Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold100
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: 904619
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 3 of 8
Found at i:275983 original size:14 final size:16
Alignment explanation
Indices: 275935--275986 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
275925 AATTTTAGAT
* *
275935 ATAATATAAAAATATT
1 ATAATATAAATATATG
275951 AT-ATATAAATATATG
1 ATAATATAAATATATG
275966 ATAATATAAAT-T-TG
1 ATAATATAAATATATG
275980 ATAATAT
1 ATAATAT
275987 GTATATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 9 0.27
15 14 0.42
16 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
ATAATATAAATATATG
Found at i:276302 original size:17 final size:17
Alignment explanation
Indices: 276257--276304 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
276247 ATAAACGTAG
276257 TATATTTA-ATATTTTAA
1 TATATTTATAT-TTTTAA
* *
276274 TAAATTTAATATTTTTAT
1 TATATTT-ATATTTTTAA
276292 TATATTTATATTT
1 TATATTTATATTT
276305 ATAGTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTATATTTTTAA
Found at i:276584 original size:29 final size:27
Alignment explanation
Indices: 276552--276606 Score: 65
Period size: 29 Copynumber: 2.0 Consensus size: 27
276542 TTTATTCAAT
*
276552 TTTTAATTTATATAAAATAAAAATAAATA
1 TTTTAATTTAAAT-AAATAAAAA-AAATA
* *
276581 TTTTATTTTAAATTAATAAAAAAAAT
1 TTTTAATTTAAATAAATAAAAAAAAT
276607 TAAAATAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 8 0.35
29 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TTTTAATTTAAATAAATAAAAAAAATA
Found at i:276637 original size:43 final size:42
Alignment explanation
Indices: 276564--276645 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 42
276554 TTAATTTATA
* *
276564 TAAAATAAAAATAAATATTTTATTTTAAATTAATAAAAAAAAT
1 TAAAATAAAAAAAAATATTTTATTTAAAATT-ATAAAAAAAAT
*
276607 TAAAATAACACAAAAAATA-TTT-TTTAAAATTTTAAAAAA
1 TAAAATAA-A-AAAAAATATTTTATTTAAAATTATAAAAAA
276646 TAATAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 7 0.21
43 16 0.47
44 4 0.12
45 7 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (42 bp):
TAAAATAAAAAAAAATATTTTATTTAAAATTATAAAAAAAAT
Found at i:277390 original size:28 final size:27
Alignment explanation
Indices: 277359--277424 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
277349 TTTATTTATA
277359 TTATATTCGTATTATTTTTTATATAATT
1 TTATATTCGTATT-TTTTTTATATAATT
* * *
277387 TTATATT-TTAATTTTTTTATATCATT
1 TTATATTCGTATTTTTTTTATATAATT
277413 TTCATA-TCGTAT
1 TT-ATATTCGTAT
277425 AATTAAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 16 0.52
27 8 0.26
28 7 0.23
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (27 bp):
TTATATTCGTATTTTTTTTATATAATT
Found at i:277921 original size:12 final size:14
Alignment explanation
Indices: 277770--277914 Score: 52
Period size: 16 Copynumber: 10.0 Consensus size: 14
277760 TTTATTATAT
277770 TATAATTATATTTAA
1 TATAATTATATTT-A
* *
277785 AATATTTTATATTTA
1 TATA-ATTATATTTA
* *
277800 TATAAATTTTTATATA
1 TAT-AA-TTATATTTA
*
277816 TCAATAATTCATATTAA
1 T--ATAATT-ATATTTA
277833 TATTATATTATATTT-
1 TA-TA-ATTATATTTA
277848 TATAA--AT-TTTA
1 TATAATTATATTTA
*
277859 -A-AAATATATTATA
1 TATAATTATATT-TA
* *
277872 TTTTAATTAT-TTCA
1 -TATAATTATATTTA
*
277886 TATGTATTATATTTA
1 TAT-AATTATATTTA
277901 TATAATTATATTTA
1 TATAATTATATTTA
277915 AAATTATCAT
Statistics
Matches: 95, Mismatches: 17, Indels: 37
0.64 0.11 0.25
Matches are distributed among these distances:
9 2 0.02
10 4 0.04
11 4 0.04
12 2 0.02
13 5 0.05
14 18 0.19
15 17 0.18
16 31 0.33
17 10 0.11
18 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (14 bp):
TATAATTATATTTA
Found at i:278250 original size:45 final size:46
Alignment explanation
Indices: 278134--278251 Score: 118
Period size: 49 Copynumber: 2.5 Consensus size: 46
278124 AATATTAAAT
* * * *
278134 ATATGATATAAATATAT-ATTTTAAAATATATATAATACGAATTATT
1 ATATGATA-AAATATATAAATATAAAATACATATAATACGAATTATA
278180 A-ATGTATTAAAATCTATATAAATATAAAATACAT-TAAATAC-AATTATA
1 ATATG-A-TAAAA--TATATAAATATAAAATACATAT-AATACGAATTATA
278228 ATATGATAAAATATATAAATATAA
1 ATATGATAAAATATATAAATATAA
278252 TATGAACACA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
45 16 0.26
46 5 0.08
47 7 0.11
48 14 0.23
49 19 0.31
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (46 bp):
ATATGATAAAATATATAAATATAAAATACATATAATACGAATTATA
Found at i:279483 original size:32 final size:32
Alignment explanation
Indices: 279446--279533 Score: 81
Period size: 32 Copynumber: 3.1 Consensus size: 32
279436 AATATATTAT
279446 TAATAATTCGAATCAATTCAAATTTATTAAAA
1 TAATAATTCGAATCAATTCAAATTTATTAAAA
*
279478 TAATAATT----T-AAGTT--AA-GTA--AAAA
1 TAATAATTCGAATCAA-TTCAAATTTATTAAAA
279501 -AATAATTCGAATCAATTCAAATTTATTAAAA
1 TAATAATTCGAATCAATTCAAATTTATTAAAA
279532 TA
1 TA
279534 GCCTACAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 24
0.62 0.03 0.35
Matches are distributed among these distances:
22 7 0.17
23 4 0.10
25 2 0.05
26 5 0.12
27 4 0.10
28 5 0.12
29 2 0.05
31 4 0.10
32 9 0.21
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (32 bp):
TAATAATTCGAATCAATTCAAATTTATTAAAA
Found at i:279646 original size:14 final size:14
Alignment explanation
Indices: 279613--279639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
279603 TTTTTTTAAT
279613 TAATTTTTTATTTA
1 TAATTTTTTATTTA
279627 TAATTTTTTATTT
1 TAATTTTTTATTT
279640 TTTATTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TAATTTTTTATTTA
Found at i:279788 original size:17 final size:18
Alignment explanation
Indices: 279754--279795 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
279744 ATTATTATTT
*
279754 ATTTAAATATTTTTTGTA
1 ATTTAAATATTTTATGTA
279772 ATTTAAA-ATTTTATGTA
1 ATTTAAATATTTTATGTA
279789 A-TTAAAT
1 ATTTAAAT
279796 TTGAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTAAATATTTTATGTA
Found at i:280731 original size:13 final size:14
Alignment explanation
Indices: 280705--280733 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
280695 TACCTTAAAC
280705 AATAAAAAATTATA
1 AATAAAAAATTATA
280719 AATAAAAAA-TATA
1 AATAAAAAATTATA
280732 AA
1 AA
280734 CATGTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAAAATTATA
Found at i:280872 original size:10 final size:11
Alignment explanation
Indices: 280840--280921 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
280830 ATAATTAATT
280840 TATACATAAAAA
1 TATA-ATAAAAA
280852 TA-ACATAAAAA
1 TATA-ATAAAAA
*
280863 T-TAATTAAAA
1 TATAATAAAAA
280873 TATAATAAAAA
1 TATAATAAAAA
* *
280884 TA-AATATGACA
1 TATAATA-AAAA
*
280895 TAAATATAAAAA
1 TATA-ATAAAAA
280907 TAT-ATAAAAA
1 TATAATAAAAA
280917 -ATAAT
1 TATAAT
280922 TTATAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
9 2 0.04
10 20 0.35
11 25 0.44
12 7 0.12
13 3 0.05
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (11 bp):
TATAATAAAAA
Found at i:280920 original size:23 final size:25
Alignment explanation
Indices: 280894--280939 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
280884 TAAATATGAC
280894 ATAA-ATATAAA-AATATATAAAAA
1 ATAATATATAAATAATATATAAAAA
* *
280917 ATAATTTATAAATATTATATAAA
1 ATAATATATAAATAATATATAAA
280940 TTTATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 6 0.32
25 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATATATAAATAATATATAAAAA
Found at i:281972 original size:26 final size:25
Alignment explanation
Indices: 281925--282013 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 25
281915 TATATCGATA
*
281925 TTTTATTATTTAATT-TAAATATAAT
1 TTTTATTATTT-ATTATATATATAAT
281950 TTTTAATTATTTATTATATATATTCACAT
1 TTTT-ATTATTTATTATATATA-T-A-AT
*
281979 TTTAATCTAATATTATTA-ATA-ATAAT
1 TTTTAT-T-AT-TTATTATATATATAAT
282005 TTTTATTAT
1 TTTTATTAT
282014 AATTTATCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
24 2 0.04
25 8 0.15
26 19 0.36
27 2 0.04
28 4 0.08
29 7 0.13
30 5 0.09
31 6 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTATTATTTATTATATATATAAT
Found at i:282324 original size:31 final size:30
Alignment explanation
Indices: 282283--282349 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
282273 TTTTTATTAT
* *
282283 AATATTATTTA-AAGAGTTATATAATTATATA
1 AATATAATTTATAAGAATT-TAT-ATTATATA
*
282314 AATATAATTTATTAATAATTTATATTATATA
1 AATATAATTTA-TAAGAATTTATATTATATA
282345 AATAT
1 AATAT
282350 TAAAATATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 23 0.74
32 3 0.10
33 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
AATATAATTTATAAGAATTTATATTATATA
Found at i:282384 original size:33 final size:32
Alignment explanation
Indices: 282306--282375 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
282296 GAGTTATATA
**
282306 ATTATATAAATA-TAATTTATTAATAATTTAT
1 ATTATATAAATATTAAAATATTAATAATTTAT
*
282337 ATTATATAAATATTAAAATATTGATATATTTAT
1 ATTATATAAATATTAAAATATTAATA-ATTTAT
282370 ATTATA
1 ATTATA
282376 CTCATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 12 0.35
32 10 0.29
33 12 0.35
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (32 bp):
ATTATATAAATATTAAAATATTAATAATTTAT
Found at i:282404 original size:11 final size:11
Alignment explanation
Indices: 282361--282410 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
282351 AAAATATTGA
282361 TATATTTATAT
1 TATATTTATAT
* *
282372 TATACTCATAT
1 TATATTTATAT
282383 TAT-TTT-T-T
1 TATATTTATAT
282391 TATATTTATAT
1 TATATTTATAT
*
282402 TATACTTAT
1 TATATTTAT
282411 TCCTTTTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 2 0.06
11 21 0.68
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:286346 original size:81 final size:81
Alignment explanation
Indices: 286211--286360 Score: 273
Period size: 81 Copynumber: 1.9 Consensus size: 81
286201 TACCTGTAAC
*
286211 ATTCAGTTTCTTGAATTCTATCAGGAACGTAGAAGAAATACTTGAATGGTTACTAGAAATGCATG
1 ATTCAGTTTCTTGAATTCTATCAGGAACGTAGAAGAAATACTTGAAAGGTTACTAGAAATGCATG
286276 CATCTTGAATTCTAGA
66 CATCTTGAATTCTAGA
* *
286292 ATTCAGTTTCTTGAATTCTATCAGGAACGTAGAAGAAATACTTGAAAGGTTACTAGGAATGTATG
1 ATTCAGTTTCTTGAATTCTATCAGGAACGTAGAAGAAATACTTGAAAGGTTACTAGAAATGCATG
286357 CATC
66 CATC
286361 CCATGTTGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (81 bp):
ATTCAGTTTCTTGAATTCTATCAGGAACGTAGAAGAAATACTTGAAAGGTTACTAGAAATGCATG
CATCTTGAATTCTAGA
Found at i:288941 original size:98 final size:99
Alignment explanation
Indices: 288694--289155 Score: 578
Period size: 98 Copynumber: 4.8 Consensus size: 99
288684 CCATTTTCCA
*
288694 AAAAATAAATAAATAAAAATTCTTTCAAAAACCTTAAGAGAAAATATACTAATT---G-AAAAGG
1 AAAAAT-AA-AAATAAAAATTCTTTCAAAAACCTAAAGAGAAAATATACTAATTGAAGCAAAAGG
* *
288755 GCACTCCTAGAATTCCATTTTACAAAATAAATAAAT
64 GTATTCCTAGAATTCCATTTTACAAAATAAATAAAT
* *
288791 --AAATAAACA-AAAAATTCTTTCAAAAACCTAAAAAGAAAATATACTTAA-TGAAGCAAAAGGG
1 AAAAATAAAAATAAAAATTCTTTCAAAAACCTAAAGAGAAAATATAC-TAATTGAAGCAAAAGGG
* *
288852 TATTCCTTGAATTTCATTTTACAAAATAAA-AAAT
65 TATTCCTAGAATTCCATTTTACAAAATAAATAAAT
* * * *
288886 AAAAATAAAAATGAAAATTCTTTCAAAAATCTAAGGAGAAAAAATACTAATTGAAGCAAAAGGGT
1 AAAAATAAAAATAAAAATTCTTTCAAAAACCTAAAGAGAAAATATACTAATTGAAGCAAAAGGGT
*
288951 ATTCCTAGAATTCCATTTTA-TAAATAAATAAAT
66 ATTCCTAGAATTCCATTTTACAAAATAAATAAAT
* * *
288984 AAATAA-ATAAATAAAAACTCTTTCAAAAACATAAAGAGAAAATATACTAATTGAAGCAAAAGGG
1 AAA-AATAAAAATAAAAATTCTTTCAAAAACCTAAAGAGAAAATATACTAATTGAAGCAAAAGGG
* *
289048 TATTCCTAGAAATCCATTTCACAAAA-AAAT--A-
65 TATTCCTAGAATTCCATTTTACAAAATAAATAAAT
* * * * *
289079 AAAAATAATAAT-GAAATTTTTTCAAAAATCTAAAGAGAAAATATACTAATTGAAGCAAAAGAGT
1 AAAAATAAAAATAAAAATTCTTTCAAAAACCTAAAGAGAAAATATACTAATTGAAGCAAAAGGGT
289143 ATTCCTAGAATTC
66 ATTCCTAGAATTC
289156 ATAAAGAGAC
Statistics
Matches: 317, Mismatches: 35, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
92 34 0.11
93 5 0.02
94 62 0.20
95 16 0.05
96 34 0.11
97 18 0.06
98 143 0.45
99 5 0.02
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.27
Consensus pattern (99 bp):
AAAAATAAAAATAAAAATTCTTTCAAAAACCTAAAGAGAAAATATACTAATTGAAGCAAAAGGGT
ATTCCTAGAATTCCATTTTACAAAATAAATAAAT
Found at i:288979 original size:4 final size:4
Alignment explanation
Indices: 288970--288998 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
288960 ATTCCATTTT
288970 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
288999 AACTCTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:289131 original size:192 final size:194
Alignment explanation
Indices: 288694--289155 Score: 620
Period size: 192 Copynumber: 2.4 Consensus size: 194
288684 CCATTTTCCA
* * *
288694 AAAAATAAATAAATAAAAATTCTTTCAAAAACCTTAAGAGAAAATATACTAATT---G-AAAAGG
1 AAAAAT-AA-AAATGAAAATTCTTTCAAAAATCTAAAGAGAAAATATACTAATTGAAGCAAAAGG
* * * * *
288755 GCACTCCTAGAATTCCATTTTACAAAATAAATAAATAAATAAACAAAAAATTCTTTCAAAAACCT
64 GTATTCCTAGAATTCCATTTTAAAAAATAAATAAATAAATAAACAAAAAACTCTTTCAAAAACAT
* * * *
288820 AAAAAGAAAATATACTTAATGAAGCAAAAGGGTATTCCTTGAATTTCATTTTACAAAATAAAAAA
129 AAAAAGAAAATATACTTAATGAAGCAAAAGGGTATTCCTAGAAATCCATTTCACAAAATAAAAAA
288885 T
194 T
* *
288886 AAAAATAAAAATGAAAATTCTTTCAAAAATCTAAGGAGAAAAAATACTAATTGAAGCAAAAGGGT
1 AAAAATAAAAATGAAAATTCTTTCAAAAATCTAAAGAGAAAATATACTAATTGAAGCAAAAGGGT
*
288951 ATTCCTAGAATTCCATTTTATAAATAAATAAATAAATAAATAAA-TAAAAACTCTTTCAAAAACA
66 ATTCCTAGAATTCCA-TTT-TAAA-AAATAAATAAATAAATAAACAAAAAACTCTTTCAAAAACA
*
289015 TAAAGAGAAAATATAC-TAATTGAAGCAAAAGGGTATTCCTAGAAATCCATTTCAC-AAA-AAAA
128 TAAAAAGAAAATATACTTAA-TGAAGCAAAAGGGTATTCCTAGAAATCCATTTCACAAAATAAAA
*
289077 TA-
192 AAT
* * *
289079 AAAAATAATAATG-AAATTTTTTCAAAAATCTAAAGAGAAAATATACTAATTGAAGCAAAAGAGT
1 AAAAATAAAAATGAAAATTCTTTCAAAAATCTAAAGAGAAAATATACTAATTGAAGCAAAAGGGT
289143 ATTCCTAGAATTC
66 ATTCCTAGAATTC
289156 ATAAAGAGAC
Statistics
Matches: 240, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
190 39 0.16
191 2 0.01
192 66 0.28
193 13 0.05
194 26 0.11
195 9 0.04
196 66 0.28
197 19 0.08
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.27
Consensus pattern (194 bp):
AAAAATAAAAATGAAAATTCTTTCAAAAATCTAAAGAGAAAATATACTAATTGAAGCAAAAGGGT
ATTCCTAGAATTCCATTTTAAAAAATAAATAAATAAATAAACAAAAAACTCTTTCAAAAACATAA
AAAGAAAATATACTTAATGAAGCAAAAGGGTATTCCTAGAAATCCATTTCACAAAATAAAAAAT
Found at i:289349 original size:23 final size:23
Alignment explanation
Indices: 289306--289349 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
289296 TTTTTCTACC
*
289306 AAAAAAAAAACAAAACTAAACGA
1 AAAAAAAAAAAAAAACTAAACGA
289329 AAAAAAAAAAGAAAAAC-AAAC
1 AAAAAAAAAA-AAAAACTAAAC
289350 ATTGAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAAAAAACTAAACGA
Found at i:289834 original size:31 final size:32
Alignment explanation
Indices: 289792--289857 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
289782 TATTTAATAC
*
289792 ATATTTTAATAAATTATA-TATATAAATTTTA
1 ATATGTTAATAAATTATATTATATAAATTTTA
* * * *
289823 ATATGTTAATAATTTTTATTATTTATATTTTA
1 ATATGTTAATAAATTATATTATATAAATTTTA
289855 ATA
1 ATA
289858 AATTAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
ATATGTTAATAAATTATATTATATAAATTTTA
Found at i:289864 original size:32 final size:33
Alignment explanation
Indices: 289817--289879 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
289807 ATATATATAA
**
289817 ATTTTAATATGTTAATA-ATTTTTATTATTTAT
1 ATTTTAATAAATTAATATATTTTTATTATTTAT
289849 ATTTTAATAAATTAATATATTTTTATTATTT
1 ATTTTAATAAATTAATATATTTTTATTATTT
289880 TTATATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (33 bp):
ATTTTAATAAATTAATATATTTTTATTATTTAT
Found at i:290216 original size:16 final size:17
Alignment explanation
Indices: 290195--290227 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
290185 AATTTAAACT
290195 TTTAAAC-TAAATAAAA
1 TTTAAACATAAATAAAA
290211 TTTAAACATAAATAAAA
1 TTTAAACATAAATAAAA
290228 AATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TTTAAACATAAATAAAA
Found at i:290503 original size:22 final size:22
Alignment explanation
Indices: 290456--290504 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
290446 ATTATTATAA
290456 ATAAAAAAATAATTAATAATAT
1 ATAAAAAAATAATTAATAATAT
* *
290478 -TAAAAAATTAATTTA-AATAT
1 ATAAAAAAATAATTAATAATAT
290498 GATAAAA
1 -ATAAAA
290505 TATTTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATAAAAAAATAATTAATAATAT
Found at i:290642 original size:22 final size:23
Alignment explanation
Indices: 290612--290666 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
290602 TAAAGTATGT
*
290612 TAATATTTTATTAATATT-TAAA
1 TAATTTTTTATTAATATTATAAA
*
290634 TAATTTTTTA--AATATTATTAA
1 TAATTTTTTATTAATATTATAAA
290655 TAATTTTTTATT
1 TAATTTTTTATT
290667 TATAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 13 0.46
22 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATTTTTTATTAATATTATAAA
Found at i:290672 original size:17 final size:17
Alignment explanation
Indices: 290626--290677 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 17
290616 ATTTTATTAA
290626 TATTTA-AATAATTTTT
1 TATTTATAATAATTTTT
290642 TAAATATTATTAATAATTTTT
1 T--AT-TTA-TAATAATTTTT
290663 TATTTATAATAATTT
1 TATTTATAATAATTT
290678 AAAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
16 1 0.03
17 9 0.29
18 5 0.16
19 5 0.16
21 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTATAATAATTTTT
Found at i:301285 original size:20 final size:18
Alignment explanation
Indices: 301260--301311 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
301250 TGATTGATTC
301260 TCTTTTTAAAAAAATTAATT
1 TCTTTTTAAAAAAA-TAA-T
* *
301280 TTTTTTTAAGAACAATAAT
1 TCTTTTTAA-AAAAATAAT
301299 TCTTTTTAAAAAA
1 TCTTTTTAAAAAA
301312 TGAATTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
20 11 0.41
21 4 0.15
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (18 bp):
TCTTTTTAAAAAAATAAT
Found at i:302481 original size:2 final size:2
Alignment explanation
Indices: 302461--302520 Score: 68
Period size: 2 Copynumber: 30.5 Consensus size: 2
302451 TACTTTCTTT
* *
302461 TA TA T- TA TA TT TC 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 TA TA TA TA
* * *
302502 TG TA TA TA CA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA T
302521 TTCATTGGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:303347 original size:23 final size:23
Alignment explanation
Indices: 303303--303348 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
303293 TTTTTATATC
*
303303 AATTATTATTACATTTAAAATAA
1 AATTATTATTACATTAAAAATAA
*
303326 AATTTTTATTA-ATTAAATAATAA
1 AATTATTATTACATTAAA-AATAA
303349 TTTAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTATTATTACATTAAAAATAA
Found at i:303357 original size:21 final size:21
Alignment explanation
Indices: 303320--303363 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
303310 ATTACATTTA
**
303320 AAATAAAATTTTTATT-AATT
1 AAATAAAATTTAAATTAAATT
303340 AAATAATAATTTAAATTAAATT
1 AAATAA-AATTTAAATTAAATT
303362 AA
1 AA
303364 TCTAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 8 0.40
22 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATAAAATTTAAATTAAATT
Found at i:308567 original size:16 final size:16
Alignment explanation
Indices: 308510--308566 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
308500 TGATTGATTC
*
308510 AAATTTAAAATAACTT
1 AAATTCAAAATAACTT
* * *
308526 AAATTCGAAATAAATC
1 AAATTCAAAATAACTT
308542 AAGA-TCAAAATAACTT
1 AA-ATTCAAAATAACTT
308558 AAATT-AAAA
1 AAATTCAAAA
308567 AATTTTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 5 0.16
16 26 0.81
17 1 0.03
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.28
Consensus pattern (16 bp):
AAATTCAAAATAACTT
Found at i:309069 original size:10 final size:10
Alignment explanation
Indices: 309055--309124 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
309045 GAGTTTAAAT
*
309055 TTATATTTTT
1 TTATATTTTA
*
309065 TTATATTCATA
1 TTATATT-TTA
**
309076 TCGTATTTTA
1 TTATATTTTA
* *
309086 TTACATTTTT
1 TTATATTTTA
309096 TTATATTTTA
1 TTATATTTTA
*
309106 TTATATTATAA
1 TTATATT-TTA
309117 TTATATTT
1 TTATATTT
309125 AAGATATTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
10 31 0.67
11 15 0.33
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (10 bp):
TTATATTTTA
Found at i:309220 original size:12 final size:12
Alignment explanation
Indices: 309199--309235 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
309189 TATTTATGTA
309199 TTTATATTATAT
1 TTTATATTATAT
*
309211 TTTATGTTATAT
1 TTTATATTATAT
309223 TTTA-ATTAT-T
1 TTTATATTATAT
309233 TTT
1 TTT
309236 TTCATATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 4 0.17
11 4 0.17
12 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:309230 original size:23 final size:22
Alignment explanation
Indices: 309180--309236 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
309170 TATAATACAA
309180 ATTTTAA-TATA-TTTATGTAT
1 ATTTTAATTATATTTTATGTAT
*
309200 -TTAT-ATTATATTTTATGTTAT
1 ATTTTAATTATATTTTATG-TAT
*
309221 ATTTTAATTATTTTTT
1 ATTTTAATTATATTTT
309237 TCATATCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 7 0.24
20 6 0.21
21 3 0.10
22 3 0.10
23 9 0.31
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTAATTATATTTTATGTAT
Found at i:309341 original size:44 final size:45
Alignment explanation
Indices: 309270--309358 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 45
309260 AGTTTAAGTA
* *
309270 AGGTTACTCGTGTTTTTCATGAACCTTTGATGCCATTGAAGGGTT
1 AGGTTACTCATGTTTTTCATGAACCTTTGATGCCATTAAAGGGTT
* *
309315 AGGTTACTCATG-TTTTCATGAACCTTTGGTGCTATTAAAGGGTT
1 AGGTTACTCATGTTTTTCATGAACCTTTGATGCCATTAAAGGGTT
309359 TTTTACAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 29 0.73
45 11 0.28
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (45 bp):
AGGTTACTCATGTTTTTCATGAACCTTTGATGCCATTAAAGGGTT
Found at i:309801 original size:11 final size:11
Alignment explanation
Indices: 309785--309826 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
309775 ATTGAAAATT
309785 TAAATTATTAA
1 TAAATTATTAA
**
309796 TAAATTATTTT
1 TAAATTATTAA
*
309807 TATATTATTAA
1 TAAATTATTAA
309818 TAAATTATT
1 TAAATTATT
309827 TTTATATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAAATTATTAA
Found at i:309849 original size:26 final size:22
Alignment explanation
Indices: 309783--309833 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
309773 ATATTGAAAA
*
309783 TTTAAATTATTAATAAATTATT
1 TTTATATTATTAATAAATTATT
309805 TTTATATTATTAATAAATTATT
1 TTTATATTATTAATAAATTATT
309827 TTTATAT
1 TTTATAT
309834 ATTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTATATTATTAATAAATTATT
Found at i:310672 original size:17 final size:17
Alignment explanation
Indices: 310659--310699 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
310649 TAATCATGAT
310659 TAAATTTAACTCATAAA
1 TAAATTTAACTCATAAA
*
310676 TAAATTTATCTCA-AATA
1 TAAATTTAACTCATAA-A
310693 TAAATTT
1 TAAATTT
310700 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAACTCATAAA
Found at i:313320 original size:18 final size:20
Alignment explanation
Indices: 313280--313320 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
313270 AAATATTTTT
*
313280 AAAAATAAAATAATATATTA
1 AAAAATAAAATAATATATCA
*
313300 AAAAAT-AAAT-ATTTATCA
1 AAAAATAAAATAATATATCA
313318 AAA
1 AAA
313321 TAATCTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATAAAATAATATATCA
Found at i:313526 original size:22 final size:20
Alignment explanation
Indices: 313468--313562 Score: 55
Period size: 22 Copynumber: 4.9 Consensus size: 20
313458 TTTATGATTA
*
313468 TTAAAATATAAAATTAAATAAA
1 TTAAAATATAAAATT-AAT-AT
313490 TTAAAATA-AGTAAATTAATAT
1 TTAAAATATA--AAATTAATAT
313511 TTAAAATATTTAAAA-T-ATAT
1 TTAAAATA--TAAAATTAATAT
313531 TT---A-ATAAAA-T-ATAT
1 TTAAAATATAAAATTAATAT
*
313545 TTAAAATAAAAAATTAAT
1 TTAAAATATAAAATTAAT
313563 CAAATCAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 24
0.70 0.02 0.28
Matches are distributed among these distances:
14 12 0.20
16 1 0.02
17 2 0.03
18 5 0.08
19 1 0.02
20 8 0.13
21 11 0.18
22 14 0.23
23 5 0.08
24 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
TTAAAATATAAAATTAATAT
Found at i:313555 original size:16 final size:14
Alignment explanation
Indices: 313521--313548 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
313511 TTAAAATATT
313521 TAAAATATATTTAA
1 TAAAATATATTTAA
313535 TAAAATATATTTAA
1 TAAAATATATTTAA
313549 AATAAAAAAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAATATATTTAA
Found at i:313602 original size:9 final size:9
Alignment explanation
Indices: 313582--313643 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
313572 TAATTTTAAT
313582 ATTAATTTA
1 ATTAATTTA
*
313591 ATTATTTTA
1 ATTAATTTA
*
313600 ATT--TTAA
1 ATTAATTTA
*
313607 GATTAATAATA
1 -ATTAAT-TTA
313618 ATTAATTTA
1 ATTAATTTA
313627 ATTAATTT-
1 ATTAATTTA
313635 -TTAATTTA
1 ATTAATTTA
313643 A
1 A
313644 ACAAATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
7 10 0.24
8 3 0.07
9 21 0.50
10 7 0.17
11 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
ATTAATTTA
Found at i:313603 original size:26 final size:27
Alignment explanation
Indices: 313572--313629 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
313562 TCAAATCAAA
* * *
313572 TAATTTTAATATTAAT-TTAATTATTT
1 TAATTTTAAGATTAATAATAATTAATT
313598 TAATTTTAAGATTAATAATAATTAATT
1 TAATTTTAAGATTAATAATAATTAATT
313625 TAATT
1 TAATT
313630 AATTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TAATTTTAAGATTAATAATAATTAATT
Found at i:314965 original size:20 final size:20
Alignment explanation
Indices: 314931--314986 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
314921 TTATCAAATT
314931 TATTTTATTATTTAAAAATAT-
1 TATTTTA-TA-TTAAAAATATA
*
314952 TATTTTTATATT-AATATATA
1 TA-TTTTATATTAAAAATATA
314972 TATTTTATAATTAAA
1 TATTTTAT-ATTAAA
314987 TTTAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 12 0.40
20 7 0.23
21 6 0.20
22 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTATATTAAAAATATA
Found at i:316432 original size:15 final size:15
Alignment explanation
Indices: 316412--316443 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
316402 TTTAAAAGAC
*
316412 TATAGGGTTGGCAAA
1 TATAGGATTGGCAAA
316427 TATAGGATTGGCAAA
1 TATAGGATTGGCAAA
316442 TA
1 TA
316444 AACCATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (15 bp):
TATAGGATTGGCAAA
Found at i:317589 original size:29 final size:28
Alignment explanation
Indices: 317556--317645 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 28
317546 GGTAACATAC
317556 CTTTTAAAATTTTATAAAAAATATATTTA
1 CTTTTAAAA-TTTATAAAAAATATATTTA
* *
317585 CTTTTCAACATTTA-AAAAATATTTATTTA
1 CTTTT-AAAATTTATAAAAA-ATATATTTA
* *
317614 CTCTTTTAAGATTTAGTTAAAAATATATTTA
1 --CTTTTAAAATTTA-TAAAAAATATATTTA
317645 C
1 C
317646 CTTCAAGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.10
29 18 0.36
30 10 0.20
31 13 0.26
32 4 0.08
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (28 bp):
CTTTTAAAATTTATAAAAAATATATTTA
Found at i:317643 original size:31 final size:27
Alignment explanation
Indices: 317570--317645 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 27
317560 TAAAATTTTA
317570 TAAAAAATATATTTACTTTTCAACATT
1 TAAAAAATATATTTACTTTTCAACATT
* *
317597 TAAAAAATATTTATTTACTCTTTTAAGATT
1 TAAAAAATA--TATTTACT-TTTCAACATT
317627 TAGTTAAAAATATATTTAC
1 TA---AAAAATATATTTAC
317646 CTTCAAGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 9 0.22
29 8 0.20
30 10 0.24
31 7 0.17
33 7 0.17
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (27 bp):
TAAAAAATATATTTACTTTTCAACATT
Found at i:317881 original size:18 final size:16
Alignment explanation
Indices: 317848--317880 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
317838 GATTGATTTT
317848 TTTTATTTTAAATATA
1 TTTTATTTTAAATATA
*
317864 TTTTATTTTAAAAATA
1 TTTTATTTTAAATATA
317880 T
1 T
317881 AGTGAAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAATATA
Found at i:322216 original size:18 final size:17
Alignment explanation
Indices: 322189--322231 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
322179 ACTCATTTTT
322189 AAAATATTTGATATATATA
1 AAAAT-TTTGATATAT-TA
322208 AAAATTTTGATATATTA
1 AAAATTTTGATATATTA
*
322225 ATAATTT
1 AAAATTT
322232 ATTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
AAAATTTTGATATATTA
Found at i:322248 original size:32 final size:33
Alignment explanation
Indices: 322204--322266 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
322194 ATTTGATATA
*
322204 TATAAAAATTTTGATATATTAAT-AATTTATTT
1 TATAAAAATTTTGAAATATTAATAAATTTATTT
* *
322236 TATATAAATTTTGAAATATTTATAAATTTAT
1 TATAAAAATTTTGAAATATTAATAAATTTAT
322267 ATCGTATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TATAAAAATTTTGAAATATTAATAAATTTATTT
Found at i:323011 original size:22 final size:23
Alignment explanation
Indices: 322986--323059 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
322976 TTAAAAAGAT
*
322986 TTTTATATTAATATTT-ATATAA
1 TTTTATATTAATATTTAATAAAA
323008 TTTTATAATTAA-ATTTAAATAAAA
1 TTTTAT-ATTAATATTT-AATAAAA
* *
323032 TTTTATTATTATTATTAAATAATAA
1 TTTTA-TATTAATATTTAATAA-AA
323057 TTT
1 TTT
323060 AAGTAAGCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
22 10 0.23
23 5 0.12
24 19 0.44
25 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTATATTAATATTTAATAAAA
Found at i:323200 original size:16 final size:15
Alignment explanation
Indices: 323179--323210 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
323169 TTTACAAAAA
323179 AGATTATAATTTGAAG
1 AGATTATAATTT-AAG
323195 AGATTATAATTTAAG
1 AGATTATAATTTAAG
323210 A
1 A
323211 ATAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (15 bp):
AGATTATAATTTAAG
Found at i:323435 original size:22 final size:22
Alignment explanation
Indices: 323397--323438 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
323387 GTTAAAATAT
*
323397 TATTTTTATATTAAAATTTATA
1 TATTTTTAAATTAAAATTTATA
323419 TATTTTTAAAATT-AAATTTA
1 TATTTTT-AAATTAAAATTTA
323439 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTTAAATTAAAATTTATA
Found at i:325408 original size:21 final size:20
Alignment explanation
Indices: 325372--325422 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
325362 ACATTATTTG
* *
325372 TAATATTTATTAAATATTTT
1 TAATTTTTATTAAATATATT
*
325392 TATTTTTTATATAAATATATT
1 TAATTTTTAT-TAAATATATT
325413 TAATTTTTAT
1 TAATTTTTAT
325423 CTATTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATTTTTATTAAATATATT
Found at i:331393 original size:22 final size:22
Alignment explanation
Indices: 331343--331383 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
331333 ATTTTTTATT
331343 TAAAT-TTAATTATAAAATATA
1 TAAATATTAATTATAAAATATA
331364 TAAATATTAATT-TAAAATAT
1 TAAATATTAATTATAAAATAT
331384 TTTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATATTAATTATAAAATATA
Found at i:332324 original size:26 final size:25
Alignment explanation
Indices: 332287--332341 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
332277 TTTTTCCTTC
*
332287 TTATTTGTGTTT-TTTAGGCTTTATT
1 TTATTTGGGTTTGTTT-GGCTTTATT
* *
332312 TTATGTTGGGTTTGTTTTGTTTTATT
1 TTAT-TTGGGTTTGTTTGGCTTTATT
332338 TTAT
1 TTAT
332342 ATTTCATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.16
26 18 0.72
27 3 0.12
ACGTcount: A:0.11, C:0.02, G:0.18, T:0.69
Consensus pattern (25 bp):
TTATTTGGGTTTGTTTGGCTTTATT
Found at i:333357 original size:149 final size:148
Alignment explanation
Indices: 333174--333619 Score: 822
Period size: 149 Copynumber: 3.0 Consensus size: 148
333164 AACAAATTTT
*
333174 TCCATTTATTGCTTTCAAGTATCTGCTTTATCTAAGTTTTGTTCGTGTTTTCGGGGTTTTCCATT
1 TCCATTTATTGCTTTGAAGTATCTGCTTTATCTAAGTTTTGTTCGTGTTTTCGGGGTTTTCCATT
333239 TCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATCATCATTTGTTTAATTGTAC
66 TCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATCATCATTTGTTTAATTGTAC
333304 ATTTTTCATTTTCCACCA
131 ATTTTTCATTTTCCACCA
*
333322 TCCATTTCATTGCTTTGAAGTGTCTGCTTTATCTAAGTTTTGTTCGTGTTTTCGGGGTTTTCCAT
1 TCCATTT-ATTGCTTTGAAGTATCTGCTTTATCTAAGTTTTGTTCGTGTTTTCGGGGTTTTCCAT
*
333387 TTCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATAATCATTTGTTTAATTGTA
65 TTCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATCATCATTTGTTTAATTGTA
333452 CATTTTTCATTTTCCACCA
130 CATTTTTCATTTTCCACCA
333471 TCCATTTTATTGCTTTGAAGTATCTGCTTTATCTAAGTTTTGTTCGTGTTTTC-GGGTTTTCCAT
1 TCCA-TTTATTGCTTTGAAGTATCTGCTTTATCTAAGTTTTGTTCGTGTTTTCGGGGTTTTCCAT
333535 TTCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATCATCATTTGTTTAATTGTA
65 TTCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATCATCATTTGTTTAATTGTA
*
333600 CATTTTGCATTTTTCCACCA
130 CATTTTTCA-TTTTCCACCA
333620 ATGAAATGAA
Statistics
Matches: 289, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
148 90 0.31
149 196 0.68
150 3 0.01
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (148 bp):
TCCATTTATTGCTTTGAAGTATCTGCTTTATCTAAGTTTTGTTCGTGTTTTCGGGGTTTTCCATT
TCCAAAATGTAAAGTGTTTTCTTTCATGAAGTGCTAACTTGTAATCATCATTTGTTTAATTGTAC
ATTTTTCATTTTCCACCA
Found at i:341479 original size:11 final size:11
Alignment explanation
Indices: 341463--341487 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
341453 TTAGAGCATC
341463 ATAGCTTTAAA
1 ATAGCTTTAAA
341474 ATAGCTTTAAA
1 ATAGCTTTAAA
341485 ATA
1 ATA
341488 ATATAAAAAA
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
ATAGCTTTAAA
Found at i:344300 original size:18 final size:17
Alignment explanation
Indices: 344279--344344 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 17
344269 AAATTCAGCT
344279 TATTTTTTAATTATAATA
1 TATTTTTTAATTAT-ATA
*
344297 TATTATTTT-CTTATATA
1 TATT-TTTTAATTATATA
*
344314 TATTATTT-A-TA-ATA
1 TATTTTTTAATTATATA
344328 TATCTTTTT-ATTATATA
1 TAT-TTTTTAATTATATA
344345 ATATAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
14 6 0.15
15 7 0.17
16 5 0.12
17 10 0.25
18 8 0.20
19 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTTTAATTATATA
Found at i:344324 original size:31 final size:32
Alignment explanation
Indices: 344289--344356 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
344279 TATTTTTTAA
* *
344289 TTATAATATAT-TATTTTCTTATAT-ATATTAT
1 TTATAATATATCT-TTTTATTATATAATATAAT
344320 TTATAATATATCTTTTTATTATATAATATAAT
1 TTATAATATATCTTTTTATTATATAATATAAT
344352 TTATA
1 TTATA
344357 TGGTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
TTATAATATATCTTTTTATTATATAATATAAT
Found at i:344692 original size:24 final size:24
Alignment explanation
Indices: 344665--344715 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
344655 AAAAGAAAAA
* *
344665 TATCACTTAATTATTGGATTTGTT
1 TATCACCTAATTATTGGACTTGTT
344689 TATCACCTAATTATTGGACTTGTT
1 TATCACCTAATTATTGGACTTGTT
344713 TAT
1 TAT
344716 GAACCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (24 bp):
TATCACCTAATTATTGGACTTGTT
Found at i:349325 original size:26 final size:26
Alignment explanation
Indices: 349296--349345 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
349286 AATAGTACCC
*
349296 ATGTATCGATATTGAGTATCGATAAA
1 ATGTATCGATACTGAGTATCGATAAA
*
349322 ATGTATTGATACTGAGTATCGATA
1 ATGTATCGATACTGAGTATCGATA
349346 CTAAGAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (26 bp):
ATGTATCGATACTGAGTATCGATAAA
Found at i:351205 original size:18 final size:18
Alignment explanation
Indices: 351182--351217 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
351172 TCTCAAATTT
351182 AATTTAGTTCTTCTCTCA
1 AATTTAGTTCTTCTCTCA
351200 AATTTAGTTCTTCTCTCA
1 AATTTAGTTCTTCTCTCA
351218 TGGCCATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (18 bp):
AATTTAGTTCTTCTCTCA
Found at i:355307 original size:278 final size:278
Alignment explanation
Indices: 354806--355322 Score: 804
Period size: 278 Copynumber: 1.9 Consensus size: 278
354796 AAAGCTTGAC
* * * *
354806 ATAGAGGTTCAGTCCAAACACGGCACCTACGTCCTCTTTCCTCGACACTTCCTTGTCGAGTGTAT
1 ATAGAGGTTCAGTCCAAACACGGCACCTACATCCTCTCTCCTCGACACTTCCTCGTCGAGTATAT
* * * *
354871 ACCATAATTCATCACTCGAATTGTTTACCTTTAAGGCAAATGTATAACCTTATAACATTTATCTT
66 ACCACAATTCATCACTCGAATTGTTTACCTTTAAGGCAAAGGTATAACCTTACAACACTTATCTT
*
354936 TTCAAGGCTAAAATAAGAACCTCTCAATCTCTCCAAGAATTATACTACAAATTCTTAAGAGATTG
131 TTCAAGGCTAAAATAAGAACCTCTCAATCTCTCCAAGAATTATACTACAAATTCTTAAGAGATTA
*
355001 TACCCCAAGGTTAAATACAACTTTTTACAACAAAAAAAAATTTACCTTAAAGGTAAACAATTCAC
196 TACCCCAAGGTTAAATACAACCTTTTACAACAAAAAAAAATTTACCTTAAAGGTAAACAATTCAC
355066 TACTGGATACAAGTATTT
261 TACTGGATACAAGTATTT
* * *
355084 ATAGAGGTTCAGTCCAATCACGGCATCTACATCCTCTCTCCTCGACACTTTCTCGTCGAGTATAT
1 ATAGAGGTTCAGTCCAAACACGGCACCTACATCCTCTCTCCTCGACACTTCCTCGTCGAGTATAT
* *
355149 ATCACAATTTA-CTACTCGAATTGTTTACCTTTAAGGCAAAGGTATAACCTTACAACACTTATCT
66 ACCACAATTCATC-ACTCGAATTGTTTACCTTTAAGGCAAAGGTATAACCTTACAACACTTATCT
* * *
355213 TTTCAAGGCTAAGATAAGAACCTCTCAATCTCTCTAAGAATTATA-TCCCAAATTCTTAAGAGAT
130 TTTCAAGGCTAAAATAAGAACCTCTCAATCTCTCCAAGAATTATACT-ACAAATTCTTAAGAGAT
* * * *
355277 TATACTCCAAGGTTGAATACAACCTTTTACAACACAAAGAAATTTA
194 TATACCCCAAGGTTAAATACAACCTTTTACAACAAAAAAAAATTTA
355323 ACAAACTCGA
Statistics
Matches: 215, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
277 2 0.01
278 213 0.99
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (278 bp):
ATAGAGGTTCAGTCCAAACACGGCACCTACATCCTCTCTCCTCGACACTTCCTCGTCGAGTATAT
ACCACAATTCATCACTCGAATTGTTTACCTTTAAGGCAAAGGTATAACCTTACAACACTTATCTT
TTCAAGGCTAAAATAAGAACCTCTCAATCTCTCCAAGAATTATACTACAAATTCTTAAGAGATTA
TACCCCAAGGTTAAATACAACCTTTTACAACAAAAAAAAATTTACCTTAAAGGTAAACAATTCAC
TACTGGATACAAGTATTT
Found at i:358699 original size:24 final size:26
Alignment explanation
Indices: 358643--358701 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
358633 TCGTGTATTT
358643 TATTATATTATAATAATGGTTAAGATA
1 TATTATATTATAATAATGGTT-AGATA
*
358670 TTTTATATTAT-ATAAAT-GTT-GATA
1 TATTATATTATAAT-AATGGTTAGATA
358694 TATTATAT
1 TATTATAT
358702 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 11 0.38
26 5 0.17
27 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TATTATATTATAATAATGGTTAGATA
Found at i:361613 original size:16 final size:16
Alignment explanation
Indices: 361546--361617 Score: 58
Period size: 16 Copynumber: 4.5 Consensus size: 16
361536 TCGAGTTTAA
*
361546 TCATTTTGGGTTTAGG
1 TCATTTTGAGTTTAGG
** * *
361562 TCATTTCAAGTTCAGAA
1 TCATTTTGAGTTTAG-G
*
361579 T-ATTTTGAG-TTCGG
1 TCATTTTGAGTTTAGG
361593 TTCATTTTGAGTTTAGG
1 -TCATTTTGAGTTTAGG
361610 TCATTTTG
1 TCATTTTG
361618 GATTTGTCTT
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
15 3 0.07
16 33 0.80
17 5 0.12
ACGTcount: A:0.19, C:0.10, G:0.22, T:0.49
Consensus pattern (16 bp):
TCATTTTGAGTTTAGG
Found at i:362141 original size:20 final size:20
Alignment explanation
Indices: 362094--362146 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
362084 TATATATGTA
362094 TTATATTT-TTT-AAATATT
1 TTATATTTATTTAAAATATT
*
362112 ATA-ATCTTATTTAAAATATT
1 TTATAT-TTATTTAAAATATT
*
362132 TTATATTTATATAAA
1 TTATATTTATTTAAA
362147 TTTTGATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 3 0.11
20 17 0.61
21 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATTTATTTAAAATATT
Found at i:362163 original size:18 final size:17
Alignment explanation
Indices: 362129--362183 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
362119 TATTTAAAAT
362129 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
362146 ATTTTGATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
*
362163 A-TTCATA-TTATATAA
1 ATTTTATATTTATATAA
362178 ATTTTA
1 ATTTTA
362184 ACATATTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 3 0.10
14 2 0.06
15 5 0.16
16 5 0.16
17 7 0.23
18 6 0.19
19 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:363000 original size:17 final size:16
Alignment explanation
Indices: 362961--363019 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
362951 TTAATGGGGT
362961 GAAA-AAAAATTAAAA
1 GAAAGAAAAATTAAAA
*
362976 -ATATGAAAAATTAAAA
1 GA-AAGAAAAATTAAAA
* *
362992 GAGAAGAAAAGTTGAAA
1 GA-AAGAAAAATTAAAA
*
363009 GAAAAAAAAAT
1 GAAAGAAAAAT
363020 ATTTTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 1 0.03
15 1 0.03
16 18 0.53
17 14 0.41
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.15
Consensus pattern (16 bp):
GAAAGAAAAATTAAAA
Found at i:373634 original size:32 final size:33
Alignment explanation
Indices: 373564--373649 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 33
373554 AAAATATGAT
* *
373564 AATATAAATTATTAAATAAATTAAAATTTATAT
1 AATATAAATTATTAAATAAATCAAAATTTATAA
* * *
373597 GATATAAATTATT-AGTATATCAAAATTTATAA
1 AATATAAATTATTAAATAAATCAAAATTTATAA
*
373629 AATATATAACATATTAAATAA
1 AATATA-AA-TTATTAAATAA
373650 TTATAATATA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
32 20 0.49
33 14 0.34
34 4 0.10
35 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (33 bp):
AATATAAATTATTAAATAAATCAAAATTTATAA
Found at i:376421 original size:10 final size:9
Alignment explanation
Indices: 376397--376428 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
376387 CGTATAAATA
376397 TAAAT-TAT
1 TAAATATAT
376405 TAAATATAT
1 TAAATATAT
376414 TAAA-ATAT
1 TAAATATAT
376422 TAAATAT
1 TAAATAT
376429 GAATATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.59
9 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAAATATAT
Found at i:377432 original size:27 final size:27
Alignment explanation
Indices: 377397--377450 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
377387 ATATTCTAGA
*
377397 ATTTTTTATTAAT-TTAAAAATAAAAT
1 ATTTTTTATAAATATTAAAAATAAAAT
377423 ATTTATTTATAAATATTAAAAATAAAAT
1 ATTT-TTTATAAATATTAAAAATAAAAT
377451 TAATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
27 8 0.32
28 13 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTTTTTATAAATATTAAAAATAAAAT
Found at i:377470 original size:29 final size:27
Alignment explanation
Indices: 377407--377470 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
377397 ATTTTTTATT
* * **
377407 AATTTAAAAATAAAATATTTATTTATA
1 AATTTAAAAATAAAATAATAAAATATA
377434 AATATTAAAAATAAAATTAATAAAATATA
1 AAT-TTAAAAATAAAA-TAATAAAATATA
377463 GAATTTAA
1 -AATTTAA
377471 TGTGGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.10
28 12 0.40
29 12 0.40
30 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AATTTAAAAATAAAATAATAAAATATA
Found at i:377756 original size:13 final size:13
Alignment explanation
Indices: 377738--377782 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
377728 AAATCATATA
377738 ATATAAATATAAT
1 ATATAAATATAAT
*
377751 ATATAAAAATAAT
1 ATATAAATATAAT
377764 -TA-AAATATAAT
1 ATATAAATATAAT
377775 ATTATAAA
1 A-TATAAA
377783 AAATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
13 14 0.52
14 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAAATATAAT
Found at i:378360 original size:6 final size:6
Alignment explanation
Indices: 378351--378377 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
378341 ATTTAATTAA
378351 AATATT AATATT AATATT AATATT AAT
1 AATATT AATATT AATATT AATATT AAT
378378 TTTTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:378370 original size:24 final size:21
Alignment explanation
Indices: 378321--378388 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 21
378311 AATTATTATT
378321 TATTAA-TAAAATTTATTTAA
1 TATTAATTAAAATTTATTTAA
378341 -ATTTAATTAAAATATTAATATTAA
1 TA-TTAATTAAAAT-TT-AT-TTAA
*
378365 TATTAA-TATTAATTT-TTTAA
1 TATTAATTA-AAATTTATTTAA
378385 TATT
1 TATT
378389 TTTTAAATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
19 1 0.03
20 12 0.30
21 7 0.17
22 2 0.05
23 6 0.15
24 11 0.28
25 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAATTAAAATTTATTTAA
Found at i:378553 original size:19 final size:19
Alignment explanation
Indices: 378518--378584 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
378508 ACTCCAAGTT
* *
378518 TAATAAATACGAA-ATAATA
1 TAATAAATA-TAATATAACA
378537 TAATAAATATAATATAACA
1 TAATAAATATAATATAACA
* *
378556 TATTTAAATATTAT-TAACA
1 TA-ATAAATATAATATAACA
*
378575 TAATTAATAT
1 TAATAAATAT
378585 GACATATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 8 0.20
19 23 0.57
20 9 0.22
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (19 bp):
TAATAAATATAATATAACA
Found at i:378565 original size:20 final size:19
Alignment explanation
Indices: 378536--378581 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
378526 ACGAAATAAT
378536 ATAA-TAAATATAATATAAC
1 ATAATTAAATATAAT-TAAC
* *
378555 ATATTTAAATATTATTAAC
1 ATAATTAAATATAATTAAC
378574 ATAATTAA
1 ATAATTAA
378582 TATGACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATTAAATATAATTAAC
Found at i:379008 original size:32 final size:32
Alignment explanation
Indices: 378941--379000 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
378931 GAGATAAGTT
*
378941 TAATAAAAAAATTTAAATTTATTATTTATAAA
1 TAATAAAAAAATTTAAATATATTATTTATAAA
378973 TAATAAAAAAATTTAAA-ATATT-TTTATA
1 TAATAAAAAAATTTAAATATATTATTTATA
379001 TCAATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 6 0.22
31 4 0.15
32 17 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
TAATAAAAAAATTTAAATATATTATTTATAAA
Found at i:379061 original size:20 final size:20
Alignment explanation
Indices: 379033--379071 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
379023 TAAATTTAAG
379033 TAAAAAATTTATTT-AATTAT
1 TAAAAAA-TTATTTGAATTAT
*
379053 TAAATAATTATTTGAATTA
1 TAAAAAATTATTTGAATTA
379072 AGTCAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TAAAAAATTATTTGAATTAT
Found at i:379700 original size:21 final size:21
Alignment explanation
Indices: 379676--379717 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
379666 AATTATAAAA
*
379676 ATATATAAT-TAAATTAATTTT
1 ATAT-TAATATAAATAAATTTT
379697 ATATTAATATAAATAAATTTT
1 ATATTAATATAAATAAATTTT
379718 TCGTAATATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTAATATAAATAAATTTT
Found at i:382433 original size:42 final size:42
Alignment explanation
Indices: 382386--382469 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
382376 AATATGCTAC
*
382386 TTTACTTTTATTATGCTTGAATGATTATGAATTGGCTAATGA
1 TTTACTTTTATTATGCTTGAATGATTATGAATTAGCTAATGA
382428 TTTACTTTTATTATGCTTGAATGATTATGAATTAGCTAATGA
1 TTTACTTTTATTATGCTTGAATGATTATGAATTAGCTAATGA
382470 AAACAAAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (42 bp):
TTTACTTTTATTATGCTTGAATGATTATGAATTAGCTAATGA
Found at i:384188 original size:21 final size:21
Alignment explanation
Indices: 384162--384201 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
384152 TATTAAAATT
384162 TATTTT-TAATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
384183 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
384202 AATAAAAATA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:385770 original size:47 final size:47
Alignment explanation
Indices: 385702--385795 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
385692 TACTTGTGCT
385702 AGAAGAAACTTGAATTTTAATTGATGATTATCAAACTGACCTATCAA
1 AGAAGAAACTTGAATTTTAATTGATGATTATCAAACTGACCTATCAA
385749 AGAAGAAACTTGAATTTTAATTGATGATTATCAAACTGACCTATCAA
1 AGAAGAAACTTGAATTTTAATTGATGATTATCAAACTGACCTATCAA
385796 GTGAATTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (47 bp):
AGAAGAAACTTGAATTTTAATTGATGATTATCAAACTGACCTATCAA
Found at i:387788 original size:45 final size:45
Alignment explanation
Indices: 387738--387823 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
387728 TCAACAGGAT
387738 CAAATGCAATTCTCACACCAGAATCAACTAGATTGCAAGTGTTGC
1 CAAATGCAATTCTCACACCAGAATCAACTAGATTGCAAGTGTTGC
* * *
387783 CAAATGCGATTCTCACACCAGAATCAGCTGGATTGCAAGTG
1 CAAATGCAATTCTCACACCAGAATCAACTAGATTGCAAGTG
387824 CCATGCTGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (45 bp):
CAAATGCAATTCTCACACCAGAATCAACTAGATTGCAAGTGTTGC
Found at i:403122 original size:29 final size:29
Alignment explanation
Indices: 403080--403156 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
403070 TTAACTTCAT
*
403080 AAGATAATGTGTTTGCATGCATGGTACAA
1 AAGATAATGTGTTTACATGCATGGTACAA
*
403109 AAGACAATGTGTTTACATGCATGGTACAA
1 AAGATAATGTGTTTACATGCATGGTACAA
* *
403138 AAGATAATGAGTTCACATG
1 AAGATAATGTGTTTACATG
403157 AAAGGGGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (29 bp):
AAGATAATGTGTTTACATGCATGGTACAA
Found at i:406877 original size:2 final size:2
Alignment explanation
Indices: 406872--406919 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
406862 ACAAATAATA
* * *
406872 AT AT AT AT TT AG AT AT A- AT TT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
406912 AT AT AT AT
1 AT AT AT AT
406920 GTGAGGCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:408019 original size:362 final size:360
Alignment explanation
Indices: 406640--409842 Score: 2435
Period size: 362 Copynumber: 8.8 Consensus size: 360
406630 TCAAATAAGG
* * * * * * * *
406640 CTCACTTGTTTTGTTT-AGTAATGGTAATAGTTGAATCATTCTATTAATTTTAAATTAATTTATT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * * * * *
406704 TTAAATAGAGAG-TTTTTATATTG-AAAAGT-AAAGGGAAAGTGAAATTGATCAATTTTTTTTAA
66 TTAAATAGAAAGATTTTTATTTTGAAAAAATAAAAGTG-AAGTGAAATAGATCAAATTTTTTTAA
* * * * *
406766 AGGTGGAGATAAACTAATTTTGATGATTATTTATTTTATCTTATTTGGTCTATTTATATAAAATT
130 AGGTGGAGATAAAATAATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTATATAAAATT
* * * *
406831 ATTATTTTACTTTTAAATAATTAATTTTTTA-ACAAATAATAATATATATT-TAGA-TATAATTT
195 ATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATATA-ATTATATATTAT-ATTT
* * * * ** * *
406893 A-ATAT-ATAT-ATATATATATATATATATGTGAGGCTTTATTTA-AAGTTTTTTAATGGTAATT
258 AGACATAATTTAATAT-TTTTTATATATATGTGAGGCTTTATTTAGATTTTTTTTAATAGTAACT
* * * * **
406954 AATTTTGATCTATTAAGCTCGTCAAATAAGGCCTCGTGC
322 AATTTTGATCCATCAAGTTCATCAAATAAGGCCTTATGC
* * ** * *
406993 CTAACTTGTTTTGTTT-AGTGGTGGTAATATTGGAATCGTTCAATCAATTTTAAATCAATTCATT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * * * *
407057 TAAAATAAAAAAGACTTTTATTTT-AGAAAAATAAAAGTGAAGTGAAATAAATCGAATTTTTTTG
66 TTAAAT-AGAAAGATTTTTATTTTGA-AAAAATAAAAGTGAAGTGAAATAGATCAAATTTTTTT-
* * * ** * * *
407121 AAAGGTGAAGATGAAATAATTTTGATAATTATATATTTCATCTTGTTTGGTTTGTTTGTATAAAA
128 AAAGGTGGAGATAAAATAATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTATATAAAA
* *
407186 TTATTATTTTATTTTTAAAAATTTAATTTTTATTAAAATAATAAAATAATAATACAATTATATAT
193 TTATTATTTTATTTTTAAATATTTAA-TTTT-TT---AT-A-AAAATAATAATATAATTATATAT
*
407251 TATATATAGACATAATTTAATATTTTTTCATATATATGTGAGGCTTTATTTAGATTTTTTTTAAT
251 TATATTTAGACATAATTTAATATTTTTT-ATATATATGTGAGGCTTTATTTAGATTTTTTTTAAT
* ** *
407316 GGTAACTAATTTTGA--C-T-AA-TT-A--AGCTCA--CCTTATGC
315 AGTAACTAATTTTGATCCATCAAGTTCATCAAATAAGGCCTTATGC
* * * * * *
407352 CTCACTTGTTTTTGTTT-AGTAATGATAATATTCGAATCGTTCGATCGATTTTAAATCGATTCGT
1 CTCACTTG-TTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCAT
* * * ** * * **
407416 TTCAAATAGAGAGATTTTTATTTTGGAAACGTAAAGGTGAAGTGAAAT-GAATTGGATTTTTTTT
65 TTTAAATAGAAAGATTTTTATTTTGAAAAAATAAAAGTGAAGTGAAATAG-A-T-CA-AATTTTT
* * * *
407480 TTGAAAGGTGGAGATAAAACAGTTTTAATAATTATCTATTTTCATCTCATTTGGTCTATTTATAC
126 TT-AAAGGTGGAGATAAAATAATTTTGATAATTATCTA-TTTCATCTCATTTGGTCTATTTATAT
* *
407545 AAAATTATTATTTTACTTTTAAATAATT-ATTTTTTATAAAAATAATAATATAATAATATATATT
189 AAAATTATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATATAAT--TATATATT
*
407609 ATATTTAGACATAATTTAATATTTTTTA-ATATATGTGAGGCTTTATTTAGATTTTTTTTAATGG
252 ATATTTAGACATAATTTAATATTTTTTATATATATGTGAGGCTTTATTTAGATTTTTTTTAATAG
* *
407673 TAACTAATTTTGATCCATCAAGTTCATCAAATAAGGCTTTAAGC
317 TAACTAATTTTGATCCATCAAGTTCATCAAATAAGGCCTTATGC
* ** * * * * ** *
407717 CTTACTTGCCTTGTTTAACT-ACGATAATATTTAAATTGTTCTATTGATTTTAAATTAATTCATT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * *
407781 TTAAATAAAAAGATTTTTATTTTTTTAAAAAATAAAAGTGAAGTAAAATAGATCAAAATTTTTTT
66 TTAAATAGAAAGATTTTTA--TTTTGAAAAAATAAAAGTGAAGTGAAATAGATC-AAATTTTTTT
* * * * * * * *
407846 GAAGGTGGAGGTGAAATAATTTTAATAATTGTCTGTTTCA-CATCGTTTGGTCTATTTATGTAAA
128 AAAGGTGGAGATAAAATAATTTTGATAATTATCTATTTCATC-TCATTTGGTCTATTTATATAAA
*
407910 ATTATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATACAATTATATATTATATT
192 ATTATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATATAATTATATATTATATT
* * * *
407975 TATATATAATTTAATATTTTTTGTATATATGTGAAGCTTTATTTAGATTTTTTAAATTAATAGTA
257 TAGACATAATTTAATATTTTTTATATATATGTGAGGCTTTATTTAGATTTTTT---TTAATAGTA
* ** * *
408040 ACTAATTTTGACCCATCAAGCCCATAAAATAAGGCATTATGC
319 ACTAATTTTGATCCATCAAGTTCATCAAATAAGGCCTTATGC
* * * *
408082 CACACTTGTTTTGTTTAGC-AATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * * * * **
408146 TTAAATGGAAAGATTTTTATTTTGGAAAAGTAAATGTGAAGTGAAATAAATCGGATTTTTTTAAA
66 TTAAATAGAAAGATTTTTATTTTGAAAAAATAAAAGTGAAGTGAAATAGATCAAATTTTTTTAAA
* *** * * * * *
408211 GGTAGAGATAAAACGGTTTTGATAATTATCTATTTTATCTCATTTAGTTTGTCTATATAAAATTA
131 GGTGGAGATAAAATAATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTATATAAAATTA
*
408276 TTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAAAATAATTATATAATTGTATATTA
196 TTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATATAATTATAT-A-T-TATATT-
* * * ** *
408341 TATTTAAGCAGAATCTAATATATTTTTGCATATATATGAGGCTTTATTTAGATTTTTTTAATTAA
257 TA---GA-CATAATTTAATAT-TTTTTATATATATGTGAGGCTTTATTTAGA-TTTTTT--TTAA
* *
408406 TAGT-ACTAATTTT-AACCTATCAAGCTCATCAAATAAGGCCTTATGC
314 TAGTAACTAATTTTGATCC-ATCAAGTTCATCAAATAAGGCCTTATGC
** * ** ** ** * *
408452 CTCACTTGTTTCATTTAA-TGATGATAATATTCAAATTATTTGATCGATTTTAAATCAATTCACT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * * * *
408516 TCAAATAGAGAGATTTTTATTTT-AAAAAAGCGAAGGTGAAGGTCAAGTGAAATAAATCGAAATT
66 TTAAATAGAAAGATTTTTATTTTGAAAAAA--TAA----AA-GTGAAGTGAAATAGATC-AAATT
* * * ** * *
408580 TTTTAAAAAGTAGAGATAAAGCAGA-TTTGATGATTATCTA-TT--T-T-ATCT-GTC----TAT
123 TTTTTAAAGGTGGAGATAAAATA-ATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTAT
* * ** *
408634 ATAAAGTTATTATTTTACTTTTAACCAATTAATTTTTTATAAAAATAACCAAATAATAATATAAT
187 ATAAAATTATTATTTTATTTTTAAATATTTAA-TTTTT-T----ATAA--AAATAATAATATAAT
* * * *
408699 TATATATTATATTTAGATATAATTTAATATTTTCTTATATATATATAAGGCTTTATTTAG-GTTT
244 TATATATTATATTTAGACATAATTTAATATTTT-TTATATATATGTGAGGCTTTATTTAGATTTT
* * * * *
408763 TTTTAATGGTAACTAATTTTGACCCATTAAATTCATCAAATAAGGCCTTTTGC
308 TTTTAATAGTAACTAATTTTGATCCATCAAGTTCATCAAATAAGGCCTTATGC
* * * * * * * *
408816 CTCACTTATTTTGTTTAGC-GATGGTAATATTTGAATCGTTCCATCGATTTTAAATCGATTTATT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * * * * ** * *
408880 TCAAATAGATAGATTTTTGTATTGAAAAAGTAAAAG-GAAAACGAAATACATC-GATTTTTTTAA
66 TTAAATAGAAAGATTTTTATTTTGAAAAAATAAAAGTG-AAGTGAAATAGATCAAATTTTTTT-A
* * * * * * *
408943 AAGGTGGAGATAAAAATAGTTTTCATAATTATTTATTTTATCTTATTTGATCTATCTATATAAAA
129 AAGGTGGAGAT-AAAATAATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTATATAAAA
* *
409008 TTATTATTTTACTTTTAAATATTTAGTTTTTTATAAAAATAATAAAATAATAATATAATTATATA
193 TTATTATTTTATTTTTAAATATTTA-ATTTTT-T----AT-A-AAAATAATAATATAA-T-TATA
*
409073 TATATATTATGTTTAGACATAATTTAATATTTATATATATATATATATATGTGAGGTTTTATTTA
248 TAT-TA-TA--TTTAGACATAATTTAATA--T-T-T-T-T-TATATATATGTGAGGCTTTATTTA
* * * * * *
409138 GATTGTTTTTAATAATAACTAATTTT-AACTCATCAAATCCATCAAATAAAGCCTTATGC
302 GATTTTTTTTAATAGTAACTAATTTTGATC-CATCAAGTTCATCAAATAAGGCCTTATGC
* * * * * * * *
409197 CTCACTTGTTCTGCTTAGC-AGT-AGTAATATTTGAATTGTTAAATTAATTTTAAATCAATTTAT
1 CTCACTTGTTTTGTTTAACTAATGA-TAATATTTGAATCGTTCAATCAATTTTAAATCAATTCAT
* * ** *
409260 TTTAAATAGAAAGAATTTT-TTTTGAAAGAATAAAAGTGAAGTGAAATAGATTGGATTTTTTTTA
65 TTTAAATAGAAAGATTTTTATTTTGAAAAAATAAAAGTGAAGTGAAATAGA-TCAAATTTTTTT-
* * * * * ** * * *
409324 AAAGGTGAAAATGAAATAAATTTGATAATTATCTGTTTCATCTTGTTTGGTCTGTCTATGTAAAA
128 AAAGGTGGAGATAAAATAATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTATATAAAA
* * *
409389 TTATTATTTTATTTTTAATTATTT-ATTTTTT-TTAAAATAATAATATAATTATATATATTATTT
193 TTATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATATAA-T-TATATATTATAT
409452 TTAGACATAATTTAATATTTTTTCATATATATGTGAGGCTTTATTTAG--TTTTTTTAATAGTAA
256 TTAGACATAATTTAATATTTTTT-ATATATATGTGAGGCTTTATTTAGATTTTTTTTAATAGTAA
* * * * *
409515 CCAATTTTGATGCATAAAGCTT-ATC----AAGACCGTATGC
320 CTAATTTTGATCCATCAAG-TTCATCAAATAAGGCCTTATGC
** * ** * * ** ** * *
409552 CTCACTTGTTTCATTTAGC-AGCGGTAATACTCAAATCGTTTGATCAATTTTAAATTAATTTATT
1 CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
* * * * **
409616 TTAAATAGAGAA-AATTTTGTTTT-AAATAAATAAAGGTAAAGTGAAATAGATTGGAATTTTTTT
66 TTAAATAGA-AAGATTTTTATTTTGAAA-AAATAAAAGTGAAGTGAAATAGA-TCAAATTTTTTT
* * * * ** * * * *
409679 -AA-GTGAAGATAAAATAGTTTTGATAATTATTTATTTTA-CTTTGTTTGATTTGTTCATATAAA
128 AAAGGTGGAGATAAAATAATTTTGATAATTATCTATTTCATC-TCATTTGGTCTATTTATATAAA
*
409741 ATAATTATTTTATTTTTAAATATTTAA-TTTTTATAAAAATAATAAAATAACAACATAATTATAT
192 ATTATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAAT--AAT------ATAATTATAT
* *
409805 ATTATATTTAAACATAATTTAACATTTTTTA-ATA-ATGT
249 ATTATATTTAGACATAATTTAATATTTTTTATATATATGT
409843 ATATTCTATT
Statistics
Matches: 2315, Mismatches: 395, Indels: 276
0.78 0.13 0.09
Matches are distributed among these distances:
352 1 0.00
353 133 0.06
354 16 0.01
355 148 0.06
356 75 0.03
357 134 0.06
358 36 0.02
359 84 0.04
360 93 0.04
361 68 0.03
362 228 0.10
363 143 0.06
364 175 0.08
365 168 0.07
366 35 0.02
367 88 0.04
368 90 0.04
369 36 0.02
370 124 0.05
371 70 0.03
372 17 0.01
373 7 0.00
374 19 0.01
375 20 0.01
376 19 0.01
377 37 0.02
378 2 0.00
379 7 0.00
380 47 0.02
381 177 0.08
382 18 0.01
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (360 bp):
CTCACTTGTTTTGTTTAACTAATGATAATATTTGAATCGTTCAATCAATTTTAAATCAATTCATT
TTAAATAGAAAGATTTTTATTTTGAAAAAATAAAAGTGAAGTGAAATAGATCAAATTTTTTTAAA
GGTGGAGATAAAATAATTTTGATAATTATCTATTTCATCTCATTTGGTCTATTTATATAAAATTA
TTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAATATAATTATATATTATATTTAGA
CATAATTTAATATTTTTTATATATATGTGAGGCTTTATTTAGATTTTTTTTAATAGTAACTAATT
TTGATCCATCAAGTTCATCAAATAAGGCCTTATGC
Found at i:409015 original size:735 final size:714
Alignment explanation
Indices: 406463--409835 Score: 2769
Period size: 734 Copynumber: 4.7 Consensus size: 714
406453 TTGATTTATT
* *
406463 TATATAAAATTATTATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAAAATAATAATAT
1 TATATAAAATTATTATTTTATTTTTAAATAATTAA-TTTTTATAAAAATAATAAAATAATAATAC
* *
406528 AATTATATATTATATTTAGATATAATTTAATTTTTTTTCATATATAT-TGGAGGCTTTATTTAGA
65 AATTATATATTATATTTAGATATAATTTAATATTTTTTCATATATATGTGAAGGCTTTATTTAGA
* * *
406592 -TTTTTTTAATAGTAATTAATTTTGACCTATTAAGCCTATCAAATAAG------G-CTCACTTGT
130 TTTTTTTTAATAGTAACTAATTTTGACCCATTAATCC-ATCAAATAAGCCTTATGCCTCACTTGT
* * * * * ** * *
406649 TTTGTTTAGTAATGGTAATAGTTGAATCATTCTATTAATTTTAAATTAATTTATTTTAAATAGAG
194 TTTGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTCAAATAGAG
* * *
406714 AG-TTTTTATATT-GAAAAGTAAAGGGAAAGTGAAATTGATCAATTTTTTTTAAAGGTGGAGAT-
259 AGATTTTTATATTGGAAAAGTAAAAGGAAAGTGAAA-TAATCGA-TTTTTTTAAAGGTGGAGATA
* * * * * *
406776 AAACTAATTTTGATGATTATTTATTTTATCTTATTTGGTCTATTTATATAAAATTATTATTTTAC
322 AAAC-AGTTTTGATAATTATCTATTTTATCTCATTTGATCTATCTATATAAAATTATTATTTTAC
* * * *
406841 TTTTAAATAATTAATTTTTTA-ACAAATAATAATATATAT--TTAGATA-TA-ATTTAATATAT-
386 TTTTAAATAATTAATTTTTTATAAAAATAATAATATATATAATTATATATTATATTTAAGACATA
* * * * * ** * * *
406900 ATAT-ATATATATATATATATGTGAGGCTTTATTTAAAGTTTTTTAATGGTAATTAATTTTGATC
451 ATTTAATATATTTTTATATATGTGAGGCTTTATTTAGATTTTTTTAATAATAACTAATTTTAACC
* * ** * * * * **
406964 TATTAAGCTCGTCAAATAAGGCCTCGTGCCTAACTTGTTTTGTTTAGTGGTGGTAATATTGGAAT
516 TATCAAGCTCATCAAATAAGGCCTTATGCCTCACTTG-TTTGTTTAATGATGATAATATTCAAAT
* * * *
407029 CGTTCAATCAATTTTAAATCAATTCATTTAAAATAAAAAAGACTTTTATTTTAGAAAAATAA-AA
580 TGTT-TATCGATTTTAAATCAATTCATTTAAAAT-AAAAAGATTTTTATTTTA-AAAAA-AATAA
* * *
407093 GTGAAGTGAAATAAATCGAATTTTTTTGAAAGGTGAAGATGAAATAATTTTGATAATTATATATT
641 GTGAAGTGAAATAAATCGAAATTTTTTAAAAGGTG-AGATGAAATAATTTTGATAATTATCTATT
*
407158 TCATCTTGTTTGGTTTGTT
705 TCATC---------TTGTC
* *
407177 TGTATAAAATTATTATTTTATTTTTAAA-AATTTAATTTTTATTAAAATAATAAAATAATAATAC
1 TATATAAAATTATTATTTTATTTTTAAATAA-TTAATTTTTATAAAAATAATAAAATAATAATAC
* *
407241 AATTATATATTATATATAGACATAATTTAATATTTTTTCATATATATGTG-AGGCTTTATTTAGA
65 AATTATATATTATATTTAGATATAATTTAATATTTTTTCATATATATGTGAAGGCTTTATTTAGA
* ** *
407305 TTTTTTTTAATGGTAACTAATTTTGACTAATTAA-GC-TC-----A-CCTTATGCCTCACTTGTT
130 TTTTTTTTAATAGTAACTAATTTTGACCCATTAATCCATCAAATAAGCCTTATGCCTCACTTG-T
* * * * * *
407362 TTTGTTTAGTAATGATAATATTCGAATCGTTCGATCGATTTTAAATCGATTCGTTTCAAATAGAG
194 TTTGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTCAAATAGAG
* * * *
407427 AGATTTTTATTTTGGAAACGT-AAAGGTGAAGTGAAATGAATTGGATTTTTTTTTTGAAAGGTGG
259 AGATTTTTATATTGGAAAAGTAAAAGG-AAAGTGAAAT-AA-TCGA---TTTTTTT-AAAGGTGG
* * * *
407491 AGATAAAACAGTTTTAATAATTATCTATTTTCATCTCATTTGGTCTATTTATACAAAATTATTAT
317 AGATAAAACAGTTTTGATAATTATCTATTTT-ATCTCATTTGATCTATCTATATAAAATTATTAT
407556 TTTACTTTTAAATAATT-ATTTTTTATAAAAATAATAATATA-ATAA-TATATATTATATTT-AG
381 TTTACTTTTAAATAATTAATTTTTTATAAAAATAATAATATATATAATTATATATTATATTTAAG
**
407617 ACATAATTTAATAT-TTTTTAATATATGTGAGGCTTTATTTAGATTTTTTTTAATGGTAACTAAT
446 ACATAATTTAATATATTTTT-ATATATGTGAGGCTTTATTTAGA-TTTTTTTAATAATAACTAAT
* * * * * * *
407681 TTTGATCC-ATCAAGTTCATCAAATAAGGCTTTAAGCCTTACTTGCCTTGTTTAACT-ACGATAA
509 TTT-AACCTATCAAGCTCATCAAATAAGGCCTTATGCCTCACTTG-TTTGTTTAA-TGATGATAA
* * * *
407744 TATTTAAATTGTTCTATTGATTTTAAATTAATTCATTTTAAATAAAAAGATTTTTATTTTTTTAA
571 TATTCAAATTGTT-TATCGATTTTAAATCAATTCATTTAAAATAAAAAGATTTTTA---TTTTAA
* * * ** * *
407809 AAAATAA-AAGTGAAGTAAAATAGATCAAAATTTTTTTGAAGGTGGAGGTGAAATAATTTTAATA
632 AAAA-AATAAGTGAAGTGAAATAAATCGAAATTTTTTAAAAGGT-GAGATGAAATAATTTTGATA
* *
407873 ATTGTCTGTTTCACATCGTTTGGTC
695 ATTATCTATTT--CATC--TT-GTC
*
407898 TATTTATGTAAAATTATTATTTTATTTTTAAATATTTAATTTTT-T----AT-A-AAAATAATAA
1 TA--TA--TAAAATTATTATTTTATTTTTAAATAATTAATTTTTATAAAAATAATAAAATAATAA
* *
407956 TACAATTATATATTATATTTATATATAATTTAATATTTTTT-GTATATATGTGAA-GCTTTATTT
62 TACAATTATATATTATATTTAGATATAATTTAATATTTTTTCATATATATGTGAAGGCTTTATTT
* * * * *
408019 AGATTTTTTAAATTAATAGTAACTAATTTTGACCCATCAAGCCCATAAAATAAGGCATTATGCCA
127 AGATTTTTT---TTAATAGTAACTAATTTTGACCCATTAA-TCCATCAAATAA-GCCTTATGCCT
*
408084 CACTTGTTTTGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTTA
187 CACTTGTTTTGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTCA
* * * *
408149 AATGGAAAGATTTTTATTTTGGAAAAGTAAATGTG-AAGTGAAATAAATCGGATTTTTTTAAAGG
252 AATAGAGAGATTTTTATATTGGAAAAGTAAAAG-GAAAGTGAAAT-AATC-GATTTTTTTAAAGG
* * * *
408213 TAGAGATAAAACGGTTTTGATAATTATCTATTTTATCTCATTT-AGTTTGTCTATATAAAATTAT
314 TGGAGATAAAACAGTTTTGATAATTATCTATTTTATCTCATTTGA-TCTATCTATATAAAATTAT
* * *
408277 TATTTTATTTTTAAATATTTAATTTTTTATAAAAATAATAAAATAATTATATAATTGTATATTAT
378 TATTTTACTTTTAAATAATTAATTTTTTATAAAAATAAT--AAT-A-TATATAATTATATATTAT
* * *
408342 ATTTAAG-CAGAATCTAATATATTTTTGCATATATATGAGGCTTTATTTAGATTTTTTTAATTAA
439 ATTTAAGACATAATTTAATATATTTTT--ATATATGTGAGGCTTTATTTAGATTTTTTTAA-TAA
*
408406 TAGTACTAATTTTAACCTATCAAGCTCATCAAATAAGGCCTTATGCCTCACTTGTTTCATTTAAT
501 TA--ACTAATTTTAACCTATCAAGCTCATCAAATAAGGCCTTATGCCTCACTTGTTT-GTTTAAT
* * * * *
408471 GATGATAATATTCAAATTATTTGATCGATTTTAAATCAATTCACTTCAAATAGAGAGATTTTTAT
563 GATGATAATATTCAAATTGTTT-ATCGATTTTAAATCAATTCATTTAAAATAAAAAGATTTTTAT
* *
408536 TTTAAAAAAGCGAAGGTGAAGGTCAAGTGAAATAAATCGAAATTTTTTAAAAAGTAGAGAT-AAA
627 TTTAAAAAA---AA--T-AA-GTGAAGTGAAATAAATCGAAATTTTTTAAAAGGT-GAGATGAAA
* * *
408600 GCAGA-TTTGATGATTATCTATTTTATC-TGTC
684 -TA-ATTTTGATAATTATCTATTTCATCTTGTC
* * ** ** *
408631 TATATAAAGTTATTATTTTACTTTTAACCAATTAATTTTTTATAAAAATAACCAAATAATAATAT
1 TATATAAAATTATTATTTTATTTTTAAATAATTAA-TTTTTATAAAAATAATAAAATAATAATAC
*
408696 AATTATATATTATATTTAGATATAATTTAATATTTTCTT-ATATATATAT-AAGGCTTTATTTAG
65 AATTATATATTATATTTAGATATAATTTAATATTTT-TTCATATATATGTGAAGGCTTTATTTAG
* * * *
408759 -GTTTTTTTAATGGTAACTAATTTTGACCCATTAAATTCATCAAATAAGGCCTTTTGCCTCACTT
129 ATTTTTTTTAATAGTAACTAATTTTGACCCATT-AATCCATCAAATAA-GCCTTATGCCTCACTT
* * * * * * *
408823 ATTTTGTTTAGCGATGGTAATATTTGAATCGTTCCATCGATTTTAAATCGATTTATTTCAAATAG
192 GTTTTGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTCAAATAG
* * * **
408888 ATAGATTTTTGTATTGAAAAAGTAAAAGGAAAACGAAATACATCGATTTTTTTAAAAGGTGGAGA
257 AGAGATTTTTATATTGGAAAAGTAAAAGGAAAGTGAAATA-ATCGATTTTTTT-AAAGGTGGAGA
* * * *
408953 TAAAAATAGTTTTCATAATTATTTATTTTATCTTATTTGATCTATCTATATAAAATTATTATTTT
320 T-AAAACAGTTTTGATAATTATCTATTTTATCTCATTTGATCTATCTATATAAAATTATTATTTT
* *
409018 ACTTTTAAATATTTAGTTTTTTATAAAAATAATAAAATAATAATATAATTATATATATATATTAT
384 ACTTTTAAATAATTAATTTTTTATAAAAATAAT--AAT-AT-ATATAA-T-TATATAT-TA-TAT
* *
409083 GTTTAGACATAATTTAATATTTATATATATATATATATATGTGAGGTTTTATTTAGATTGTTTTT
441 -TTAAGACATAATTT-A-A--TATAT-T-T-T-TATATATGTGAGGCTTTATTTAGATT-TTTTT
* * *
409148 AATAATAACTAATTTTAA-CTCATCAA-ATCCATCAAATAAAGCCTTATGCCTCACTTGTTCTGC
496 AATAATAACTAATTTTAACCT-ATCAAGCT-CATCAAATAAGGCCTTATGCCTCACTTGTT-TGT
** * ** * * *
409211 TT-A-GCA-GTAGTAATATTTGAATTGTTAAATTAATTTTAAATCAATTTATTTTAAATAGAAAG
558 TTAATG-ATG-A-TAATATTCAAATTGTT-TATCGATTTTAAATCAATTCATTTAAAATAAAAAG
* * * * ** *
409273 AATTTTT-TTTGAAAGAATAA-AAGTGAAGTGAAATAGATTGGATTTTTTTTAAAAGGTGAAAAT
619 -ATTTTTATTTTAAA-AAAAATAAGTGAAGTGAAATA-AATCGAAATTTTTTAAAAGGTG-AGAT
* *
409336 GAAATAAATTTGATAATTATCTGTTTCATCTTGTTTGGTCTGTC
680 GAAATAATTTTGATAATTATCTATTTCATC--------T-TGTC
* * * * * *
409380 TATGTAAAATTATTATTTTATTTTT-AATTATTTATTTTTTTTAAAATAAT--AAT-ATAAT--T
1 TATATAAAATTATTATTTTATTTTTAAATAATTAATTTTTATAAAAATAATAAAATAATAATACA
* *
409439 A-TATATATTATTTTTAGACATAATTTAATATTTTTTCATATATATGTG-AGGCTTTATTTAG--
66 ATTATATATTATATTTAGATATAATTTAATATTTTTTCATATATATGTGAAGGCTTTATTTAGAT
* ** * * * * *
409500 TTTTTTTAATAGTAACCAATTTTGATGCATAAAGCTTATC-AA-GA-CCGTATGCCTCACTTGTT
131 TTTTTTTAATAGTAACTAATTTTGACCCATTAATC-CATCAAATAAGCCTTATGCCTCACTTGTT
** ** * * ** * ** ** * *
409562 TCATTTAGCAGCGGTAATACTCAAATCGTTTGATCAATTTTAAATTAATTTATTTTAAATAGAGA
195 TTGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTCAAATAGAGA
* * * ** * * *
409627 AAATTTTGT-TTTAAATAAAT-AAAGGTAAAGTGAAATAGATTGGAATTTTTTT-AA-GTGAAGA
260 GATTTTTATATTGGAA-AAGTAAAAGG-AAAGTGAAATA-A-TCG-ATTTTTTTAAAGGTGGAGA
* * ** * * *
409688 TAAAATAGTTTTGATAATTATTTATTTTA-CTTTGTTTGATTTGT-TCATATAAAATAATTATTT
320 TAAAACAGTTTTGATAATTATCTATTTTATC-TCATTTGATCTATCT-ATATAAAATTATTATTT
* * * *
409751 TATTTTTAAATATTTAA-TTTTTATAAAAATAATAAAATAACAACATAATTATATATTATATTTA
383 TACTTTTAAATAATTAATTTTTTATAAAAATAAT--AAT-A-TATATAATTATATATTATATTTA
*
409815 A-ACATAATTTAACAT-TTTTTA
444 AGACATAATTTAATATATTTTTA
409836 ATAATGTATA
Statistics
Matches: 2206, Mismatches: 300, Indels: 302
0.79 0.11 0.11
Matches are distributed among these distances:
706 1 0.00
711 3 0.00
712 8 0.00
713 143 0.06
714 76 0.03
715 15 0.01
716 2 0.00
717 28 0.01
718 59 0.03
719 42 0.02
720 102 0.05
721 10 0.00
722 12 0.01
723 43 0.02
724 138 0.06
725 153 0.07
726 15 0.01
727 16 0.01
728 6 0.00
729 121 0.05
730 28 0.01
731 35 0.02
732 27 0.01
733 71 0.03
734 226 0.10
735 217 0.10
736 90 0.04
737 64 0.03
738 51 0.02
739 94 0.04
740 39 0.02
741 59 0.03
742 2 0.00
743 5 0.00
744 11 0.00
745 102 0.05
746 10 0.00
747 42 0.02
748 13 0.01
749 27 0.01
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (714 bp):
TATATAAAATTATTATTTTATTTTTAAATAATTAATTTTTATAAAAATAATAAAATAATAATACA
ATTATATATTATATTTAGATATAATTTAATATTTTTTCATATATATGTGAAGGCTTTATTTAGAT
TTTTTTTAATAGTAACTAATTTTGACCCATTAATCCATCAAATAAGCCTTATGCCTCACTTGTTT
TGTTTAGCAATGATAATATTTGAATCATTCAATCAATTTTAAATCGATTCATTTCAAATAGAGAG
ATTTTTATATTGGAAAAGTAAAAGGAAAGTGAAATAATCGATTTTTTTAAAGGTGGAGATAAAAC
AGTTTTGATAATTATCTATTTTATCTCATTTGATCTATCTATATAAAATTATTATTTTACTTTTA
AATAATTAATTTTTTATAAAAATAATAATATATATAATTATATATTATATTTAAGACATAATTTA
ATATATTTTTATATATGTGAGGCTTTATTTAGATTTTTTTAATAATAACTAATTTTAACCTATCA
AGCTCATCAAATAAGGCCTTATGCCTCACTTGTTTGTTTAATGATGATAATATTCAAATTGTTTA
TCGATTTTAAATCAATTCATTTAAAATAAAAAGATTTTTATTTTAAAAAAAATAAGTGAAGTGAA
ATAAATCGAAATTTTTTAAAAGGTGAGATGAAATAATTTTGATAATTATCTATTTCATCTTGTC
Found at i:409410 original size:18 final size:18
Alignment explanation
Indices: 409387--409421 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
409377 GTCTATGTAA
409387 AATTA-TTATTTTATTTTT
1 AATTATTTATTTT-TTTTT
409405 AATTATTTATTTTTTTT
1 AATTATTTATTTTTTTT
409422 AAAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
AATTATTTATTTTTTTTT
Found at i:409887 original size:16 final size:18
Alignment explanation
Indices: 409866--409903 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
409856 TTAAAAAATT
409866 AAATAA-ATAATT-TTAA
1 AAATAATATAATTATTAA
409882 AAATAATTATAATTATTAA
1 AAATAA-TATAATTATTAA
409901 AAA
1 AAA
409904 CCCAACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAATATAATTATTAA
Found at i:410951 original size:41 final size:38
Alignment explanation
Indices: 410906--410982 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 38
410896 ATTTTGATAT
410906 AAATATA-AAATATATTAAATATAATTACAAAATAATAAAAA
1 AAATATATAAAT-TATTAAAT-TAATT--AAAATAATAAAAA
*
410947 AAATATATAAATTATTAAATTTATTAAAATAATAAA
1 AAATATATAAATTATTAAATTAATTAAAATAATAAA
410983 TATATATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 11 0.32
40 4 0.12
41 15 0.44
42 4 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (38 bp):
AAATATATAAATTATTAAATTAATTAAAATAATAAAAA
Found at i:412037 original size:8 final size:8
Alignment explanation
Indices: 412026--412076 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
412016 TATAAAATTA
412026 AAAAAATC
1 AAAAAATC
412034 AAAAAAT-
1 AAAAAATC
*
412041 AAAAAATA
1 AAAAAATC
412049 AAAAAATC
1 AAAAAATC
412057 TAAAAAATC
1 -AAAAAATC
412066 -AAAAATC
1 AAAAAATC
412073 AAAA
1 AAAA
412077 TTAATAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
7 14 0.36
8 17 0.44
9 8 0.21
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAATC
Found at i:412037 original size:9 final size:9
Alignment explanation
Indices: 412019--412070 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 9
412009 TTTTTGATAT
*
412019 AAAATTAAA
1 AAAATCAAA
412028 AAAATC-AA
1 AAAATCAAA
412036 AAAAT--AA
1 AAAATCAAA
412043 AAAAT-AAA
1 AAAATCAAA
*
412051 AAAATCTAA
1 AAAATCAAA
412060 AAAATCAAA
1 AAAATCAAA
412069 AA
1 AA
412071 TCAAAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 7 0.18
8 14 0.37
9 17 0.45
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAATCAAA
Found at i:412044 original size:6 final size:7
Alignment explanation
Indices: 412026--412089 Score: 56
Period size: 7 Copynumber: 8.4 Consensus size: 7
412016 TATAAAATTA
412026 AAAAAAT
1 AAAAAAT
412033 CAAAAAAT
1 -AAAAAAT
412041 AAAAAAT
1 AAAAAAT
412048 AAAAAAATCT
1 -AAAAAA--T
412058 AAAAAAT
1 AAAAAAT
*
412065 CAAAAAT
1 AAAAAAT
* *
412072 CAAAATT
1 AAAAAAT
412079 AATAAAAT
1 AA-AAAAT
412087 AAA
1 AAA
412090 CACAAATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
7 22 0.46
8 19 0.40
9 6 0.12
10 1 0.02
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:412046 original size:24 final size:25
Alignment explanation
Indices: 412019--412076 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
412009 TTTTTGATAT
412019 AAAATTAAAAAAATC-AAAAAATAA
1 AAAATTAAAAAAATCTAAAAAATAA
*
412043 AAAA-TAAAAAAATCTAAAAAATCA
1 AAAATTAAAAAAATCTAAAAAATAA
*
412067 AAAATCAAAA
1 AAAATTAAAA
412077 TTAATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 16 0.53
25 4 0.13
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (25 bp):
AAAATTAAAAAAATCTAAAAAATAA
Found at i:412289 original size:23 final size:23
Alignment explanation
Indices: 412262--412335 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 23
412252 AGGAAAAAGC
412262 ATAGAGACTAAAAATGTAGCATG
1 ATAGAGACTAAAAATGTAGCATG
* * * ** *
412285 ATAGAATGAATAAAAAAGGAAAAAG
1 ATAG-A-GACTAAAAATGTAGCATG
*
412310 CATGGAGACTAAAAATGTAGCATG
1 -ATAGAGACTAAAAATGTAGCATG
412334 AT
1 AT
412336 GGAATGAATA
Statistics
Matches: 35, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
23 6 0.17
24 13 0.37
25 13 0.37
26 3 0.09
ACGTcount: A:0.53, C:0.07, G:0.22, T:0.19
Consensus pattern (23 bp):
ATAGAGACTAAAAATGTAGCATG
Found at i:412305 original size:49 final size:49
Alignment explanation
Indices: 412252--412350 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
412242 GCAATATGGG
412252 AGGAAAAAGCATAGAGACTAAAAATGTAGCATGATAGAATGAATAAAAA
1 AGGAAAAAGCATAGAGACTAAAAATGTAGCATGATAGAATGAATAAAAA
* *
412301 AGGAAAAAGCATGGAGACTAAAAATGTAGCATGATGGAATGAATAAAAA
1 AGGAAAAAGCATAGAGACTAAAAATGTAGCATGATAGAATGAATAAAAA
412350 A
1 A
412351 TGTAGAAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.16
Consensus pattern (49 bp):
AGGAAAAAGCATAGAGACTAAAAATGTAGCATGATAGAATGAATAAAAA
Found at i:412337 original size:23 final size:23
Alignment explanation
Indices: 412265--412338 Score: 58
Period size: 25 Copynumber: 3.1 Consensus size: 23
412255 AAAAAGCATA
412265 GAGACTAAAAATGTAGCATGATAG
1 GAGACTAAAAATGTAGCATGAT-G
* * * * ** *
412289 AATGAATAAAAAAGGAAAAAGCATG
1 GA-GACTAAAAATGTAGCATG-ATG
412314 GAGACTAAAAATGTAGCATGATG
1 GAGACTAAAAATGTAGCATGATG
412337 GA
1 GA
412339 ATGAATAAAA
Statistics
Matches: 34, Mismatches: 14, Indels: 5
0.64 0.26 0.09
Matches are distributed among these distances:
23 5 0.15
24 13 0.38
25 14 0.41
26 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
GAGACTAAAAATGTAGCATGATG
Found at i:412351 original size:26 final size:26
Alignment explanation
Indices: 412271--412355 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 26
412261 CATAGAGACT
*
412271 AAAAATGTAGCATGATAGAATGAATA
1 AAAAATGTAGCATGATGGAATGAATA
* ** * *
412297 AAAAA-GGAAAAAGCATGG-A-GACT-
1 AAAAATGTAGCATG-ATGGAATGAATA
412320 AAAAATGTAGCATGATGGAATGAATA
1 AAAAATGTAGCATGATGGAATGAATA
412346 AAAAATGTAG
1 AAAAATGTAG
412356 AAAGGCTGAC
Statistics
Matches: 43, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
23 9 0.21
24 8 0.19
25 8 0.19
26 18 0.42
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.19
Consensus pattern (26 bp):
AAAAATGTAGCATGATGGAATGAATA
Found at i:412893 original size:51 final size:53
Alignment explanation
Indices: 412818--412918 Score: 152
Period size: 51 Copynumber: 1.9 Consensus size: 53
412808 TTCTTCCAGC
** * *
412818 ATCCACGAACCAGCAGCTTGAGCAATTTCCAGCTTCCACG-A-CAGCAGCAGT
1 ATCCACGAACCAGCAGCTCAAGCAACTTCCAGCATCCACGAACCAGCAGCAGT
412869 ATCCACGAACCAGCAGCTCAAGCAACTTCCAGCATCCACGAACCAGCAGC
1 ATCCACGAACCAGCAGCTCAAGCAACTTCCAGCATCCACGAACCAGCAGC
412919 TTGAGCAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 36 0.82
52 1 0.02
53 7 0.16
ACGTcount: A:0.32, C:0.37, G:0.18, T:0.14
Consensus pattern (53 bp):
ATCCACGAACCAGCAGCTCAAGCAACTTCCAGCATCCACGAACCAGCAGCAGT
Found at i:412906 original size:33 final size:33
Alignment explanation
Indices: 412869--412941 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
412859 CAGCAGCAGT
412869 ATCCACGAACCAGCAGCTCAAGCAACTTCCAGC
1 ATCCACGAACCAGCAGCTCAAGCAACTTCCAGC
**
412902 ATCCACGAACCAGCAGCTTGAGCAACTTCCAGC
1 ATCCACGAACCAGCAGCTCAAGCAACTTCCAGC
*
412935 TTCCACG
1 ATCCACG
412942 GCAGCAGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.15
Consensus pattern (33 bp):
ATCCACGAACCAGCAGCTCAAGCAACTTCCAGC
Found at i:414133 original size:13 final size:13
Alignment explanation
Indices: 414115--414139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
414105 ACACAAAGTA
414115 TGTATCGATACAT
1 TGTATCGATACAT
414128 TGTATCGATACA
1 TGTATCGATACA
414140 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:414136 original size:32 final size:33
Alignment explanation
Indices: 414095--414162 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
414085 GTAGCCAAAT
*
414095 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
414127 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
414160 TTG
1 TTG
414163 GCTTGTTACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:420312 original size:13 final size:13
Alignment explanation
Indices: 420294--420332 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
420284 ATAACATTCT
420294 TTGTATCGATACA
1 TTGTATCGATACA
*
420307 TTGTATGGATACA
1 TTGTATCGATACA
*
420320 CTGTATCGATACA
1 TTGTATCGATACA
420333 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:420499 original size:20 final size:20
Alignment explanation
Indices: 420464--420504 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
420454 CAAAATTCTT
420464 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
420486 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
420505 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:424996 original size:13 final size:13
Alignment explanation
Indices: 424978--425002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
424968 CATTTTATGG
424978 TGTATCGATACAA
1 TGTATCGATACAA
424991 TGTATCGATACA
1 TGTATCGATACA
425003 TACTTTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:425018 original size:32 final size:33
Alignment explanation
Indices: 424955--425022 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
424945 TGTTACAAGC
*
424955 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
424988 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
425020 CAA
1 CAA
425023 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:427377 original size:20 final size:21
Alignment explanation
Indices: 427348--427388 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
427338 TGTTTTTGAA
427348 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
427367 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
427389 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:427538 original size:13 final size:13
Alignment explanation
Indices: 427520--427558 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
427510 ATAGTCCCCT
*
427520 TGTATCGATACAG
1 TGTATCGATACAA
427533 TGTATCGATACAA
1 TGTATCGATACAA
427546 TGTATCGATACAA
1 TGTATCGATACAA
427559 AGAATGCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:427764 original size:8 final size:8
Alignment explanation
Indices: 427748--427784 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
427738 TCATTCATTT
*
427748 ACAACATC
1 ACAAAATC
427756 ACAAAATC
1 ACAAAATC
427764 ACAAAAT-
1 ACAAAATC
427771 -CAAAATC
1 ACAAAATC
427778 ACAAAAT
1 ACAAAAT
427785 TTAATCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.23
8 20 0.77
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.14
Consensus pattern (8 bp):
ACAAAATC
Found at i:427776 original size:14 final size:14
Alignment explanation
Indices: 427757--427784 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
427747 TACAACATCA
427757 CAAAATCACAAAAT
1 CAAAATCACAAAAT
427771 CAAAATCACAAAAT
1 CAAAATCACAAAAT
427785 TTAATCAAAT
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:0.21, G:0.00, T:0.14
Consensus pattern (14 bp):
CAAAATCACAAAAT
Found at i:433740 original size:13 final size:13
Alignment explanation
Indices: 433722--433756 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
433712 TTTATGGTGA
433722 ATCGATACAATGT
1 ATCGATACAATGT
433735 ATCGATACAATGT
1 ATCGATACAATGT
433748 ATCGATACA
1 ATCGATACA
433757 TACTTTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (13 bp):
ATCGATACAATGT
Found at i:438801 original size:64 final size:64
Alignment explanation
Indices: 438722--438851 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
438712 ACCTATCAAA
438722 GAGAAATGGTTACCCTGTTTTACGACCTAATGCACAAAAAGATAGAATTATATGTTGATGACAT
1 GAGAAATGGTTACCCTGTTTTACGACCTAATGCACAAAAAGATAGAATTATATGTTGATGACAT
438786 GAGAAATGGTTACCCTGTTTTACGACCTAATGCACAAAAAGATAGAATTATATGTTGATGACAT
1 GAGAAATGGTTACCCTGTTTTACGACCTAATGCACAAAAAGATAGAATTATATGTTGATGACAT
438850 GA
1 GA
438852 TTGCCAAGTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (64 bp):
GAGAAATGGTTACCCTGTTTTACGACCTAATGCACAAAAAGATAGAATTATATGTTGATGACAT
Found at i:442477 original size:42 final size:42
Alignment explanation
Indices: 442425--443337 Score: 883
Period size: 42 Copynumber: 21.8 Consensus size: 42
442415 TTTTTGTTTT
* *
442425 CCCTTAGTCTGTCTGTCGGCTTTGACCCTAGAGACTTTCCTA
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* *
442467 CCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTC-A
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * * *
442508 TCCCTTAGTCTGCCTTTTGG-TTTAACCTTGGAGACTTTCCTGT
1 -CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-A
442551 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * * *
442592 TCCTTCAGTTTGCTTGTCGGCTTTGACCTTGGAGACTTTCCTT
1 CCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * *
442635 CCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTT-TTA
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* *
442676 TCCCTTAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTTC-A
1 -CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* ** * *
442718 TCCCTTAGTTTGCCTGTCGATTTTGATCCTGGAGACTTTTC-A
1 -CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * *
442760 TCCCTTAGTCTACCTGTCGG-TTTAACCCTGGAGACTTTTCAA
1 -CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * *
442802 CCCTCAGTCTGCCTGTCGGCTTTGAGCCTGGAGACTTTCCTGT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-A
* *
442845 CCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTACT-
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * * *
442886 TCCTTCAGTCTGCCTGTCGGCTTTGGCCTTGGAGACTTTTCTT
1 CCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * *
442929 CCCTTAGTCTACCTGTCGG-TTTAACCCT-GAGGACTTTTCAA
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGA-GACTTTCCTA
* *
442970 CCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACCTTT-CTGT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGA-CTTTCCT-A
* **
443013 CCCTTAGTCTGCTTGTCGGCTTTGACCCTCAAGACTTTCCT-
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * *
443054 TCCTTCAGTCTGCCTGTCGG-TTTGATCCTGGAGACTTTTCAA
1 CCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * * * *
443096 CCCTCAATCTGCTTGTCGG-TTTAACCTTGGAGACTTTCCTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
*
443137 CCCTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCCT-
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* ** *
443178 TCCTTCAGTCTGCCAATCGG-TTTGACCCTGGAGACTTTTC-A
1 CCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* *
443219 TCCCTTAGT-TGGCCTGTCGG-TTTAACCCTGGAGACTTTCCTT
1 -CCCTTAGTCT-GCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * * *
443261 CCCTCAGTCTGCCTGTCGGCTTTGTCCCTGTAGACTTTTCTTT
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTA
* * * * *
443304 CCCTAAGTCTGCCTGTTGGTTTTAACCCGGGAGA
1 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGA
443338 ATATTTTCTT
Statistics
Matches: 726, Mismatches: 115, Indels: 59
0.81 0.13 0.07
Matches are distributed among these distances:
40 3 0.00
41 223 0.31
42 366 0.50
43 134 0.18
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (42 bp):
CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
Found at i:442565 original size:84 final size:84
Alignment explanation
Indices: 442424--443337 Score: 972
Period size: 84 Copynumber: 10.9 Consensus size: 84
442414 TTTTTTGTTT
* * * *
442424 TCCCTTAGTCTGTCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTT
*
442489 TGACCCTAGAGACTTTTCA
66 TGACCCTGGAGACTTTTCA
* * *
442508 TCCCTTAGTCTGCCTTTTGG-TTTAACCTTGGAGACTTTCCTGTCCCTTAGTCTGCCTGTCGGCT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCT
*
442572 TTGACCCTGGAGAC-TTTCC
65 TTGACCCTGGAGACTTTTCA
* * * * * * *
442591 TTCCTTCAGTTTGCTTGTCGGCTTTGACCTTGGAGACTTTCCTTCCCTCAGTCTGCCTATCGGCT
1 TCCCTT-AGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCT
*
442656 TTGACCCTGGAGACTTTTTA
65 TTGACCCTGGAGACTTTTCA
* * * * * **
442676 TCCCTTAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTTCATCCCTTAGTTTGCCTGTCGATTT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTT
*
442741 TGATCCTGGAGACTTTTCA
66 TGACCCTGGAGACTTTTCA
* * ** *
442760 TCCCTTAGTCTACCTGTCGG-TTTAACCCTGGAGACTTTTCAACCCTCAGTCTGCCTGTCGGCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTT
* * *
442824 TGAGCCTGGAGACTTTCCTG
66 TGACCCTGGAGACTTTTC-A
*
442844 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTACTT-CCTTCAGTCTGCCTGTCGGCT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTT-AGTCTGCCTGTCGGCT
* * *
442908 TTGGCCTTGGAGACTTTTCT
65 TTGACCCTGGAGACTTTTCA
* * **
442928 TCCCTTAGTCTACCTGTCGG-TTTAACCCT-GAGGACTTTTCAACCCTTAGTCTGCCTGTCGGCT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGA-GACTTTCCTTCCCTTAGTCTGCCTGTCGGCT
* * *
442991 TTGACCTTGGAGACCTTTCTG
65 TTGACCCTGGAGACTTTTC-A
* * **
443012 TCCCTTAGTCTGCTTGTCGGCTTTGACCCTCAAGACTTTCCTT-CCTTCAGTCTGCCTGTCGG-T
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTT-AGTCTGCCTGTCGGCT
*
443075 TTGATCCTGGAGACTTTTCA
65 TTGACCCTGGAGACTTTTCA
* * * * * *
443095 ACCCTCAATCTGCTTGTCGG-TTTAACCTTGGAGACTTTCCTTCCCTTAGTCTACCTGTCGGCTT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTT
*
443159 TGACCCTGGAGAC-TTTCC
66 TGACCCTGGAGACTTTTCA
* ** * * *
443177 TTCCTTCAGTCTGCCAATCGG-TTTGACCCTGGAGACTTTTCATCCCTTAGT-TGGCCTGTCGG-
1 TCCCTT-AGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCT-GCCTGTCGGC
* * *
443239 TTTAACCCTGGAGACTTTCCT
64 TTTGACCCTGGAGACTTTTCA
* ** * * * * *
443260 TCCCTCAGTCTGCCTGTCGGCTTTGTCCCTGTAGACTTTTCTTTCCCTAAGTCTGCCTGTTGGTT
1 TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGAC-TTTCCTTCCCTTAGTCTGCCTGTCGGCT
* *
443325 TTAACCCGGGAGA
65 TTGACCCTGGAGA
443338 ATATTTTCTT
Statistics
Matches: 700, Mismatches: 108, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
82 67 0.10
83 229 0.33
84 282 0.40
85 121 0.17
86 1 0.00
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (84 bp):
TCCCTTAGTCTGCCTGTCGGCTTTAACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTT
TGACCCTGGAGACTTTTCA
Found at i:442577 original size:126 final size:125
Alignment explanation
Indices: 442423--443325 Score: 988
Period size: 126 Copynumber: 7.2 Consensus size: 125
442413 CTTTTTTGTT
* * *
442423 TTCCCTTAGTCTGTCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTGCCTGTCGG-TTTGACCCTGGAGACTTTTCTACCCTTAGTCTGCCTGTCGGCT
* * * * * * *
442488 TTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTTTTGG-TTTAACCTTGGAGACTTTCC
65 TTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * *
442548 TGTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-TCCTTCAGTTTGCTTGTCGG
1 T-TCCCTTAGTCTGCCTGTCGG-TTTGACCCTGGAGACTTTTCTACCCTT-AGTCTGCCTGTCGG
* * * *
442612 CTTTGACCTTGGAGACTTTCCTTCCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTT-T
63 CTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* *
442674 TATCCCTTAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTTC-ATCCCTTAGTTTGCCTGTCGA
1 T-TCCCTTAGTCTGCCTGTCGG-TTTGACCCTGGAGACTTTTCTA-CCCTTAGTCTGCCTGTCGG
* * * * * * *
442738 TTTTGATCCTGGAGACTTTTCATCCCTTAGTCTACCTGTCGG-TTTAACCCTGGAGACTTTTC
63 CTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
** * * * *
442800 AACCCTCAGTCTGCCTGTCGGCTTTGAGCCTGGAGACTTTCCTGTCCCTTAGTCTGCCTGTCGGC
1 TTCCCTTAGTCTGCCTGTCGG-TTTGACCCTGGAGACTTTTCT-ACCCTTAGTCTGCCTGTCGGC
* * * * *
442865 TTTAACCCTGGAGACTTTACTT-CCTTCAGTCTGCCTGTCGGCTTTGGCCTTGGAGACTTTTC
64 TTTGACCCTGGAGACTTTCCTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * *
442927 TTCCCTTAGTCTACCTGTCGGTTTAACCCT-GAGGACTTTTCAACCCTTAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTGCCTGTCGGTTTGACCCTGGA-GACTTTTCTACCCTTAGTCTGCCTGTCGGCT
* * **
442991 TTGACCTTGGAGACCTTT-CTGTCCCTTAGTCTGCTTGTCGGCTTTGACCCTCAAGACTTTCC
65 TTGACCCTGGAGA-CTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
* * * * *
443053 TT-CCTTCAGTCTGCCTGTCGGTTTGATCCTGGAGACTTTTCAACCCTCAATCTGCTTGTCGG-T
1 TTCCCTT-AGTCTGCCTGTCGGTTTGACCCTGGAGACTTTTCTACCCTTAGTCTGCCTGTCGGCT
* * *
443116 TTAACCTTGGAGACTTTCCTTCCCTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCC
65 TTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
**
443177 TT-CCTTCAGTCTGCCAATCGGTTTGACCCTGGAGACTTTTC-ATCCCTTAGT-TGGCCTGTCGG
1 TTCCCTT-AGTCTGCCTGTCGGTTTGACCCTGGAGACTTTTCTA-CCCTTAGTCT-GCCTGTCGG
* * * * *
443239 -TTTAACCCTGGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGTCCCTGTAGACTTTTCT
63 CTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCC
* *
443302 TTCCCTAAGTCTGCCTGTTGGTTT
1 TTCCCTTAGTCTGCCTGTCGGTTT
443326 TAACCCGGGA
Statistics
Matches: 664, Mismatches: 93, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
123 2 0.00
124 145 0.22
125 137 0.21
126 320 0.48
127 60 0.09
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.38
Consensus pattern (125 bp):
TTCCCTTAGTCTGCCTGTCGGTTTGACCCTGGAGACTTTTCTACCCTTAGTCTGCCTGTCGGCTT
TGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
Found at i:444802 original size:8 final size:8
Alignment explanation
Indices: 444789--444833 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
444779 AGATAAAAAA
444789 ATTTTATT
1 ATTTTATT
444797 ATTTTATT
1 ATTTTATT
444805 -TTGTTATT
1 ATT-TTATT
444813 ATTTT-TT
1 ATTTTATT
444820 ATTTT-TT
1 ATTTTATT
444827 AATTTTA
1 -ATTTTA
444834 CTTCCGTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 11 0.33
8 20 0.61
9 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (8 bp):
ATTTTATT
Done.