:278838 original size:2 final size:2
Alignment explanation
Indices: 278831--278858 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
278821 CAATTTCCAG
278831 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
278859 TTGCATTGAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:279144 original size:18 final size:19
Alignment explanation
Indices: 279110--279166 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
279100 ATGATTATTA
*
279110 TTTTATAATT-TTAATTT-T
1 TTTTATAATTAAT-ATTTAT
279128 TTTTATAATTAATATTTAT
1 TTTTATAATTAATATTTAT
*
279147 TAATTA-AATTAATATTTAT
1 T-TTTATAATTAATATTTAT
279166 T
1 T
279167 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 14 0.41
19 17 0.50
20 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAATTAATATTTAT
Found at i:279730 original size:30 final size:30
Alignment explanation
Indices: 279696--279772 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
279686 CTTTTTATAA
* * *
279696 ATATTTATATCTAATAATTTTATCTATCAC
1 ATATTTAAATATAATAATTATATCTATCAC
* * *
279726 ATATTTAAATATAATAATTATATTTATTAT
1 ATATTTAAATATAATAATTATATCTATCAC
279756 ATATTTAAATATGAATA
1 ATATTTAAATAT-AATA
279773 TTAAATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 36 0.90
31 4 0.10
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTTAAATATAATAATTATATCTATCAC
Found at i:284601 original size:16 final size:17
Alignment explanation
Indices: 284559--284603 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
284549 AAAATTAATT
*
284559 TAAATATAAAGTTATAA
1 TAAATATAAAATTATAA
* *
284576 AAAATTTAAAATT-TAA
1 TAAATATAAAATTATAA
284592 TAAATATAAAAT
1 TAAATATAAAAT
284604 AACACAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAATATAAAATTATAA
Found at i:285911 original size:22 final size:19
Alignment explanation
Indices: 285881--285922 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
285871 TATTTTTATT
285881 TAAATTTAATTATAAAATATA
1 TAAATTTAA-TATAAAA-ATA
285902 TAAATATTAATATAAAAATA
1 TAAAT-TTAATATAAAAATA
285922 T
1 T
285923 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTTAATATAAAAATA
Found at i:286636 original size:19 final size:21
Alignment explanation
Indices: 286589--286636 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
286579 TATTTTTTAT
286589 ATATATATTTAAAATAATAAAA
1 ATATA-ATTTAAAATAATAAAA
* *
286611 ATTTAATTT-AAA-AATAAAC
1 ATATAATTTAAAATAATAAAA
286630 ATATAAT
1 ATATAAT
286637 AATTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
21 4 0.17
22 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATTTAAAATAATAAAA
Found at i:291137 original size:6 final size:6
Alignment explanation
Indices: 291126--291155 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
291116 TGCCAGAGCT
291126 ATTGTG ATTGTG ATTGTG ATTGTG AGTTGT
1 ATTGTG ATTGTG ATTGTG ATTGTG A-TTGT
291156 TTGTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
ATTGTG
Found at i:292077 original size:20 final size:21
Alignment explanation
Indices: 292034--292082 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
292024 TTTTTATGAT
292034 ATTTTATTTTATTAATTTATAA
1 ATTTT-TTTTATTAATTTATAA
292056 ATTTTTTTTACTT-ATTTA-AA
1 ATTTTTTTTA-TTAATTTATAA
292076 ATTTTTT
1 ATTTTTT
292083 ACAATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.35
21 10 0.38
22 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTTTATTAATTTATAA
Found at i:292124 original size:23 final size:22
Alignment explanation
Indices: 292072--292124 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
292062 TTTACTTATT
*
292072 TAAAATTTTTTACAATATAAAA
1 TAAAATTTTTTAAAATATAAAA
* *
292094 TTATATTTTTTAAAAATATTAAAA
1 TAAAATTTTTT-AAAATA-TAAAA
292118 -AAAATTT
1 TAAAATTT
292125 AAAAATTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 9 0.38
23 10 0.42
24 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATTTTTTAAAATATAAAA
Found at i:293702 original size:16 final size:17
Alignment explanation
Indices: 293666--293702 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
293656 ACGGTAATAT
293666 AAATATTTAGTTTATTG
1 AAATATTTAGTTTATTG
*
293683 -AATATTTATTTTA-TG
1 AAATATTTAGTTTATTG
293698 AAATA
1 AAATA
293703 ATTGATTACG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
AAATATTTAGTTTATTG
Found at i:294636 original size:25 final size:26
Alignment explanation
Indices: 294608--294666 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 26
294598 CGTATTAAAT
294608 ATTTAATTTAAAATTAAA-ATAAAAA
1 ATTTAATTTAAAATTAAATATAAAAA
*
294633 ATTTAATTTAAATTTAAAGTTATAAAAA
1 ATTTAATTTAAAATTAAA--TATAAAAA
294661 ATTTAA
1 ATTTAA
294667 AATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 17 0.57
28 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTTAATTTAAAATTAAATATAAAAA
Found at i:296229 original size:2 final size:2
Alignment explanation
Indices: 296224--296248 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
296214 TCGTGGTGTG
296224 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
296249 GTTTAATAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:296718 original size:20 final size:20
Alignment explanation
Indices: 296690--296736 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
296680 ATATATTTTT
296690 AAATATAA-TTAAAATAATAA
1 AAATATAATTTAAAA-AATAA
*
296710 AAATTTAATTTAAAAAATAA
1 AAATATAATTTAAAAAATAA
*
296730 ATATATA
1 AAATATA
296737 GTAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATATAATTTAAAAAATAA
Found at i:297258 original size:19 final size:20
Alignment explanation
Indices: 297215--297258 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
297205 TTAAATAAAT
* *
297215 ATAAATTAAAAAATTTTATA
1 ATAAATTAAAAAATTTCAAA
*
297235 GTAAATT-AAAAATTTCAAA
1 ATAAATTAAAAAATTTCAAA
297254 ATAAA
1 ATAAA
297259 AAATTATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAAATTAAAAAATTTCAAA
Found at i:298286 original size:2 final size:2
Alignment explanation
Indices: 298279--298316 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
298269 AGGATTTTGA
298279 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
298317 TATTACTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:298638 original size:27 final size:28
Alignment explanation
Indices: 298607--298681 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
298597 AAATAATTTT
* *
298607 TATTTAATTTATATATTCATATTT-ATA
1 TATTTAATTTATATAATCATATTTAAAA
*
298634 TATTTTATTATATTATAATCATATTTAAAA
1 TATTTAATT-TA-TATAATCATATTTAAAA
298664 TATTTTATATTTATATAA
1 TA-TTTA-ATTTATATAA
298682 ATTTTAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 8 0.21
28 2 0.05
29 12 0.31
30 9 0.23
31 5 0.13
32 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TATTTAATTTATATAATCATATTTAAAA
Found at i:298655 original size:29 final size:28
Alignment explanation
Indices: 298609--298678 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 28
298599 ATAATTTTTA
*
298609 TTTA-ATTTATATATTCATATTT-ATATAT
1 TTTATATTTATA-A-TCATATTTAAAATAT
298637 TTTATTATATTATAATCATATTTAAAATAT
1 TTTA-TAT-TTATAATCATATTTAAAATAT
298667 TTTATATTTATA
1 TTTATATTTATA
298679 TAAATTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 9 0.24
29 11 0.30
30 12 0.32
31 5 0.14
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTATATTTATAATCATATTTAAAATAT
Found at i:301857 original size:21 final size:21
Alignment explanation
Indices: 301811--301866 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
301801 TAAATATATG
301811 ATTTATAAATAAAATTTAAAAT
1 ATTTAT-AATAAAATTTAAAAT
* **
301833 -TTTATAATATAATTTAATTT
1 ATTTATAATAAAATTTAAAAT
301853 ATTTAT-ATAAAATT
1 ATTTATAATAAAATT
301867 ATTTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATAATAAAATTTAAAAT
Found at i:301883 original size:16 final size:16
Alignment explanation
Indices: 301840--301888 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
301830 AATTTTATAA
* *
301840 TATAATTTAATTTATT
1 TATAAATTAAATTATT
*
301856 TAT--ATAAAATTATT
1 TATAAATTAAATTATT
301870 TATAAATTAAATTATT
1 TATAAATTAAATTATT
301886 TAT
1 TAT
301889 TCAGTTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 11 0.41
16 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAATTAAATTATT
Found at i:302394 original size:13 final size:13
Alignment explanation
Indices: 302376--302400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
302366 ATAAATCAAA
302376 TTATTTATTTAAT
1 TTATTTATTTAAT
302389 TTATTTATTTAA
1 TTATTTATTTAA
302401 ATTAAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTATTTAAT
Found at i:302733 original size:14 final size:14
Alignment explanation
Indices: 302714--302741 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
302704 TTAATTATAA
302714 AATATAAAAATATT
1 AATATAAAAATATT
302728 AATATAAAAATATT
1 AATATAAAAATATT
302742 TTTTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:302977 original size:124 final size:119
Alignment explanation
Indices: 302723--302965 Score: 274
Period size: 124 Copynumber: 2.0 Consensus size: 119
302713 AAATATAAAA
*
302723 ATATTAATATAAAAATATTTTTTAAAAATTTTATTAATTATAAATAGTATATATAAATAATATAA
1 ATATTAATATAAAAATATTTTTTAAAAATTTTATTAATTATAAATAGTAAATATAAATAATATAA
** * *
302788 ACGGACTGAATCAAAAATAAACTTAGATAAAAATATAATTTTTTTTAAAATAATG
66 ACAAACTGAATCAAAAATAAACTTAAATAAAAATATAATTATTTTTAAAATAA-G
* *
302843 ATTTGATTAATATAAAAGTAATTATTTT-AAAATTTTATTAATTATAAATCGTAAATATAAATAA
1 A--T-ATTAATATAAAAAT-ATT-TTTTAAAAATTTTATTAATTATAAATAGTAAATATAAATAA
* * *
302907 TATAAATAAACTAAGTAAAATTAAAAATAAATTTAAATAAAAATAT-ATATATTTTTAAA
61 TATAAACAAACT--G---AATCAAAAATAAACTTAAATAAAAATATAAT-TATTTTTAAA
302966 TTACAACTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
120 1 0.01
122 1 0.01
123 13 0.13
124 46 0.45
125 4 0.04
126 1 0.01
128 2 0.02
129 34 0.33
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (119 bp):
ATATTAATATAAAAATATTTTTTAAAAATTTTATTAATTATAAATAGTAAATATAAATAATATAA
ACAAACTGAATCAAAAATAAACTTAAATAAAAATATAATTATTTTTAAAATAAG
Found at i:303270 original size:12 final size:12
Alignment explanation
Indices: 303253--303277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
303243 TAATTTCCTA
303253 TAATTTGAGGGC
1 TAATTTGAGGGC
303265 TAATTTGAGGGC
1 TAATTTGAGGGC
303277 T
1 T
303278 GAACATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TAATTTGAGGGC
Found at i:311019 original size:15 final size:17
Alignment explanation
Indices: 310966--311018 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
310956 CAAATTTGAT
* *
310966 TATTCAAATCTAAATAAA
1 TATT-AAATATAAATATA
310984 TATTAAATATAAATATA
1 TATTAAATATAAATATA
*
311001 TATTTAATATAAATATA
1 TATTAAATATAAATATA
311018 T
1 T
311019 TAAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 28 0.88
18 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTAAATATAAATATA
Found at i:311575 original size:14 final size:15
Alignment explanation
Indices: 311540--311577 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
311530 TGTTCAGTTA
*
311540 TTAAAAAAATTTGAT
1 TTAAAAAAATGTGAT
311555 TTGAAAAAAATGT-AT
1 TT-AAAAAAATGTGAT
311570 TTAAAAAA
1 TTAAAAAA
311578 TATGGTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (15 bp):
TTAAAAAAATGTGAT
Found at i:312657 original size:20 final size:20
Alignment explanation
Indices: 312632--312677 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
312622 ACCATGTCAG
*
312632 ATATTATCATATCTTAAAGA
1 ATATTATCATATCTCAAAGA
** *
312652 ATATTATGTTATCTCACAGA
1 ATATTATCATATCTCAAAGA
312672 ATATTA
1 ATATTA
312678 ACCAAGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (20 bp):
ATATTATCATATCTCAAAGA
Found at i:313070 original size:469 final size:472
Alignment explanation
Indices: 312188--313072 Score: 1364
Period size: 469 Copynumber: 1.9 Consensus size: 472
312178 CAATAGCAGC
*
312188 TATCTCACAGAACATTAACCAAGATATTACCATATCATTAATAATCCAAAATAAAATCTTTCATC
1 TATCTCACAGAACATTAACCAAGATATTACCATATCATTAATAATCCAAAATAAAATCTTGCATC
*
312253 ATGTAAGAACATCAAATATGTACCAAATAAAAACCAAAGAAATTACCATATCATTTACAACTTAA
66 ATGTAAGAACATCAAATATGTACCAAATAAAAACCAAAGAAATTACCATATCATTCACAACTTAA
* * *
312318 GTAATGATTAGGTGATACTAATTTTCCTTTTCGTTTTCTTGTCGGGTATTACAAGCAGCGTTTGG
131 GTAATGATTAGGTAATACTAATTTTCCTTTTCGTTTTCTTGCCGGGTATTACAAGCAGCGTGTGG
* *
312383 CTTAGTTTATTAGTTTCAGTTACGGTTTTCCCTGCAGGTGTAGTTGTTTTGGCCTCTGGAAAACT
196 CTTAG-TTATTAGTTTCAGTTACAGTTTTCCCTGCAGGTGTAGTTGTTTTGGCCACTGGAAAACT
** * *
312448 CGGCTTTAGGCTTGTTGTCAAAGTTCTAGGGGGACCCAAGCCATTGGTGCACCACGCATTGAAAT
260 CGGCTTTAGGCCGGTGGTCAAAGTTCTAGGGGGACCCAAGCCATTGGTGCACCACGCAATGAAAT
* * * * * **
312513 TTCCATCTTTATCATTTGCTACTGTGTGAACTAAAGGCAAGTTTGCTATTTTGACCGGAGCTGGC
325 TTCCATCCTTATCATTTCCGACGGTGTGAACTAAAGCCAAGCCTGCTATTTTGACCGGAGCTGGC
312578 AACTCTTGAAAGCTCGGTGGAAGATTAGGTAATACTAATCTGAGACCATGTCAGATATTATCATA
390 AACTCTTGAAAGCTCGGTGGAAGATTAGGTAATACTAATCTGAGACCATGTCAGATATTATCATA
312643 TCTTAAAGAATATTATGT
455 TCTTAAAGAATATTATGT
* * *
312661 TATCTCACAGAATATTAACCAAGATATTACCATATCATTAATAATCCACAATAAAGTCTTGCATC
1 TATCTCACAGAACATTAACCAAGATATTACCATATCATTAATAATCCAAAATAAAATCTTGCATC
* * *
312726 ATGTAAGAATATCAAATATGTACTC-AA-AAAAACGAAAGATATTACCATATCATTCACAACTTA
66 ATGTAAGAACATCAAATATGTAC-CAAATAAAAACCAAAGAAATTACCATATCATTCACAACTTA
* * * * *
312789 GGTAATGATTAGGTAATGCTAATTTTCTTTTTCTTTTTCTTGCCGGGTATTGCAAGCAGCGTGTG
130 AGTAATGATTAGGTAATACTAATTTTCCTTTTCGTTTTCTTGCCGGGTATTACAAGCAGCGTGTG
* *
312854 GTTTA-TT-TTAGTTTCAGTTACAGTTTTCCCTGCAGGTGTAGTTGTTTTGGCCACTGGAAGACT
195 GCTTAGTTATTAGTTTCAGTTACAGTTTTCCCTGCAGGTGTAGTTGTTTTGGCCACTGGAAAACT
* * * *
312917 TGGCTTTAGGCCGGTGGTCAAAGTTCTAGGGGTACCCAAGCCATTGGTGCCCCATGCAATGAAAT
260 CGGCTTTAGGCCGGTGGTCAAAGTTCTAGGGGGACCCAAGCCATTGGTGCACCACGCAATGAAAT
* *
312982 TTCCTTCCTTATCATTTCCGACGGTGTGAACTAAAGCCAAGCCTGCTATTTTGACCGGAGTTGGC
325 TTCCATCCTTATCATTTCCGACGGTGTGAACTAAAGCCAAGCCTGCTATTTTGACCGGAGCTGGC
* * *
313047 AATTCTTGGAAGGTCGGTGGAAGATT
390 AACTCTTGAAAGCTCGGTGGAAGATT
313073 GGGGAAGCGC
Statistics
Matches: 371, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
469 189 0.51
470 2 0.01
472 94 0.25
473 85 0.23
474 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (472 bp):
TATCTCACAGAACATTAACCAAGATATTACCATATCATTAATAATCCAAAATAAAATCTTGCATC
ATGTAAGAACATCAAATATGTACCAAATAAAAACCAAAGAAATTACCATATCATTCACAACTTAA
GTAATGATTAGGTAATACTAATTTTCCTTTTCGTTTTCTTGCCGGGTATTACAAGCAGCGTGTGG
CTTAGTTATTAGTTTCAGTTACAGTTTTCCCTGCAGGTGTAGTTGTTTTGGCCACTGGAAAACTC
GGCTTTAGGCCGGTGGTCAAAGTTCTAGGGGGACCCAAGCCATTGGTGCACCACGCAATGAAATT
TCCATCCTTATCATTTCCGACGGTGTGAACTAAAGCCAAGCCTGCTATTTTGACCGGAGCTGGCA
ACTCTTGAAAGCTCGGTGGAAGATTAGGTAATACTAATCTGAGACCATGTCAGATATTATCATAT
CTTAAAGAATATTATGT
Found at i:314813 original size:20 final size:19
Alignment explanation
Indices: 314778--314826 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
314768 GATCTTATAA
* *
314778 TATTTTTTTCAATTTTACTT
1 TATTTTTTT-AGTTTTACAT
*
314798 TATTTCTTTTAGTTTTGCAT
1 TATTT-TTTTAGTTTTACAT
314818 TATTTTTTT
1 TATTTTTTT
314827 CGTTAGGCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.71
Consensus pattern (19 bp):
TATTTTTTTAGTTTTACAT
Found at i:318320 original size:89 final size:89
Alignment explanation
Indices: 318139--318970 Score: 949
Period size: 89 Copynumber: 9.3 Consensus size: 89
318129 CTGTCGTATT
* * * * * * *
318139 ATTAGTGAAATATTTTTTATCATGTCAGAAGAAATCTAATACCC-CATGCATTTGTCATATTTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
* * * *
318203 CGGGTTCCAAAAAATTTATTAAGC
66 CGAGTTTCAAGAAATTTATTAGGC
* * * *
318227 ATTAGTCAAATATTTTCTATTGTGTCAGAAGGAATCTGATACCCATATGCATTTGTCACATCTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
* *
318292 CTA-ATTCTAAGAAATTTATTAGGC
66 CGAGTTTC-AAGAAATTTATTAGGC
* * * * *
318316 ATTAGTCAAACATTTTTTGTCATGTTAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
* * *
318381 CGGGTTTAAAAAAATTTATTAGGC
66 CGAGTTTCAAGAAATTTATTAGGC
* * *
318405 ATTAGTCAAATATTTTTTATCGTGTCAAAAGGAATCTGATACTCACATGCATCTG-CAACATTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTC-ACATCTT
* *
318469 TTGGGTTTCAAGATTAATTTATTAGGC
65 TCGAGTTTCAAGA--AATTTATTAGGC
* * * *
318496 ATTAGTCAAATATTTTTTATCATATCAAAAGGAATCTGATACCCACATGCATCTGTCATATCTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
*
318561 C-AGGTTTCAAGAAATTTATTAGGT
66 CGA-GTTTCAAGAAATTTATTAGGC
* * * *
318585 ATTAGTTAAATATTTTTTTTCGTGTCAGAAGGAATCTGATACCCACATACATATGTCACATCTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
*
318650 CGGGTTTCAAGATTAATTTATTAGGC
66 CGAGTTTCAAGA--AATTTATTAGGC
* * * * *
318676 ATTAGTCAAATATTTTTTGTCAG-GTCAAAAGGAATCTAATACTCACATGTATCTGTCACATCTT
1 ATTAGTCAAATATTTTTTATC-GTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* * *
318740 TC-AGGTTCCAAGAAATTTATCAAGC
65 TCGA-GTTTCAAGAAATTTATTAGGC
* * * * *
318765 ATTAGTTAAATATTTTCTATCATGCCAGAAGGAATCTGATACCTACATGCATCTGTCACATCTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
*
318830 CGAGTTTCAAGATTAATTTATTAGGT
66 CGAGTTTCAAGA--AATTTATTAGGC
* * * * * *
318856 ATTAGTTAAATATTTTCTGTTGTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATTTTT
1 ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
318921 CGAGTTT-AAGAAATTTATTAGGC
66 CGAGTTTCAAGAAATTTATTAGGC
* * *
318944 ATTAATCAAATATTTTCTATTGTGTCA
1 ATTAGTCAAATATTTTTTATCGTGTCA
318971 AAAGTCTGTC
Statistics
Matches: 632, Mismatches: 95, Indels: 34
0.83 0.12 0.04
Matches are distributed among these distances:
88 76 0.12
89 319 0.50
90 7 0.01
91 228 0.36
92 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (89 bp):
ATTAGTCAAATATTTTTTATCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT
CGAGTTTCAAGAAATTTATTAGGC
Found at i:318552 original size:180 final size:180
Alignment explanation
Indices: 318139--318970 Score: 1064
Period size: 180 Copynumber: 4.6 Consensus size: 180
318129 CTGTCGTATT
* * * * * *
318139 ATTAGTGAAATATTTTTTATCATGTCAGAAGAAATCTAATACCC-CATGCATTTGTCATATTTTT
1 ATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
* * * *
318203 CGGGTTCCAAAAAATTTATTAAGCATTAGTCAAATATTTTCTATTGTGTCAGAAGGAATCTGATA
66 CGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATA
* * ***
318268 CCCATATGCATTTGTCACATCTTTC-TAATTCTAAGA--AATTTATTAGGC
131 CCCACATGCATCTGTCACATCTTTCGGGTTTC-AAGATTAATTTATTAGGC
* *
318316 ATTAGTCAAACATTTTTTGTCATGTTAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
1 ATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
* * * *
318381 CGGGTTTAAAAAAATTTATTAGGCATTAGTCAAATATTTTTTATCGTGTCAAAAGGAATCTGATA
66 CGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATA
* * *
318446 CTCACATGCATCTG-CAACATTTTTTGGGTTTCAAGATTAATTTATTAGGC
131 CCCACATGCATCTGTC-ACATCTTTCGGGTTTCAAGATTAATTTATTAGGC
* * * * *
318496 ATTAGTCAAATATTTTTTATCATATCAAAAGGAATCTGATACCCACATGCATCTGTCATATCTTT
1 ATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
* * * * *
318561 CAGGTTTCAAGAAATTTATTAGGTATTAGTTAAATATTTTTTTTCGTGTCAGAAGGAATCTGATA
66 CGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATA
* *
318626 CCCACATACATATGTCACATCTTTCGGGTTTCAAGATTAATTTATTAGGC
131 CCCACATGCATCTGTCACATCTTTCGGGTTTCAAGATTAATTTATTAGGC
* * * * * *
318676 ATTAGTCAAATATTTTTTGTCAGGTCAAAAGGAATCTAATACTCACATGTATCTGTCACATCTTT
1 ATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
* * * * * * *
318741 CAGGTTCCAAGAAATTTATCAAGCATTAGTTAAATATTTTCTATCATGCCAGAAGGAATCTGATA
66 CGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATA
* * *
318806 CCTACATGCATCTGTCACATCTTTCGAGTTTCAAGATTAATTTATTAGGT
131 CCCACATGCATCTGTCACATCTTTCGGGTTTCAAGATTAATTTATTAGGC
* * ** *
318856 ATTAGTTAAATATTTTCTGTTGTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATTTTT
1 ATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
* * *
318921 CGAGTTT-AAGAAATTTATTAGGCATTAATCAAATATTTTCTATTGTGTCA
66 CGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCA
318971 AAAGTCTGTC
Statistics
Matches: 567, Mismatches: 82, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
177 40 0.07
178 98 0.17
179 39 0.07
180 389 0.69
181 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (180 bp):
ATTAGTCAAATATTTTTTGTCATGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTT
CGGGTTTCAAGAAATTTATTAGGCATTAGTCAAATATTTTCTATCGTGTCAGAAGGAATCTGATA
CCCACATGCATCTGTCACATCTTTCGGGTTTCAAGATTAATTTATTAGGC
Found at i:318759 original size:269 final size:266
Alignment explanation
Indices: 318139--318959 Score: 1080
Period size: 269 Copynumber: 3.1 Consensus size: 266
318129 CTGTCGTATT
* * * * * * *
318139 ATTAGTGAAATATTTTTTATCATGTCAGAAGAAATCTAATAC-CCCATGCATTTGTCATATTTTT
1 ATTAGTCAAATATTTTTTATCAGGTCAAAAGGAATCTAATACTCACATGCATCTGTCACATTTTT
* **
318203 CGGGTTCCAAAAAATTTATTAAGCATTAGTCAAATATTTTCTATTGTGTCAGAAGGAATCTGATA
66 CGGGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCATGTCAGAAGGAATCTGATA
* * * * * *
318268 CCCATATGCATTTGTCACATCTTTCTA--ATTCTAAGAAATTTATTAGGCATTAGTCAAACATTT
131 CCCACATGCATCTGTCACATCTTTC-AGGTTTC-AAGAAATTTATTAGGTATTAGTTAAATATTT
* * * *
318331 TTTGTCATGTTAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTAAAAAAAT
194 TTTTTCGTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTT-AAGAAAT
318396 TTATTAGGC
258 TTATTAGGC
*
318405 ATTAGTCAAATATTTTTTATC-GTGTCAAAAGGAATCTGATACTCACATGCATCTG-CAACATTT
1 ATTAGTCAAATATTTTTTATCAG-GTCAAAAGGAATCTAATACTCACATGCATCTGTC-ACATTT
* * * * * *
318468 TTTGGGTTTCAAGATTAATTTATTAGGCATTAGTCAAATATTTTTTATCATATCAAAAGGAATCT
64 TTCGGGTTCCAAGA--AATTTATTAAGCATTAGTCAAATATTTTCTATCATGTCAGAAGGAATCT
*
318533 GATACCCACATGCATCTGTCATATCTTTCAGGTTTCAAGAAATTTATTAGGTATTAGTTAAATAT
127 GATACCCACATGCATCTGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGTATTAGTTAAATAT
* * *
318598 TTTTTTTCGTGTCAGAAGGAATCTGATACCCACATACATATGTCACATCTTTCGGGTTTCAAGAT
192 TTTTTTTCGTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTT-AAGA-
318663 TAATTTATTAGGC
255 -AATTTATTAGGC
* * *
318676 ATTAGTCAAATATTTTTTGTCAGGTCAAAAGGAATCTAATACTCACATGTATCTGTCACATCTTT
1 ATTAGTCAAATATTTTTTATCAGGTCAAAAGGAATCTAATACTCACATGCATCTGTCACATTTTT
* * * *
318741 CAGGTTCCAAGAAATTTATCAAGCATTAGTTAAATATTTTCTATCATGCCAGAAGGAATCTGATA
66 CGGGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCATGTCAGAAGGAATCTGATA
*
318806 CCTACATGCATCTGTCACATCTTTC-GAGTTTCAAGATTAATTTATTAGGTATTAGTTAAATATT
131 CCCACATGCATCTGTCACATCTTTCAG-GTTTCAAGA--AATTTATTAGGTATTAGTTAAATATT
* * *
318870 TTCTGTT-GTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATTTTTCGAGTTTAAGAAA
193 TT-TTTTCGTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTAAGAAA
318934 TTTATTAGGC
257 TTTATTAGGC
*
318944 ATTAATCAAATATTTT
1 ATTAGTCAAATATTTT
318960 CTATTGTGTC
Statistics
Matches: 485, Mismatches: 55, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
266 37 0.08
267 26 0.05
268 29 0.06
269 229 0.47
270 7 0.01
271 152 0.31
272 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (266 bp):
ATTAGTCAAATATTTTTTATCAGGTCAAAAGGAATCTAATACTCACATGCATCTGTCACATTTTT
CGGGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTCTATCATGTCAGAAGGAATCTGATA
CCCACATGCATCTGTCACATCTTTCAGGTTTCAAGAAATTTATTAGGTATTAGTTAAATATTTTT
TTTCGTGTCAGAAGAAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTAAGAAATTTA
TTAGGC
Found at i:319028 original size:69 final size:68
Alignment explanation
Indices: 318907--319037 Score: 199
Period size: 69 Copynumber: 1.9 Consensus size: 68
318897 CCCACATGCA
* * * *
318907 TCTGTCACATTTTTCGAGTTTAAGAAATTTATTAGGCATTAATCAAATATTTTCTATTGTGTCAA
1 TCTGTCACATCTTTCGAGTTTAAAAAATTTATTAGGCATTAATCAAACATTTTCTATCGTGTCAA
318972 AAG
66 AAG
* *
318975 TCTGTCACATCTTTCGAGTTTCAAAAAATTTATTAGGCATTAGTGAAACATTTTCTATCGTGT
1 TCTGTCACATCTTTCGAGTTT-AAAAAATTTATTAGGCATTAATCAAACATTTTCTATCGTGT
319038 TAGAAGGAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
68 20 0.36
69 36 0.64
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (68 bp):
TCTGTCACATCTTTCGAGTTTAAAAAATTTATTAGGCATTAATCAAACATTTTCTATCGTGTCAA
AAG
Found at i:319148 original size:22 final size:22
Alignment explanation
Indices: 319103--319148 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
319093 ATTTTATTAG
* *
319103 AACATGTTATAGTATATTATAT
1 AACATGTTATAGTATAATAAAT
319125 AACATGTTATA-TAATAATAAAT
1 AACATGTTATAGT-ATAATAAAT
319147 AA
1 AA
319149 TTAAAATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (22 bp):
AACATGTTATAGTATAATAAAT
Found at i:321525 original size:21 final size:21
Alignment explanation
Indices: 321501--321545 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
321491 TTCATCGTAC
* *
321501 TAAAATTAAACTTAGTTATAA
1 TAAAATTAAACTTAATCATAA
*
321522 TAAAATTAAATTTAATCATAA
1 TAAAATTAAACTTAATCATAA
321543 TAA
1 TAA
321546 TAAATTACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATTAAACTTAATCATAA
Found at i:322061 original size:14 final size:14
Alignment explanation
Indices: 322029--322070 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
322019 AAAAGTACAT
322029 TTTTATA-TT-AAA
1 TTTTATATTTAAAA
322041 TTATTATATTTAAAA
1 TT-TTATATTTAAAA
*
322056 TTTTATTTTTAAAA
1 TTTTATATTTAAAA
322070 T
1 T
322071 AATTTGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 5 0.19
14 14 0.54
15 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATATTTAAAA
Found at i:322467 original size:20 final size:19
Alignment explanation
Indices: 322442--322487 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
322432 AAAAATACAT
322442 AAAAATTAAAT-TATAAACAA
1 AAAAATTAAATGTA-AAA-AA
*
322462 AAAAATTATATGTAAAAAA
1 AAAAATTAAATGTAAAAAA
322481 AAAAATT
1 AAAAATT
322488 TTATGCTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 13 0.54
21 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAAATTAAATGTAAAAAA
Found at i:322477 original size:19 final size:19
Alignment explanation
Indices: 322442--322492 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
322432 AAAAATACAT
*
322442 AAAAATTAAAT-TATAAACAA
1 AAAAATTATATGTA-AAA-AA
322462 AAAAATTATATGTAAAAAA
1 AAAAATTATATGTAAAAAA
*
322481 AAAAATTTTATG
1 AAAAATTATATG
322493 CTAGGCCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 13 0.46
21 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATTATATGTAAAAAA
Found at i:322764 original size:34 final size:34
Alignment explanation
Indices: 322726--322794 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
322716 TTCAAGATTA
322726 TAATAATACTTATAAAAATAAAAATAAAACATAC
1 TAATAATACTTATAAAAATAAAAATAAAACATAC
*
322760 TAATAATACTTATAGAAATAAAAATAAAACATAC
1 TAATAATACTTATAAAAATAAAAATAAAACATAC
322794 T
1 T
322795 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.62, C:0.09, G:0.01, T:0.28
Consensus pattern (34 bp):
TAATAATACTTATAAAAATAAAAATAAAACATAC
Found at i:323172 original size:24 final size:24
Alignment explanation
Indices: 323117--323180 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
323107 AGTTCCCAAC
* **
323117 TAAAAAAATATTGAAAAAAAATTA
1 TAAAAAAATTTTTTAAAAAAATTA
***
323141 TTTTAAAATTTTTTAAAAAAATTA
1 TAAAAAAATTTTTTAAAAAAATTA
323165 TAAAAAAATATTTTTA
1 TAAAAAAAT-TTTTTA
323181 TTTTAACACA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
TAAAAAAATTTTTTAAAAAAATTA
Found at i:324627 original size:146 final size:146
Alignment explanation
Indices: 324409--324695 Score: 540
Period size: 146 Copynumber: 2.0 Consensus size: 146
324399 TTTAATATTT
324409 TTATCAAATAAGTTGAATAAATATAAATTAAAAAATTAAACGTAAATTAAAAATCTCAAAATAAA
1 TTATCAAATAAGTTGAATAAATATAAATTAAAAAATTAAACGTAAATTAAAAATCTCAAAATAAA
324474 AAATTATAGAATGATAACCATTCC-TTTTTTTTCATTTTTTCTTATCCATATTTTTTAAAATGTT
66 AAATTATAGAATGATAACCATTCCTTTTTTTTTCATTTTTTCTTATCCATATTTTTTAAAATGTT
324538 TTAGAATCATTTTTTC
131 TTAGAATCATTTTTTC
324554 TTATCCAAATAAGTTGAATAAATATAAATTAAAAAATTAAACGTAAATTAAAAATCTCAAAATAA
1 TTAT-CAAATAAGTTGAATAAATATAAATTAAAAAATTAAACGTAAATTAAAAATCTCAAAATAA
324619 AAAATTATAGAATGATAACCATTCCTTTTTTTTTTCATTTTTTCTTATCCATATTTTTTAAAATG
65 AAAATTATAGAATGATAACCATTCC-TTTTTTTTTCATTTTTTCTTATCCATATTTTTTAAAATG
*
324684 TTTTGGAATCAT
129 TTTTAGAATCAT
324696 GTTCTTTTCC
Statistics
Matches: 138, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
145 4 0.03
146 85 0.62
148 49 0.36
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (146 bp):
TTATCAAATAAGTTGAATAAATATAAATTAAAAAATTAAACGTAAATTAAAAATCTCAAAATAAA
AAATTATAGAATGATAACCATTCCTTTTTTTTTCATTTTTTCTTATCCATATTTTTTAAAATGTT
TTAGAATCATTTTTTC
Found at i:325363 original size:36 final size:32
Alignment explanation
Indices: 325323--325390 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 32
325313 ATATCATAAT
*
325323 TAAATTTAAAATATTTTATATTTATATTAATTTTAA
1 TAAA-TTAAAA-ATTTT-TA-TTATATAAATTTTAA
*
325359 TAAATTAATAATTTTTATTATATAAATTTTAA
1 TAAATTAAAAATTTTTATTATATAAATTTTAA
325391 AATATATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 14 0.47
33 2 0.07
34 5 0.17
35 5 0.17
36 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TAAATTAAAAATTTTTATTATATAAATTTTAA
Found at i:325446 original size:22 final size:22
Alignment explanation
Indices: 325421--325462 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
325411 TCATAATGTA
*
325421 TTATATTTTAATTATTTTATTT
1 TTATATTTTAATTATATTATTT
*
325443 TTATATTTTTATTATATTAT
1 TTATATTTTAATTATATTAT
325463 ATTCATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTATATTTTAATTATATTATTT
Found at i:325457 original size:11 final size:11
Alignment explanation
Indices: 325419--325460 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
325409 AATCATAATG
325419 TATTATATTTT
1 TATTATATTTT
*
325430 AATTAT-TTTAT
1 TATTATATTT-T
*
325441 TTTTATATTTT
1 TATTATATTTT
325452 TATTATATT
1 TATTATATT
325461 ATATTCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.12
11 19 0.76
12 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATATTTT
Found at i:325470 original size:22 final size:21
Alignment explanation
Indices: 325419--325470 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
325409 AATCATAATG
*
325419 TATTATATTTTAATTATTTTA
1 TATTATATTTTAATTATATTA
* *
325440 TTTTTATATTTTTATTATATTA
1 -TATTATATTTTAATTATATTA
325462 TATTCATAT
1 TATT-ATAT
325471 AATCGTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATATTTTAATTATATTA
Found at i:329641 original size:18 final size:18
Alignment explanation
Indices: 329618--329659 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
329608 ATCGGTTTTC
** *
329618 AAAAAATTTATGATTCTT
1 AAAAAATTTAAAATTCAT
329636 AAAAAATTTAAAATTCAT
1 AAAAAATTTAAAATTCAT
329654 AAAAAA
1 AAAAAA
329660 CTGTGATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAAATTTAAAATTCAT
Found at i:330288 original size:31 final size:30
Alignment explanation
Indices: 330249--330311 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
330239 TAAAATAATT
330249 AAAAAATTATAATT-TT-TAATTTAAATTTAA
1 AAAAAATTA-AATTATTATAATTTAAA-TTAA
*
330279 AAAATAATTAAATTATTATTATTTAAATTAA
1 AAAA-AATTAAATTATTATAATTTAAATTAA
330310 AA
1 AA
330312 TTTTAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.28
31 13 0.45
32 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAAAATTAAATTATTATAATTTAAATTAA
Found at i:330297 original size:39 final size:38
Alignment explanation
Indices: 330227--330335 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 38
330217 TAGATGGTTA
* **
330227 TAATTTAAATTT-TAAAATAATTAAAAAATTATAATTTT
1 TAATTTAAATTTAAAAAATAATTAAATTATTATAA-TTT
*
330265 TAATTTAAATTTAAAAAATAATTAAATTATTATTATTT
1 TAATTTAAATTTAAAAAATAATTAAATTATTATAATTT
* *
330303 AAATTAAAATTTTAAATTAAATAAATTAAATTA
1 TAATTTAAA-TTTAAA--AAAT-AATTAAATTA
330336 AATATTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 22 0.37
39 24 0.40
41 4 0.07
42 10 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (38 bp):
TAATTTAAATTTAAAAAATAATTAAATTATTATAATTT
Found at i:330304 original size:37 final size:37
Alignment explanation
Indices: 330227--330346 Score: 118
Period size: 38 Copynumber: 3.1 Consensus size: 37
330217 TAGATGGTTA
*
330227 TAATTTAAATTTTAAAATAATTAA-AAAATTATAATTTT
1 TAATTTAAATTTTAAAA-AA-TAATTAAATTATAATTTT
*
330265 TAATTTAAA-TTTAAAAAATAATTAAATTATTATTATT
1 TAATTTAAATTTTAAAAAATAATTAAATTATAATT-TT
* *
330302 TAAATTAAAATTTTAAATTAAATAAATTAAATTAAATATTTT
1 T-AATTTAAATTTTAAA--AAAT-AATTAAATTATA-ATTTT
330344 TAA
1 TAA
330347 ATAATTATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
35 3 0.04
36 12 0.17
37 10 0.14
38 16 0.23
39 6 0.09
41 6 0.09
42 13 0.19
43 3 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (37 bp):
TAATTTAAATTTTAAAAAATAATTAAATTATAATTTT
Found at i:330333 original size:14 final size:14
Alignment explanation
Indices: 330301--330339 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
330291 TTATTATTAT
**
330301 TTAAATTAAA-ATT
1 TTAAATTAAATAAA
330314 TTAAATTAAATAAA
1 TTAAATTAAATAAA
330328 TTAAATTAAATA
1 TTAAATTAAATA
330340 TTTTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAATTAAATAAA
Found at i:330464 original size:19 final size:18
Alignment explanation
Indices: 330435--330476 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
330425 TATTCTTATA
*
330435 TTTATAATAATATTATCT
1 TTTATAATAATATAATCT
330453 TTTATGAATAATATAATCT
1 TTTAT-AATAATATAATCT
*
330472 CTTAT
1 TTTAT
330477 TAATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTATAATAATATAATCT
Found at i:330566 original size:20 final size:17
Alignment explanation
Indices: 330538--330579 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
330528 GTAACTCTAC
*
330538 TAATATTATTA-AATAAA
1 TAATAATATTATAAT-AA
*
330555 TAATAATTTTATAATAA
1 TAATAATATTATAATAA
330572 TAATAATA
1 TAATAATA
330580 GTAGATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATATTATAATAA
Found at i:332624 original size:13 final size:14
Alignment explanation
Indices: 332606--332634 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
332596 TGATTATAAC
332606 TTAAATTAAA-ATT
1 TTAAATTAAATATT
332619 TTAAATTAAATATT
1 TTAAATTAAATATT
332633 TT
1 TT
332635 TAAAAAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTAAATTAAATATT
Found at i:332753 original size:19 final size:19
Alignment explanation
Indices: 332725--332769 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
332715 TATTATTATA
**
332725 TTTA-TAATAATATTTTCT
1 TTTATTAATAATATAATCT
332743 TTTATTAATAATATAATCT
1 TTTATTAATAATATAATCT
332762 TTT-TTAAT
1 TTTATTAAT
332770 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATTAATAATATAATCT
Found at i:332832 original size:14 final size:13
Alignment explanation
Indices: 332811--332846 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
332801 AATATTATTA
332811 AATAAATAATAAT
1 AATAAATAATAAT
332824 AATATAATAATAAT
1 AATA-AATAATAAT
332838 AATAAATAA
1 AATAAATAA
332847 ATAACTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:332849 original size:11 final size:10
Alignment explanation
Indices: 332811--332850 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
332801 AATATTATTA
332811 AATAAATAAT
1 AATAAATAAT
332821 AATAATATAAT
1 AATAA-ATAAT
332832 AAT-AATAAT
1 AATAAATAAT
332841 AAATAAATAA
1 -AATAAATAA
332851 CTGATTCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.19
10 9 0.33
11 13 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAATAAT
Found at i:332849 original size:14 final size:14
Alignment explanation
Indices: 332809--332850 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 14
332799 ATAATATTAT
332809 TAAATAAATAATAA
1 TAAATAAATAATAA
332823 TAATATAATAATAATAA
1 TAA-AT-A-AATAATAA
332840 TAAATAAATAA
1 TAAATAAATAA
332851 CTGATTCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.32
15 3 0.12
16 3 0.12
17 11 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATAAATAATAA
Found at i:333841 original size:20 final size:22
Alignment explanation
Indices: 333799--333840 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
333789 ACCTTTCTCA
333799 AATAGTATTTTTTAAATTAAAAT
1 AATAGTATTTTTT-AATTAAAAT
*
333822 AATA-TATTTTTTATTTAAA
1 AATAGTATTTTTTAATTAAA
333841 TTTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATAGTATTTTTTAATTAAAAT
Found at i:334405 original size:21 final size:21
Alignment explanation
Indices: 334379--334435 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
334369 AAAAATAATA
*
334379 ATAATAATAAAATTAATTATT
1 ATAATAATAAAATTAAATATT
334400 ATAATAATAAAATTAAATATT
1 ATAATAATAAAATTAAATATT
334421 ATAATAATATAAATT
1 ATAATAATA-AAATT
334436 TAATCGTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATAATAAAATTAAATATT
Found at i:334470 original size:24 final size:24
Alignment explanation
Indices: 334363--334470 Score: 91
Period size: 24 Copynumber: 4.5 Consensus size: 24
334353 TAAATTTAAC
*
334363 AAAATTAAA-AATAATAATAATAAT
1 AAAATTAAATAATTATAATAA-AAT
*
334387 AAAATT-AATTATTATAAT--AAT
1 AAAATTAAATAATTATAATAAAAT
*
334408 AAAATTAAAT-ATTATAATAATAT
1 AAAATTAAATAATTATAATAAAAT
*
334431 AAATTTAATCGTAATAATTATAATAAAAT
1 AAAATT-A----AATAATTATAATAAAAT
334460 AAAATTAAATA
1 AAAATTAAATA
334471 TAATTATTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
21 17 0.25
22 3 0.04
23 9 0.13
24 18 0.26
28 4 0.06
29 17 0.25
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (24 bp):
AAAATTAAATAATTATAATAAAAT
Found at i:334474 original size:29 final size:29
Alignment explanation
Indices: 334418--334483 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
334408 AAAATTAAAT
* * *
334418 ATTATAATAATATAAATTTAATCGTAATA
1 ATTATAATAAAATAAATTAAATCATAATA
*
334447 ATTATAATAAAATAAAATTAAAT-ATAATT
1 ATTATAATAAAAT-AAATTAAATCATAATA
334476 ATTA-AATA
1 ATTATAATA
334484 TATTTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.12
29 20 0.62
30 8 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTATAATAAAATAAATTAAATCATAATA
Found at i:334481 original size:13 final size:14
Alignment explanation
Indices: 334462--334499 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
334452 AATAAAATAA
334462 AATTAAATATAATT
1 AATTAAATATAATT
*
334476 -ATTAAATATATTT
1 AATTAAATATAATT
334489 AATTAAA-ATAA
1 AATTAAATATAA
334500 GTATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATATAATT
Found at i:334489 original size:52 final size:53
Alignment explanation
Indices: 334392--334491 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
334382 ATAATAAAAT
* *
334392 TAATTATTATAATAATAAAATTAAATATTATAATAATATAAATTTAATCGTAA
1 TAATTATAATAATAATAAAATTAAATATAATAATAATATAAATTTAATCGTAA
* *
334445 TAATTATAATAA-AATAAAATTAAATATAATTATTAA-ATATATTTAAT
1 TAATTATAATAATAATAAAATTAAATATAA-TAATAATATAAATTTAAT
334492 TAAAATAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 26 0.62
53 16 0.38
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (53 bp):
TAATTATAATAATAATAAAATTAAATATAATAATAATATAAATTTAATCGTAA
Found at i:334621 original size:16 final size:16
Alignment explanation
Indices: 334529--334622 Score: 53
Period size: 16 Copynumber: 5.4 Consensus size: 16
334519 AATTATTAAT
*
334529 TATTAAAATATATTTA
1 TATTAAATTATATTTA
* *
334545 TATTAAATAATAAAATATA
1 TATTAAAT--T-ATATTTA
* *
334564 AATAAAATTATATTTA
1 TATTAAATTATATTTA
* * *
334580 TATTGAATAATATTAAAAA
1 TATTAAATTATATT---TA
334599 TTATTAAATTATATTTA
1 -TATTAAATTATATTTA
334616 TATTAAA
1 TATTAAA
334623 GAATAAATTA
Statistics
Matches: 56, Mismatches: 15, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
16 29 0.52
17 2 0.04
18 1 0.02
19 12 0.21
20 12 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (16 bp):
TATTAAATTATATTTA
Found at i:334660 original size:32 final size:32
Alignment explanation
Indices: 334595--334671 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
334585 AATAATATTA
* *
334595 AAAATTATTAAATTATATTTATATTAAAGAAT
1 AAAATTATTAAATAATATTTATACTAAAGAAT
*
334627 -AAATTATTAAAGTAATATTTATACTAAATAAT
1 AAAATTATTAAA-TAATATTTATACTAAAGAAT
334659 AAAATATATTAAA
1 AAAAT-TATTAAA
334672 ATTAAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 11 0.28
32 17 0.44
33 4 0.10
34 7 0.18
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (32 bp):
AAAATTATTAAATAATATTTATACTAAAGAAT
Found at i:334660 original size:71 final size:73
Alignment explanation
Indices: 334526--334695 Score: 172
Period size: 71 Copynumber: 2.4 Consensus size: 73
334516 AATAATTATT
* * * *
334526 AATTATTAAAATATATTTATATTAAATAATAAAATATAAATAAAATTATATTTATATTGAAT-AA
1 AATTATTAAATTATATTTATATTAAAGAATAAAATATAAATAAAATTATATCTATAATGAATAAA
334590 TAT-TAAA
66 TATATAAA
* *
334597 AATTATTAAATTATATTTATATTAAAGAATAAATTATTAAAGTAATATT-TATACTA-AAT-AAT
1 AATTATTAAATTATATTTATATTAAAGAATAAAATA-TAAA-TAAAATTATAT-CTATAATGAAT
*
334659 AAAATATATTAA
63 -AAATATATAAA
* * *
334671 AATTA-AAAATTATACTTATAATAAA
1 AATTATTAAATTATATTTATATTAAA
334696 TATTATTTAT
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
71 36 0.43
72 9 0.11
73 30 0.36
74 8 0.10
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (73 bp):
AATTATTAAATTATATTTATATTAAAGAATAAAATATAAATAAAATTATATCTATAATGAATAAA
TATATAAA
Found at i:334692 original size:34 final size:35
Alignment explanation
Indices: 334645--334712 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
334635 AAAGTAATAT
334645 TTATACTAAATAATAAA-ATATATTAAAATTAAAAA
1 TTATACTAAATAATAAATAT-TATTAAAATTAAAAA
* * *
334680 TTATACT-TATAATAAATATTATTTATATTAAAA
1 TTATACTAAATAATAAATATTATTAAAATTAAAA
334713 TATAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 20 0.69
35 9 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (35 bp):
TTATACTAAATAATAAATATTATTAAAATTAAAAA
Found at i:334952 original size:19 final size:20
Alignment explanation
Indices: 334908--334953 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
334898 CTCCTAAAAA
* *
334908 ATCAAAATATTTAATGTTTT
1 ATCAAAATATTTAATATTAT
*
334928 A-AAAAATATTTAA-ATTAT
1 ATCAAAATATTTAATATTAT
334946 ATCAAAAT
1 ATCAAAAT
334954 CATGTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.19
19 16 0.76
20 1 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (20 bp):
ATCAAAATATTTAATATTAT
Found at i:340421 original size:116 final size:115
Alignment explanation
Indices: 340314--340545 Score: 383
Period size: 116 Copynumber: 2.0 Consensus size: 115
340304 TTTCTATGAT
* *
340314 GAATTTATTTTTAAATTTATTGAATTTATAAAATGTAAAAATTTACTTAAGACCAAAATAAATCT
1 GAATTTATTTTTAAATTTATTGAATCTATAAAATGTAAAAATTTACCTAAGACCAAAATAAATCT
*
340379 AATAAAAATATGAAATATAAAATCGTATCAAAAAGAATAATTTACCAAAGA
66 AATAAAAATATGAAATACAAAATCGTATCAAAAA-AATAATTTACCAAAGA
* * *
340430 GAATTTATTTTTAAATTTATTGAATCTATGATATGTAAAAATTTACCTAAGATCAAAATAAATCT
1 GAATTTATTTTTAAATTTATTGAATCTATAAAATGTAAAAATTTACCTAAGACCAAAATAAATCT
* *
340495 AATAAAAATATGAAATACAAAATCGTATTAAAAAAATAACTTACCAAAGA
66 AATAAAAATATGAAATACAAAATCGTATCAAAAAAATAATTTACCAAAGA
340545 G
1 G
340546 TTAAAATTTT
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
115 16 0.15
116 92 0.85
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (115 bp):
GAATTTATTTTTAAATTTATTGAATCTATAAAATGTAAAAATTTACCTAAGACCAAAATAAATCT
AATAAAAATATGAAATACAAAATCGTATCAAAAAAATAATTTACCAAAGA
Found at i:342481 original size:20 final size:20
Alignment explanation
Indices: 342452--342489 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
342442 TTTATGCGAT
342452 TTAAAAAATAT-TTTTTAAA
1 TTAAAAAATATATTTTTAAA
342471 TTAAAATAATATATTTTTA
1 TTAAAA-AATATATTTTTA
342490 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAAAATATATTTTTAAA
Found at i:342494 original size:20 final size:19
Alignment explanation
Indices: 342450--342495 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
342440 TATTTATGCG
342450 ATTTAAAAAATATTTTTTA
1 ATTTAAAAAATATTTTTTA
*
342469 AATTAAAATAATATATTTTT-
1 ATTTAAAA-AATAT-TTTTTA
342489 ATTTAAA
1 ATTTAAA
342496 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 11 0.48
21 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAAAAATATTTTTTA
Found at i:342535 original size:26 final size:24
Alignment explanation
Indices: 342496--342566 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
342486 TTTATTTAAA
* * *
342496 TTTAATTATATAATATAAAAATAATT
1 TTTAATTTTTTAATA-AAAAAT-AGT
342522 TTTAATTTTTTAATAAGATAAATAGT
1 TTTAATTTTTTAATAA-A-AAATAGT
*
342548 TTTATTTTTTTAATAAAAA
1 TTTAATTTTTTAATAAAAA
342567 CTTAAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 31 0.79
27 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTAATTTTTTAATAAAAAATAGT
Found at i:343299 original size:69 final size:69
Alignment explanation
Indices: 343204--343339 Score: 177
Period size: 71 Copynumber: 1.9 Consensus size: 69
343194 TATCCACTTA
343204 AAATAAAAATATATATATGATAAATAATTATT-AATTATTAAAATATATTTATATTAAAGAATAA
1 AAATAAAAATATATATATGATAAATAA-TATTAAATTATTAAAATATATTTATATTAAAGAATAA
343268 AATAT
65 AATAT
* * * * *
343273 AAATAAAATTATATTTAT-ATTGAATAATATTAAAAATTATTAAATTATATTTATATTGAAGAAT
1 AAATAAAAATATATATATGA-TAAATAATATT--AAATTATTAAAATATATTTATATTAAAGAAT
343337 AAA
63 AAA
343340 TTATTAAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
68 5 0.09
69 22 0.38
71 31 0.53
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (69 bp):
AAATAAAAATATATATATGATAAATAATATTAAATTATTAAAATATATTTATATTAAAGAATAAA
ATAT
Found at i:343325 original size:36 final size:34
Alignment explanation
Indices: 343236--343381 Score: 129
Period size: 35 Copynumber: 4.3 Consensus size: 34
343226 AATAATTATT
* *
343236 AATTATTAAAATATATTTATATTAAAGAATAAAA
1 AATTATTAAATTATATTTATATTGAAGAATAAAA
* * * *
343270 TATAAATAAAATTATATTTATATTGAATAATATTAAA
1 AAT-TATTAAATTATATTTATATTGAAGAATA--AAA
343307 AATTATTAAATTATATTTATATTGAAGAAT---A
1 AATTATTAAATTATATTTATATTGAAGAATAAAA
* * * *
343338 AATTATTAAAGTAATATTTATACTAAATAATAAAA
1 AATTATTAAA-TTATATTTATATTGAAGAATAAAA
*
343373 TA-TATTAAA
1 AATTATTAAA
343382 ATTTAAAATT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
31 11 0.12
32 16 0.18
34 9 0.10
35 25 0.28
36 24 0.27
37 5 0.06
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (34 bp):
AATTATTAAATTATATTTATATTGAAGAATAAAA
Found at i:343343 original size:31 final size:32
Alignment explanation
Indices: 343236--343381 Score: 132
Period size: 36 Copynumber: 4.3 Consensus size: 32
343226 AATAATTATT
* *
343236 AATTATTAAAATATATTTATATTAAAGAATAA
1 AATTATTAAATTATATTTATATTGAAGAATAA
* *
343268 AATATAAATAAAATTATATTTATATTGAATAATATTAAA
1 AAT-T--ATTAAATTATATTTATATTGAA-GA-A-T-AA
343307 AATTATTAAATTATATTTATATTGAAGAAT-A
1 AATTATTAAATTATATTTATATTGAAGAATAA
* * * *
343338 AATTATTAAAGTAATATTTATACTAAATAATAA
1 AATTATTAAA-TTATATTTATATTGAAGAATAA
343371 AATATATTAAA
1 AAT-TATTAAA
343382 ATTTAAAATT
Statistics
Matches: 94, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
31 11 0.12
32 19 0.20
33 6 0.06
34 8 0.09
35 20 0.21
36 22 0.23
37 1 0.01
38 2 0.02
39 5 0.05
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (32 bp):
AATTATTAAATTATATTTATATTGAAGAATAA
Found at i:348197 original size:18 final size:17
Alignment explanation
Indices: 348175--348226 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
348165 TAATTTTTAT
*
348175 TATATAAAAAATATATA
1 TATATAATAAATATATA
* *
348192 TAATATTATAAATATAAA
1 T-ATATAATAAATATATA
348210 TAT-TAATAAATATATA
1 TATATAATAAATATATA
348226 T
1 T
348227 TAAGTTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 12 0.41
17 3 0.10
18 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATATAATAAATATATA
Found at i:348218 original size:16 final size:16
Alignment explanation
Indices: 348187--348225 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
348177 TATAAAAAAT
348187 ATATATAATATTATAA
1 ATATATAATATTATAA
348203 ATATA-AATATTAATAA
1 ATATATAATATT-ATAA
348219 ATATATA
1 ATATATA
348226 TTAAGTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 14 0.67
17 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATAATATTATAA
Found at i:348229 original size:14 final size:15
Alignment explanation
Indices: 348184--348229 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
348174 TTATATAAAA
*
348184 AATATATATAATATT
1 AATAAATATAATATT
348199 -ATAAATATAAATATT
1 AATAAATAT-AATATT
348214 AATAAATAT-ATATT
1 AATAAATATAATATT
348228 AA
1 AA
348230 GTTATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 14 0.50
15 6 0.21
16 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAAATATAATATT
Found at i:348277 original size:15 final size:15
Alignment explanation
Indices: 348257--348313 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
348247 ATTTAATAAC
348257 AAATATTAAATTATT
1 AAATATTAAATTATT
348272 AAATATTAAA-T-TT
1 AAATATTAAATTATT
* *
348285 AAATAATTATATTTTT
1 AAAT-ATTAAATTATT
* *
348301 AAAAAATAAATTA
1 AAATATTAAATTA
348314 AAAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 17 0.50
16 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTAAATTATT
Found at i:348288 original size:6 final size:7
Alignment explanation
Indices: 348257--348289 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
348247 ATTTAATAAC
348257 AAATATT
1 AAATATT
348264 AAATTATT
1 AAA-TATT
348272 AAATATT
1 AAATATT
348279 AAAT-TT
1 AAATATT
348285 AAATA
1 AAATA
348290 ATTATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATATT
Found at i:348293 original size:29 final size:28
Alignment explanation
Indices: 348257--348312 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
348247 ATTTAATAAC
* *
348257 AAATATTAAATTATTAAATATTAAATTT
1 AAATATTAAATTATTAAAAAATAAATTT
* *
348285 AAATAATTATATTTTTAAAAAATAAATT
1 AAAT-ATTAAATTATTAAAAAATAAATT
348313 AAAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAATATTAAATTATTAAAAAATAAATTT
Found at i:348297 original size:34 final size:33
Alignment explanation
Indices: 348186--348297 Score: 84
Period size: 34 Copynumber: 3.2 Consensus size: 33
348176 ATATAAAAAA
348186 TATATATAATATTA-TAAATA-TAAATATTAATAAAT
1 TATAT-TAA-ATTATTAAATATTAAAT-TTAAT-AAT
* * * *
348221 ATATATTAAGTTATTTAAAATTTTATATTTAATAACA
1 -TATATTAAATTA-TT-AAATATTAAATTTAATAA-T
*
348258 AATATTAAATTATTAAATATTAAATTTAAATAAT
1 TATATTAAATTATTAAATATTAAATTT-AATAAT
348292 TATATT
1 TATATT
348298 TTTAAAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
34 19 0.32
35 10 0.17
36 18 0.30
37 9 0.15
38 4 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
TATATTAAATTATTAAATATTAAATTTAATAAT
Found at i:349236 original size:117 final size:117
Alignment explanation
Indices: 349107--349328 Score: 358
Period size: 117 Copynumber: 1.9 Consensus size: 117
349097 CTATAATGAA
* *
349107 TATTTTAAAATTTATTAAATTTATAATATGTAAAAATTTACTTAAGATCAAAATAAATCTAATAA
1 TATTTTAAAATTTATTAAATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAA
*
349172 AAATATGAAATAAAAAATCGTATT-AAAAAAAG-ATAACTTACCAAAGAGAATT
66 AAATATG-AAT-AAAAATCATATTAAAAAAAAGAATAACTTACCAAAGAGAATT
* *
349224 TATTTTTAAATTTATTGAATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAA
1 TATTTTAAAATTTATTAAATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAA
*
349289 AAATATGAATACAAATCATATTAAAAAAAAGAATAACTTA
66 AAATATGAATAAAAATCATATTAAAAAAAAGAATAACTTA
349329 TGAAAAAGTT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
115 10 0.10
116 11 0.11
117 76 0.78
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (117 bp):
TATTTTAAAATTTATTAAATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAA
AAATATGAATAAAAATCATATTAAAAAAAAGAATAACTTACCAAAGAGAATT
Found at i:349322 original size:24 final size:23
Alignment explanation
Indices: 349278--349323 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
349268 AGACCAAAAT
* *
349278 AAATCTAATAAAAATATGAATAC
1 AAATCTAATAAAAAAAAGAATAC
*
349301 AAATCATATTAAAAAAAAGAATA
1 AAATC-TAATAAAAAAAAGAATA
349324 ACTTATGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATCTAATAAAAAAAAGAATAC
Found at i:349361 original size:117 final size:115
Alignment explanation
Indices: 349124--349362 Score: 279
Period size: 117 Copynumber: 2.0 Consensus size: 115
349114 AAATTTATTA
* *
349124 AATTTATAATATGTAAAAATTTACTTAAGATCAAAATAAATCTAATAAAAATATGAAATAAAAAA
1 AATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAAAAATATGAAATAAAAAA
* * * * **
349189 TCGTATTAAAAAAAGATAACTTACCAAAGAGAATTTATTTTTAAATTTATTG
66 TCATATTAAAAAAAGATAACTTACCAAAAAGAA-TAACTTTT-AATTTAAAG
*
349241 AATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAAAAATATG-AAT-ACAAA
1 AATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAAAAATATGAAATAAAAAA
**
349304 TCATATTAAAAAAAAGAATAACTTATGAAAAAGTTAA-AACTTTT-ATTGTGAAAG
66 TCATATT-AAAAAAAG-ATAACTTACCAAAAAG--AATAACTTTTAATT-T-AAAG
349358 AATTT
1 AATTT
349363 TTTAAAGCTA
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
115 13 0.12
116 12 0.11
117 78 0.74
119 2 0.02
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (115 bp):
AATTTATAATATGCAAAAATTTACTTAAGACCAAAATAAATCTAATAAAAATATGAAATAAAAAA
TCATATTAAAAAAAGATAACTTACCAAAAAGAATAACTTTTAATTTAAAG
Found at i:349516 original size:84 final size:83
Alignment explanation
Indices: 349406--349571 Score: 262
Period size: 84 Copynumber: 2.0 Consensus size: 83
349396 GTGCTCAATA
*
349406 ATAAAATAAAAAAAGTAGCTACGATAGTAAATGAAAAAATAAATCCATTATAAGAAAAAAATAAA
1 ATAAAATAAAAAAAGTAGCTACGATAGTAAATGAAAAAACAAATCCATTATAAGAAAAAAAT--A
*
349471 AAATCATATTAAAAAATAAT
64 AAACCATATTAAAAAATAAT
* * *
349491 ATAAAAT-AAAAAAGTAGCTATGATAGTAAATGAAAAACCAAATCCATTCTAAGAAAAAAATAAA
1 ATAAAATAAAAAAAGTAGCTACGATAGTAAATGAAAAAACAAATCCATTATAAGAAAAAAATAAA
349555 ACCATATTAAAAAATAA
66 ACCATATTAAAAAATAA
349572 AGTTAAAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
82 19 0.25
84 50 0.66
85 7 0.09
ACGTcount: A:0.63, C:0.08, G:0.07, T:0.22
Consensus pattern (83 bp):
ATAAAATAAAAAAAGTAGCTACGATAGTAAATGAAAAAACAAATCCATTATAAGAAAAAAATAAA
ACCATATTAAAAAATAAT
Done.