Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168126.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_37, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 424845
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Warning! 4000 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:343251 original size:19 final size:18
Alignment explanation
Indices: 343201--343257 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
343191 AATAAGTACT
*
343201 AAAAAAAGAAAAAAATTAG
1 AAAAAAA-AAAAAAATAAG
*
343220 AAAAAAAACAAAAACATAAT
1 AAAAAAAA-AAAAA-ATAAG
* *
343240 AAAAAATAAAAAAGTAAG
1 AAAAAAAAAAAAAATAAG
343258 GAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.13
19 17 0.55
20 10 0.32
ACGTcount: A:0.79, C:0.04, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAAAAAAAAAAAATAAG
Found at i:343403 original size:17 final size:16
Alignment explanation
Indices: 343372--343414 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
343362 TACAAAGAAA
343372 AAATAAAAAATATAAG
1 AAATAAAAAATATAAG
*
343388 AAATAATAAGATATAA-
1 AAATAA-AAAATATAAG
*
343404 AGATAAAAAAT
1 AAATAAAAAAT
343415 TAAAAGAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (16 bp):
AAATAAAAAATATAAG
Found at i:343511 original size:19 final size:18
Alignment explanation
Indices: 343479--343553 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
343469 AAAAGATTTT
343479 AAAAATATAAAAAATAAAA
1 AAAAATA-AAAAAATAAAA
**
343498 AAAATATAAAAAAATGTGAA
1 AAAA-ATAAAAAAAT-AAAA
** *
343518 AAAAATAAAAAAGCAAGA
1 AAAAATAAAAAAATAAAA
*
343536 AAAAATACAAAAATAAAA
1 AAAAATAAAAAAATAAAA
343554 TACAAAAGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
18 15 0.35
19 19 0.44
20 9 0.21
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAAATAAAAAAATAAAA
Found at i:343519 original size:11 final size:10
Alignment explanation
Indices: 343479--343529 Score: 63
Period size: 9 Copynumber: 5.3 Consensus size: 10
343469 AAAAGATTTT
343479 AAAAATAT-A
1 AAAAATATAA
343488 AAAAATA-AA
1 AAAAATATAA
343497 AAAAATATAA
1 AAAAATATAA
*
343507 AAAAATGTGAA
1 AAAAATAT-AA
343518 AAAAATA-AA
1 AAAAATATAA
343527 AAA
1 AAA
343530 GCAAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 20 0.54
10 9 0.24
11 8 0.22
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (10 bp):
AAAAATATAA
Found at i:343553 original size:13 final size:13
Alignment explanation
Indices: 343518--343560 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
343508 AAAATGTGAA
*
343518 AAAAATAAAAAAGC
1 AAAAATAAAATA-C
*
343532 AAGAA-AAAATAC
1 AAAAATAAAATAC
343544 AAAAATAAAATAC
1 AAAAATAAAATAC
343557 AAAA
1 AAAA
343561 GATATGAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.20
13 16 0.64
14 4 0.16
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.09
Consensus pattern (13 bp):
AAAAATAAAATAC
Found at i:343816 original size:24 final size:23
Alignment explanation
Indices: 343788--343848 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
343778 ATAAAAATTT
*
343788 ATAAAATATCAATA-AATAATTAAA
1 ATAAAATAT-AATAGAA-AAATAAA
*
343812 ATAAAAAATAATAGGAAAAATAAA
1 ATAAAATATAATA-GAAAAATAAA
*
343836 ATAAAATAAAATA
1 ATAAAATATAATA
343849 TTAAAGCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.13
24 25 0.81
25 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (23 bp):
ATAAAATATAATAGAAAAATAAA
Found at i:343859 original size:29 final size:26
Alignment explanation
Indices: 343808--343937 Score: 104
Period size: 29 Copynumber: 4.7 Consensus size: 26
343798 AATAAATAAT
*
343808 TAAAATAAAAAATAATAGGAAAAATAAAA
1 TAAAATAAAAATTAA-A--AAAAATAAAA
343837 TAAAATAAAATATTAAAGCAAAAGATAAAA
1 TAAAATAAAA-ATTAAA--AAAA-ATAAAA
* *
343867 GAAAATAAAGTATTAAAAAAAAT-AAA
1 TAAAATAAA-AATTAAAAAAAATAAAA
343893 T-AAATAAAAATTAAAAACAAA-AAAA
1 TAAAATAAAAATTAAAAA-AAATAAAA
343918 TACTAAATAAAAAATTAAAA
1 TA--AAAT-AAAAATTAAAA
343938 TGAACATGAA
Statistics
Matches: 86, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
24 8 0.09
25 14 0.16
26 3 0.03
27 2 0.02
28 8 0.09
29 27 0.31
30 24 0.28
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (26 bp):
TAAAATAAAAATTAAAAAAAATAAAA
Found at i:343872 original size:30 final size:29
Alignment explanation
Indices: 343809--343907 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 29
343799 ATAAATAATT
* * *
343809 AAAATAAAA-AATAATAGGAAAAATAAAAT
1 AAAATAAAATATTAA-AGCAAAAATAAAAG
343838 AAAATAAAATATTAAAGCAAAAGATAAAAG
1 AAAATAAAATATTAAAGCAAAA-ATAAAAG
*
343868 AAAATAAAGTATTAAA--AAAAAT-AAA-
1 AAAATAAAATATTAAAGCAAAAATAAAAG
*
343893 TAAATAAAA-ATTAAA
1 AAAATAAAATATTAAA
343908 AACAAAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 6 0.10
25 7 0.11
26 3 0.05
27 2 0.03
28 4 0.06
29 15 0.24
30 25 0.40
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (29 bp):
AAAATAAAATATTAAAGCAAAAATAAAAG
Found at i:343897 original size:25 final size:25
Alignment explanation
Indices: 343808--343919 Score: 86
Period size: 25 Copynumber: 4.3 Consensus size: 25
343798 AATAAATAAT
* **
343808 TAAAATAAA-AAATAATAGGAAAAA
1 TAAAATAAATAAATATTAAAAAAAA
343832 TAAAATAAAATAAAATATTAAAGCAAAAGA
1 TAAAAT-AAAT-AAATATTAAA--AAAA-A
*
343862 TAAAAGAAAATAAAGTATTAAAAAAAA
1 TAAAA-TAAATAAA-TATTAAAAAAAA
*
343889 T-AAATAAATAAAAATTAAAAACAAA
1 TAAAATAAATAAATATTAAAAA-AAA
343914 -AAAATA
1 TAAAATA
343920 CTAAATAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
24 14 0.19
25 18 0.25
26 3 0.04
27 9 0.12
28 4 0.06
29 7 0.10
30 17 0.24
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (25 bp):
TAAAATAAATAAATATTAAAAAAAA
Found at i:343900 original size:17 final size:17
Alignment explanation
Indices: 343861--343902 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
343851 AAAGCAAAAG
343861 ATAAAAGAAAATAAAGTA
1 ATAAAA-AAAATAAAGTA
*
343879 TTAAAAAAAATAAA-TAA
1 ATAAAAAAAATAAAGT-A
343896 ATAAAAA
1 ATAAAAA
343903 TTAAAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.71
18 5 0.24
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
ATAAAAAAAATAAAGTA
Found at i:343901 original size:15 final size:15
Alignment explanation
Indices: 343883--343932 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
343873 AAAGTATTAA
343883 AAAAAATAAATAAAT
1 AAAAAATAAATAAAT
*
343898 AAAAATTAAA-AACA-
1 AAAAAATAAATAA-AT
*
343912 AAAAAAT-ACTAAAT
1 AAAAAATAAATAAAT
343926 AAAAAAT
1 AAAAAAT
343933 TAAAATGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 2 0.07
14 17 0.59
15 10 0.34
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAATAAATAAAT
Found at i:343924 original size:24 final size:24
Alignment explanation
Indices: 343827--343937 Score: 69
Period size: 28 Copynumber: 4.1 Consensus size: 24
343817 AAATAATAGG
*
343827 AAAAATAAAATAAAATAAAATATTAA
1 AAAAAAAAAAT-AAATAAAA-ATTAA
* *
343853 AGCAAAAGATAAAAGAAAATAAAGTATTAA
1 A--AAAA-A-AAAA-TAAATAAA-AATTAA
*
343883 AAAAAATAAATAAATAAAAATTAAA
1 AAAAAAAAAATAAATAAAAATT-AA
343908 AACAAAAAAATACTAAATAAAAAATTAA
1 AA-AAAAAAA-A-TAAAT-AAAAATTAA
343936 AA
1 AA
343938 TGAACATGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
24 3 0.04
25 11 0.16
26 10 0.15
27 2 0.03
28 17 0.25
29 7 0.10
30 17 0.25
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAAAAAAAATAAATAAAAATTAA
Found at i:345984 original size:18 final size:18
Alignment explanation
Indices: 345937--345984 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
345927 TAAATGGTAA
345937 AATAAAAT-AAGAAAAAT
1 AATAAAATAAAGAAAAAT
*
345954 ATTAAAATGAAAGAAAAA-
1 AATAAAAT-AAAGAAAAAT
345972 AGATAAAATAAAG
1 A-ATAAAATAAAG
345985 TTCTAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 14 0.54
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
AATAAAATAAAGAAAAAT
Found at i:346303 original size:18 final size:18
Alignment explanation
Indices: 346236--346303 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
346226 AAGGAAGTGC
* *
346236 AAAAAAAAAAAAAACAAG
1 AAAAAAGAAAAAATCAAG
* * *
346254 AAATAAA-AAAAATTTATG
1 AAA-AAAGAAAAAATCAAG
*
346272 AAAAAAAGAGAAAATCAAG
1 -AAAAAAGAAAAAATCAAG
346291 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
346304 ATATATAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
18 25 0.66
19 13 0.34
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAAGAAAAAATCAAG
Found at i:346544 original size:13 final size:13
Alignment explanation
Indices: 346526--346559 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
346516 AAAATTTATG
346526 AAAATATAAATAA
1 AAAATATAAATAA
346539 AAAATA-AAATAA
1 AAAATATAAATAA
*
346551 AAAAAATAA
1 AAAATATAA
346560 TACCAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATATAAATAA
Found at i:346747 original size:22 final size:21
Alignment explanation
Indices: 346673--346745 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 21
346663 AAGGAATGAC
* *
346673 AAAATGAAAAAAATTAGTATGA
1 AAAATCAAAAAAA-TAGTATAA
346695 AAAATACAAAAAAAT-G-A-AA
1 AAAAT-CAAAAAAATAGTATAA
*
346714 AAAATAATAAGAAAATAGTATAA
1 AAAATCA-AA-AAAATAGTATAA
346737 AAAATCAAA
1 AAAATCAAA
346746 GACAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 1 0.02
19 8 0.20
20 6 0.15
21 2 0.05
22 9 0.22
23 15 0.37
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAATCAAAAAAATAGTATAA
Found at i:347124 original size:18 final size:20
Alignment explanation
Indices: 347103--347144 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
347093 ATACTAACGA
347103 AAAAGCAA-TAAAAATAAG-
1 AAAAGCAATTAAAAATAAGC
* *
347121 AAAAGTAATTAGAAATAAGC
1 AAAAGCAATTAAAAATAAGC
347141 AAAA
1 AAAA
347145 AAAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (20 bp):
AAAAGCAATTAAAAATAAGC
Found at i:347196 original size:25 final size:24
Alignment explanation
Indices: 347168--347214 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
347158 AAAAATTAAC
347168 AAATCAACAAAATAATTAAAAAAGA
1 AAATCAACAAAA-AATTAAAAAAGA
* * *
347193 AAATGAATAAAAATTTAAAAAA
1 AAATCAACAAAAAATTAAAAAA
347215 TAAACAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (24 bp):
AAATCAACAAAAAATTAAAAAAGA
Found at i:347238 original size:44 final size:44
Alignment explanation
Indices: 347133--347239 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
347123 AAGTAATTAG
* * ** * *
347133 AAATAAGCAAAAAAAAAAAAAAATAAAAAATTAACAAATCAACA
1 AAATAATCAAAAAAGAAAATGAATAAAAAATTAAAAAATAAACA
* *
347177 AAATAATTAAAAAAGAAAATGAATAAAAATTTAAAAAATAAACA
1 AAATAATCAAAAAAGAAAATGAATAAAAAATTAAAAAATAAACA
* *
347221 AGAAT-GTCAAAATAGAAAA
1 A-AATAATCAAAAAAGAAAA
347240 AAACTTTTAG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 48 0.94
45 3 0.06
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.16
Consensus pattern (44 bp):
AAATAATCAAAAAAGAAAATGAATAAAAAATTAAAAAATAAACA
Found at i:347420 original size:13 final size:12
Alignment explanation
Indices: 347404--347437 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
347394 CTAAATATAT
347404 AATATAAAATCAA
1 AATA-AAAATCAA
*
347417 AATAAAAAACAA
1 AATAAAAATCAA
347429 AATAAAAAT
1 AATAAAAAT
347438 TTCAAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAAAATCAA
Found at i:347645 original size:17 final size:17
Alignment explanation
Indices: 347622--347662 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
347612 AAGAAATTTG
347622 TGAAAAAAAGAGAAAAAA
1 TGAAAAAAA-AGAAAAAA
*
347640 TGAAAAAAAATAAAAAA
1 TGAAAAAAAAGAAAAAA
347657 TGAAAA
1 TGAAAA
347663 GACAAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (17 bp):
TGAAAAAAAAGAAAAAA
Found at i:347928 original size:14 final size:14
Alignment explanation
Indices: 347888--347922 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
347878 AAATATAAAT
* *
347888 AAATAAATAAATAA
1 AAATAAAAAAAAAA
347902 AAATAAAAAAAAAA
1 AAATAAAAAAAAAA
347916 AAATAAA
1 AAATAAA
347923 GCAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAAAAAAAAAA
Found at i:347928 original size:24 final size:24
Alignment explanation
Indices: 347877--347935 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
347867 AAAATTTATG
* * * *
347877 AAAATATAAATAAATAAATAAATA
1 AAAATAAAAAAAAAAAAATAAAGA
*
347901 AAAATAAAAAAAAAAAAATAAAGC
1 AAAATAAAAAAAAAAAAATAAAGA
*
347925 AAAAGAAAAAA
1 AAAATAAAAAA
347936 GATAAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (24 bp):
AAAATAAAAAAAAAAAAATAAAGA
Found at i:348020 original size:9 final size:8
Alignment explanation
Indices: 347884--348025 Score: 63
Period size: 8 Copynumber: 16.4 Consensus size: 8
347874 ATGAAAATAT
*
347884 AAATAAAT
1 AAATAAAA
347892 AAATAAATA
1 AAATAAA-A
347901 AAA-ATAAA
1 AAATA-AAA
347909 AAA-AAAA
1 AAATAAAA
347916 AAATAAAGCA
1 AAATAAA--A
*
347926 AAAGAAAA
1 AAATAAAA
347934 AAGATAAATA
1 AA-ATAAA-A
*
347944 AAGTATAAA
1 AAATA-AAA
*
347953 AAAGAAAA
1 AAATAAAA
*
347961 AAATCAATAC
1 AAAT-AA-AA
* **
347971 CAATAGGA
1 AAATAAAA
*
347979 AAAGAAAA
1 AAATAAAA
347987 AAATTAAAA
1 AAA-TAAAA
*
347996 ATATACAAA
1 AAATA-AAA
348005 AATATAATAA
1 AA-ATAA-AA
348015 AAATAAAA
1 AAATAAAA
348023 AAA
1 AAA
348026 GTGAGAAATG
Statistics
Matches: 101, Mismatches: 19, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
7 6 0.06
8 39 0.39
9 33 0.33
10 23 0.23
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:348559 original size:19 final size:19
Alignment explanation
Indices: 348537--348636 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 19
348527 GAAAAAGCAA
348537 TAAAAATAAGAAAAATAAT
1 TAAAAATAAGAAAAATAAT
*
348556 T-AAAATAA-ACAAAA-AAA
1 TAAAAATAAGA-AAAATAAT
* *
348573 TAAAAAGAA-AATAAAAAAT
1 TAAAAATAAGAA-AAATAAT
*
348592 TAACAAATTAAG-AAAATGA-
1 TAA-AAA-TAAGAAAAATAAT
*
348611 TAAAAA-AAGACAAAATGAT
1 TAAAAATAAGA-AAAATAAT
348630 TAAAAAT
1 TAAAAAT
348637 TTCAAAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
16 3 0.05
17 5 0.08
18 31 0.48
19 15 0.23
20 7 0.11
21 3 0.05
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (19 bp):
TAAAAATAAGAAAAATAAT
Found at i:348578 original size:18 final size:17
Alignment explanation
Indices: 348493--348591 Score: 63
Period size: 18 Copynumber: 5.2 Consensus size: 17
348483 TTTAAAATAT
*
348493 AAATAAAAATGGAAAAATA
1 AAATAAAAAT--AAAAAAA
348512 AAATAAAATACTAACGAAAAA
1 AAATAAAA-A-TAA--AAAAA
*
348533 GCAATAAAAATAAGAAAAA
1 -AAATAAAAATAA-AAAAA
* *
348552 TAATTAAAATAAACAAAA
1 AAATAAAAATAAA-AAAA
*
348570 AAATAAAAAGAAAATAAA
1 AAATAAAAATAAAA-AAA
348588 AAAT
1 AAAT
348592 TAACAAATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.03
18 31 0.47
19 16 0.24
20 4 0.06
21 6 0.09
22 7 0.11
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (17 bp):
AAATAAAAATAAAAAAA
Found at i:348583 original size:11 final size:11
Alignment explanation
Indices: 348557--348590 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
348547 AAAAATAATT
348557 AAAATAAACAAA
1 AAAATAAA-AAA
*
348569 AAAATAAAAAG
1 AAAATAAAAAA
348580 AAAATAAAAAA
1 AAAATAAAAAA
348591 TTAACAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:349922 original size:19 final size:19
Alignment explanation
Indices: 349884--349922 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
349874 TTTTAAAATC
*
349884 AATTTTAAATTTGAATTTA
1 AATTTTAAATTTGAACTTA
*
349903 AATTTTAAATTTTAACTTA
1 AATTTTAAATTTGAACTTA
349922 A
1 A
349923 TAAACAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (19 bp):
AATTTTAAATTTGAACTTA
Found at i:351287 original size:34 final size:32
Alignment explanation
Indices: 351191--351288 Score: 76
Period size: 33 Copynumber: 3.0 Consensus size: 32
351181 AAAGAAAAAC
* *
351191 AAAAAA-AAAACAAATATAGAAAAAAATATAT-
1 AAAAAACAAAAGAAA-AGAGAAAAAAATATATA
* **
351222 AAAAAACTAAAGAAAAGTTAATACAAAATATA-A
1 AAAAAACAAAAGAAAAGAGAA-A-AAAATATATA
* *
351255 TAAAAACAAAATGAAATGAGAAAAAAATATATA
1 AAAAAACAAAA-GAAAAGAGAAAAAAATATATA
351288 A
1 A
351289 GAGAAAGTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
31 9 0.18
32 15 0.30
33 19 0.38
34 7 0.14
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.17
Consensus pattern (32 bp):
AAAAAACAAAAGAAAAGAGAAAAAAATATATA
Found at i:351555 original size:17 final size:17
Alignment explanation
Indices: 351534--351572 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
351524 AAATTTGTGA
351534 AAAAAAGAGAAAAATAAG
1 AAAAAA-AGAAAAATAAG
* *
351552 AAAAAAATAAAAATTAG
1 AAAAAAAGAAAAATAAG
351569 AAAA
1 AAAA
351573 CCTACCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAAAAAGAAAAATAAG
Found at i:352098 original size:50 final size:49
Alignment explanation
Indices: 352017--352114 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 49
352007 CAACAGGTTG
* **
352017 GATTAGGGCATCCTCTAAGTCAGTTTAGGTAGTATGGATTTGGATGATAA
1 GATTAAGGCATCCTAAAAGTCAGTTTAGGTAGTATGG-TTTGGATGATAA
* *
352067 GATTAAGGCATCCTAAAAGTCGGTTTGGGTAGTATGGTTTGGATGATA
1 GATTAAGGCATCCTAAAAGTCAGTTTAGGTAGTATGGTTTGGATGATA
352115 TTCCGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 11 0.26
50 32 0.74
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.34
Consensus pattern (49 bp):
GATTAAGGCATCCTAAAAGTCAGTTTAGGTAGTATGGTTTGGATGATAA
Found at i:355851 original size:163 final size:163
Alignment explanation
Indices: 355580--355884 Score: 511
Period size: 163 Copynumber: 1.9 Consensus size: 163
355570 AAACATAAGC
*
355580 AATATAATCAGAAGCAACCAGTCTGATTTGATCCTTTCGTTCTCATTATACTGTAACAAGCAACC
1 AATATAATCAGAAGCAACCAGTCTGATTTGATCCTTTCATTCTCATTATACTGTAACAAGCAACC
* * *
355645 ACCTTGAATTGATAGTTTCTGGTCTATCGCCACAGATCCTTTTTATCTCTCATTCTACTAGCTCC
66 ACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTTATCTCTCATTCTACTAGCTCC
355710 TTAATGGTTGAAAGTGTTTATAGAATGACAAGT
131 TTAATGGTTGAAAGTGTTTATAGAATGACAAGT
* * * *
355743 AATATAATCAGAAGCAACCAGTCTGATTTGATCCTTTCATTCTCGTTATCCTGTAAGAATCAACC
1 AATATAATCAGAAGCAACCAGTCTGATTTGATCCTTTCATTCTCATTATACTGTAACAAGCAACC
* * *
355808 ACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTTCTGTCTCATTCTACTAGTTCC
66 ACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTTATCTCTCATTCTACTAGCTCC
355873 TTAATGGTTGAA
131 TTAATGGTTGAA
355885 GGTTTTAACA
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
163 131 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (163 bp):
AATATAATCAGAAGCAACCAGTCTGATTTGATCCTTTCATTCTCATTATACTGTAACAAGCAACC
ACCTTGAATTGATACTTTCTGGTCTACCGCCACAGAACCTTTTTATCTCTCATTCTACTAGCTCC
TTAATGGTTGAAAGTGTTTATAGAATGACAAGT
Found at i:363571 original size:16 final size:16
Alignment explanation
Indices: 363552--363585 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
363542 AAAAATAAAA
363552 AACTAAAAAGTTGGTG
1 AACTAAAAAGTTGGTG
363568 AACTAAAAAGTTGGTG
1 AACTAAAAAGTTGGTG
363584 AA
1 AA
363586 ACGTCTCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (16 bp):
AACTAAAAAGTTGGTG
Found at i:363789 original size:3 final size:3
Alignment explanation
Indices: 363783--363809 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
363773 TAGCAATGGA
363783 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
363810 GATATTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:365331 original size:16 final size:16
Alignment explanation
Indices: 365310--365363 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
365300 CGCGTCCTTA
365310 GGATTTTTAGGACTTT
1 GGATTTTTAGGACTTT
* *
365326 GGA-TTTCAGGGATTTT
1 GGATTTTTA-GGACTTT
* *
365342 GGATTTTTGGGAGTTT
1 GGATTTTTAGGACTTT
365358 GGATTT
1 GGATTT
365364 CAGGGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 4 0.13
16 24 0.77
17 3 0.10
ACGTcount: A:0.17, C:0.04, G:0.31, T:0.48
Consensus pattern (16 bp):
GGATTTTTAGGACTTT
Found at i:365347 original size:32 final size:32
Alignment explanation
Indices: 365310--365374 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
365300 CGCGTCCTTA
365310 GGATTTTTAGGACTTTGGATTTCAGGGATTTT
1 GGATTTTTAGGACTTTGGATTTCAGGGATTTT
* *
365342 GGATTTTTGGGAGTTTGGATTTCAGGGATTTT
1 GGATTTTTAGGACTTTGGATTTCAGGGATTTT
365374 G
1 G
365375 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.05, G:0.32, T:0.46
Consensus pattern (32 bp):
GGATTTTTAGGACTTTGGATTTCAGGGATTTT
Found at i:365369 original size:16 final size:16
Alignment explanation
Indices: 365323--365374 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
365313 TTTTTAGGAC
365323 TTTGGATTTCAGGGAT
1 TTTGGATTTCAGGGAT
** *
365339 TTTGGATTTTTGGGAG
1 TTTGGATTTCAGGGAT
365355 TTTGGATTTCAGGGAT
1 TTTGGATTTCAGGGAT
365371 TTTG
1 TTTG
365375 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.15, C:0.04, G:0.33, T:0.48
Consensus pattern (16 bp):
TTTGGATTTCAGGGAT
Found at i:368622 original size:22 final size:22
Alignment explanation
Indices: 368580--368622 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
368570 GGGGGATCTA
*
368580 GGTGGCTGTAGGGTAGTTGGTT
1 GGTGGCTGTAGGGTAGCTGGTT
*
368602 GGTGGCTGTAGGGTGGCTGGT
1 GGTGGCTGTAGGGTAGCTGGT
368623 CGGGTAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.07, G:0.53, T:0.33
Consensus pattern (22 bp):
GGTGGCTGTAGGGTAGCTGGTT
Found at i:376134 original size:22 final size:22
Alignment explanation
Indices: 376109--376153 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
376099 AATTTCTATG
376109 TCTGTGTGTTTGTTGGTTTTAT
1 TCTGTGTGTTTGTTGGTTTTAT
376131 TCTGTGTGTTTGTTGGTTTTAT
1 TCTGTGTGTTTGTTGGTTTTAT
376153 T
1 T
376154 TTGCAAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.04, G:0.27, T:0.64
Consensus pattern (22 bp):
TCTGTGTGTTTGTTGGTTTTAT
Found at i:377324 original size:50 final size:50
Alignment explanation
Indices: 377249--377349 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
377239 TTTCTAAAAT
*
377249 AGCATTGTTCTTTATACATGTGGCATGTTGCTTGTGTTTAACTTAAATGC
1 AGCATTGTTCTTTATACATGTGGCATGTTGCTTATGTTTAACTTAAATGC
* *
377299 AGCATTGTTCTTTATATATGTGGCATGTTGTTTATGTTTAACTTAAATGC
1 AGCATTGTTCTTTATACATGTGGCATGTTGCTTATGTTTAACTTAAATGC
377349 A
1 A
377350 TATCACCTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (50 bp):
AGCATTGTTCTTTATACATGTGGCATGTTGCTTATGTTTAACTTAAATGC
Found at i:377686 original size:15 final size:14
Alignment explanation
Indices: 377649--377687 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
377639 AATATATATT
377649 TTTTTTATTTTTGA
1 TTTTTTATTTTTGA
*
377663 TTTTCTTATTTTTTA
1 TTTT-TTATTTTTGA
377678 TATTTTTATT
1 T-TTTTTATT
377688 GTATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTTGA
Found at i:377697 original size:8 final size:7
Alignment explanation
Indices: 377649--377687 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
377639 AATATATATT
377649 TTTTTTA
1 TTTTTTA
*
377656 TTTTTGA
1 TTTTTTA
377663 TTTTCTTA
1 TTTT-TTA
377671 TTTTTTA
1 TTTTTTA
377678 TATTTTTA
1 T-TTTTTA
377686 TT
1 TT
377688 GTATTTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 15 0.54
8 13 0.46
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:377772 original size:16 final size:17
Alignment explanation
Indices: 377753--377790 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
377743 TTTACTTATT
377753 TTTTTATGTGTTTTCA-
1 TTTTTATGTGTTTTCAC
* *
377769 TTTTTTTTTGTTTTCAC
1 TTTTTATGTGTTTTCAC
377786 TTTTT
1 TTTTT
377791 TCTTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTTATGTGTTTTCAC
Found at i:377773 original size:18 final size:16
Alignment explanation
Indices: 377750--377800 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 16
377740 TTTTTTACTT
377750 ATTTTTTTATGTGTTTTC
1 ATTTTTTT-T-TGTTTTC
377768 ATTTTTTTTTGTTTTC
1 ATTTTTTTTTGTTTTC
377784 ACTTTTTTCTTTGTTTT
1 A-TTTTTT-TTTGTTTT
377801 AAAATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 16 0.52
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (16 bp):
ATTTTTTTTTGTTTTC
Found at i:377791 original size:16 final size:16
Alignment explanation
Indices: 377761--377791 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
377751 TTTTTTTATG
*
377761 TGTTTTCATTTTTTTT
1 TGTTTTCACTTTTTTT
377777 TGTTTTCACTTTTTT
1 TGTTTTCACTTTTTT
377792 CTTTGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.77
Consensus pattern (16 bp):
TGTTTTCACTTTTTTT
Found at i:377808 original size:19 final size:17
Alignment explanation
Indices: 377750--377810 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
377740 TTTTTTACTT
*
377750 ATTTTTTTATGTGTTTT-C
1 ATTTTTTT-T-TGTTTTAA
*
377768 ATTTTTTTTTGTTTTCA
1 ATTTTTTTTTGTTTTAA
*
377785 CTTTTTTCTTTGTTTTAAA
1 ATTTTTT-TTTGTTTT-AA
377804 ATTTTTT
1 ATTTTTT
377811 ACAAAACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.17
17 7 0.19
18 16 0.44
19 7 0.19
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTTTTTTTGTTTTAA
Found at i:377991 original size:20 final size:20
Alignment explanation
Indices: 377955--377993 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
377945 TTTTCATAAA
*
377955 TCTTTTCTTTTTATTTTTAT
1 TCTTTTCTTATTATTTTTAT
377975 TCTTTTCTTAATT-TTTTTA
1 TCTTTTCTT-ATTATTTTTA
377994 CAAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (20 bp):
TCTTTTCTTATTATTTTTAT
Found at i:378136 original size:11 final size:10
Alignment explanation
Indices: 378118--378184 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 10
378108 TTTGTCTTTG
378118 ATTTTTTATATT
1 ATTTTTT-TA-T
*
378130 ATTTTTATATT
1 ATTTTTTTA-T
378141 ATTTTTTTAT
1 ATTTTTTTAT
378151 ATGTTTTTTA-
1 AT-TTTTTTAT
378161 ATTTTTTTA-
1 ATTTTTTTAT
378170 ATTTTTTTA-
1 ATTTTTTTAT
378179 ATTTTT
1 ATTTTT
378185 CCATTTCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
9 22 0.42
10 5 0.10
11 19 0.37
12 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.76
Consensus pattern (10 bp):
ATTTTTTTAT
Found at i:378145 original size:10 final size:11
Alignment explanation
Indices: 378120--378178 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
378110 TGTCTTTGAT
378120 TTTTTATATTA
1 TTTTTATATTA
378131 TTTTTATATTA
1 TTTTTATATTA
378142 TTTTTTTATATGT-
1 --TTTTTATAT-TA
378155 TTTTTA-ATT-
1 TTTTTATATTA
378164 TTTTTA-ATT-
1 TTTTTATATTA
378173 TTTTTA
1 TTTTTA
378179 ATTTTTCCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
9 16 0.36
10 2 0.04
11 17 0.38
13 9 0.20
14 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:378146 original size:24 final size:22
Alignment explanation
Indices: 378119--378184 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 22
378109 TTGTCTTTGA
378119 TTTTTTATAT-TATTTTTATATTAT
1 TTTTTTATATGT-TTTTTA-ATT-T
378143 TTTTTTATATGTTTTTTAA--T
1 TTTTTTATATGTTTTTTAATTT
378163 TTTTTTA-AT-TTTTTTAATTT
1 TTTTTTATATGTTTTTTAATTT
378183 TT
1 TT
378185 CCATTTCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
18 8 0.21
19 2 0.05
20 11 0.28
23 1 0.03
24 16 0.41
25 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTATATGTTTTTTAATTT
Found at i:378166 original size:9 final size:9
Alignment explanation
Indices: 378141--378184 Score: 70
Period size: 9 Copynumber: 4.7 Consensus size: 9
378131 TTTTTATATT
378141 ATTTTTTTA
1 ATTTTTTTA
378150 TATGTTTTTTA
1 -AT-TTTTTTA
378161 ATTTTTTTA
1 ATTTTTTTA
378170 ATTTTTTTA
1 ATTTTTTTA
378179 ATTTTT
1 ATTTTT
378185 CCATTTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 22 0.67
10 4 0.12
11 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:378346 original size:7 final size:6
Alignment explanation
Indices: 378248--378367 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
378238 CGCATTTTTC
* *
378248 TTTATT TTATATT TTATATT TTATATA TTT-TT TTTATT TATCT-TT TTTGTT
1 TTTATT TT-TATT TT-TATT TT-TATT TTTATT TTTATT T-T-TATT TTTATT
** *
378299 TTGCTT TAATATT TTT-TT TCTTA-T TTTATT TTTATT TTTATT TGTTATT
1 TTTATT T-TTATT TTTATT T-TTATT TTTATT TTTATT TTTATT T-TTATT
* *
378348 TCTT-TC TTTATT TATATT TT
1 T-TTATT TTTATT TTTATT TT
378368 CATAAATTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
5 13 0.14
6 42 0.47
7 34 0.38
8 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:378348 original size:36 final size:35
Alignment explanation
Indices: 378248--378367 Score: 84
Period size: 37 Copynumber: 3.2 Consensus size: 35
378238 CGCATTTTTC
*
378248 TTTATTTTATATTTTATATTTTATATATTTTTT-TTA-
1 TTTATTTT-TATTTT-TATTTT-TATTTTTTTTCTTAT
* * *
378284 TTTATCTTTTTTGTTTTGCTTTAATATTTTTTTTCTTAT
1 TTTAT-TTTTAT-TTTT-ATTT-TTATTTTTTTTCTTAT
*
378323 TTTATTTTTATTTTTATTTGTTA-TTTCTTTCTTTAT
1 TTTATTTTTATTTTTATTT-TTATTTTTTTTC-TTAT
378359 TTATATTTT
1 TT-TATTTT
378368 CATAAATTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
35 7 0.10
36 19 0.28
37 28 0.42
38 8 0.12
39 5 0.07
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (35 bp):
TTTATTTTTATTTTTATTTTTATTTTTTTTCTTAT
Found at i:378358 original size:31 final size:29
Alignment explanation
Indices: 378308--378367 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
378298 TTTGCTTTAA
*
378308 TATTTTTTTTCTTATTTTATTTTTATTTT
1 TATTTTTTTTCTTATTTTATTTATATTTT
378337 TATTTGTTATTTCTT-TCTTTATTTATATTTT
1 TATTT-TT-TTTCTTAT-TTTATTTATATTTT
378368 CATAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 5 0.19
30 3 0.11
31 19 0.70
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (29 bp):
TATTTTTTTTCTTATTTTATTTATATTTT
Found at i:378368 original size:19 final size:19
Alignment explanation
Indices: 378307--378368 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 19
378297 TTTTGCTTTA
*
378307 ATATTTTTTTTC-TTATTT
1 ATATTTTCTTTCTTTATTT
378325 -TATTTT-TATT-TTTATTT
1 ATATTTTCT-TTCTTTATTT
*
378342 GT-TATTTCTTTCTTTATTT
1 ATAT-TTTCTTTCTTTATTT
378361 ATATTTTC
1 ATATTTTC
378369 ATAAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
16 1 0.03
17 15 0.42
18 6 0.17
19 13 0.36
20 1 0.03
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
ATATTTTCTTTCTTTATTT
Found at i:378541 original size:17 final size:17
Alignment explanation
Indices: 378521--378562 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
378511 TCTTTTCATG
*
378521 TGTTTTATATATTTT-TT
1 TGTTTTACAT-TTTTCTT
378538 TGTTTTCACATTTTTCTT
1 TGTTTT-ACATTTTTCTT
378556 TGTTTTA
1 TGTTTTA
378563 AAAATTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (17 bp):
TGTTTTACATTTTTCTT
Found at i:378744 original size:15 final size:15
Alignment explanation
Indices: 378724--378753 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
378714 ATAAATCTTG
378724 TCTTTTCATTTTTAT
1 TCTTTTCATTTTTAT
*
378739 TCTTTTCTTTTTTAT
1 TCTTTTCATTTTTAT
378754 CTAACAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTTTTCATTTTTAT
Found at i:378789 original size:20 final size:18
Alignment explanation
Indices: 378766--378813 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
378756 AACAAATTTC
378766 TTTTTATTTCTTATA-TT
1 TTTTTATTTCTTATAGTT
*
378783 CATTTTTAAATTCTTATAGTT
1 --TTTTT-ATTTCTTATAGTT
378804 TTTTTATTTC
1 TTTTTATTTC
378814 ATTTTCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 4 0.16
19 10 0.40
20 9 0.36
21 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATTTCTTATAGTT
Found at i:378850 original size:762 final size:750
Alignment explanation
Indices: 377739--381400 Score: 4224
Period size: 784 Copynumber: 4.8 Consensus size: 750
377729 TTTTAAAATT
* * *
377739 TTTTTTTACTTATTTTTTTATGTG-TTTTCAT-T-TTTTTTTGTTTTCACTTTTTTCTTTGTTTT
1 TTTTTTTACTTATCTTTTCATGTGCTTTT-ATATATTTTTTTGTTTTCACATTTTTCTTTGTTTT
* * * *
377801 AAAATTTTTTACAAAAC---TTT-TCTTTTTATTTTATTTCATATTTTCGCCTCTTCATTTTTTA
65 AAAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTA
* * *
377862 TTTTTTCTTGTTTTTCTAATTTTTTTGAC--AGTTTTTTTTATTTCTTGTTTCCATTTTTTTTTA
130 TTTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCA-TTTTTTTTA
* * * * * *
377925 CACTTCCTTGAATTTTTTATTTTTCATAAATCTTTTCTTTTTATTTTTATTCTTTTCTTAATTTT
194 TACTTCTTTGGA--TTTT-TTTTTCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTAA-TTC
* *
377990 TTTACAAATTTTTTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAATTTTTTTTGTTGCATT
255 TTTACAAA-TTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTTTTTTGTTGCATT
*
378055 TTCTTCTTTTGTTTTCATTTTTATTTGGCATTAACTTTTCTCTTATTTATTTTTTTGTCTTTGAT
319 TTCTTCTTTTGTTTTCATTTTTATTTTG-ATTAACTTTTCTCTT-TTTATTTTTTTGTCTTTGAT
* * *
378120 TTTTTATATTATTTTTATATTATTTTTTTATATGTTTTTTAATTTTTTTAATTTTTTTAATTTTT
382 TTTTTATATTGTTTTT-TATTA-TTTTTTATATGTTTTTTAATTTTTTTCATTTTTTTCATTTTT
*
378185 CCATTTCATTTCATTTTTGTATTTTTGTATTTTTGATTTTCTTATA-TTTTTATCGCATTTTTCT
445 -CATTTCATTTCATTTTT-TATTTTTG-ATTTTTGA-TTTCTTATATTTTTTATCGCATTTTTGT
* *
378249 TTATTTTATATTTTATATTTTATATATTTTTTTTATTTATCTTTTTTGTTTTGCTTTAATATTTT
506 TTATTTTATATTTTATATTTT-T-T-TGTATTTTATTTATCTTTTTTGTTTTGCTTTAATA-TTT
378314 TTTTCTTATTTTATTTTTATTTTTATTTGTTATTTCTTTCTTTATTTATATTTTCATAAATTTTT
567 TTTTCTTATTTTATTTTTATTTTTATTT-TTATTTCTTTCTTTATTTATATTTTCATAAATTTTT
*
378379 ATCATGTTTTTTATTTTTTTTATCTTTCTATTTTTTTTTATTTATCATTATTGGTTATTTTTCGT
631 ATCATGTTTTTTATTTTTTTTATCTTTCTATTTTTTTTTATTTATCGTTATTGGTTATTTTTCGT
378444 TTTATTTTTATAATTTTTCATTAACTCTTTTTCCTTTTTCCTTTTAAATTTTTCA
696 TTTATTTTTATAATTTTTCATTAACTCTTTTTCCTTTTTCCTTTTAAATTTTTCA
378499 TTTTTTTACTTATCTTTTCATGTG-TTTTATATATTTTTTTGTTTTCACATTTTTCTTTGTTTTA
1 TTTTTTTACTTATCTTTTCATGTGCTTTTATATATTTTTTTGTTTTCACATTTTTCTTTGTTTTA
* * *
378563 AAAATTTCTACAAAACTGTTTTATCTTTTTATTTTATTTCATATTTTTGCCTTTTCATTTTTTAT
66 AAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTAT
*
378628 TTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTTCATTTTTTTTATA
131 TTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTTTTTTTATA
** * *
378693 CTTCTTTGGATTTTTTTTCTCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTTTTTATCTAA
196 CTTCTTTGGATTTTTTTT-TCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTCT-TTA
*
378758 CAAATTTCTTTTTATTTCTTATATTCATTTTTAAATTCTTATAGTTTTTTTAT-TT-CATTTTCT
259 CAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTTTTT-TGTTGCATTTTCT
* *
378821 TCTTTTGTTTTAATTTTTATTTTGCATTAACTTTTCTCATTTTTAATTTTTTGTCTTTGATTTTT
323 TCTTTTGTTTTCATTTTTATTTTG-ATTAACTTTTCTC-TTTTTATTTTTTTGTCTTTGATTTTT
* * * *
378886 TATATTGTTTTCTTATTA-TTTCT-TATGTTTTTCATTTTTTTTGTATTTTTTTCTATTTTCTCA
386 TATATTGTTTT-TTATTATTTTTTATATGTTTTTTAATTTTTTT-CATTTTTTTC-ATTTT-TCA
* * *
378949 TTTCATTTCATTTTATTTTTTATTTTTGATTTTCTTACTTCTTATATTTTTTATTGCATTTTTGT
447 TTTCATTTC-----ATTTTTTATTTTTGATTTT-TGATTTCTTATATTTTTTATCGCATTTTTGT
* * *
379014 TTATTTTATATTTTATATTTTATTGTATTTTATCTATCTTTTTTGCTTTGCTTTAATATTTTTTT
506 TTATTTTATATTTTATATTTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATA-TTTTTT
379079 TCTTATTTTATTTTTATTTTTTATTTTGGTTTATTTTTATTTTCTTTCTTTATTTATATTTTCAT
570 TC-----TTA-TTTTA-TTTTTA--TT--TTTATTTTTA-TTTCTTTCTTTATTTATATTTTCAT
* * * * **
379144 AAATTTTTAACATGTTTTTTA-TTTATTTATTTTTCTATCTTTTTTTT-TTTTTTTTTATCGTTG
623 AAATTTTTATCATGTTTTTTATTTTTTTTATCTTTCTAT-TTTTTTTTATTTATCGTTA---TTG
* * *
379207 GTTA-TTTTCAATTTTATTTTTATAATTTTTCATTAACTCTTTTTCTTTTTTTCTTTTAAATTTT
684 GTTATTTTTC-GTTTTATTTTTATAATTTTTCATTAACTCTTTTTCCTTTTTCCTTTTAAATTTT
*
379271 TTA
748 TCA
* *
379274 TTTTTTTACTTATCTTTTAATGTGCTTTCATATATTTTTTTTGTTTTCACATTTTTCTTTGTTTT
1 TTTTTTTACTTATCTTTTCATGTGCTTTTATATA-TTTTTTTGTTTTCACATTTTTCTTTGTTTT
* *
379339 AAAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGTCTATTCATTTTTTA
65 AAAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTA
379404 TTTTTTCTTGTTTCATATATTTTTGCTTTTTTATTTTTTATTTTTTCTTGGTTTTTTAATAATTT
130 TTTTTTCTTG---------TTTTT-C-----TA------A---------------TT--T--TTT
* * *
379469 TCACAAAATTCTTTTTATTTCTTGTTTCTATTTTTTTTTATACTTCCTAGGATTTTTTTTTTCAT
155 TCACAAAATTCTTTTTATTTCTTGTTTCCA-TTTTTTTTATACTTCTTTGGA-TTTTTTTTTCAT
*
379534 AAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTCATATT
218 AAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTC-TTTACAAATTTCTTTTTATTTCTTATT
** *
379599 TTCATTTTTAAATAAATAATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAGTT
282 TTCATTTTTAAAT-TCTTATAG-TTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTA-TT
** *** * * *
379664 TT--TTGGCTTAGAT-TTTTTATATTGTTT-TCTTATTATTTTTTATA-TGTTTTTCCATT-TTT
344 TTGATTAACTTTTCTCTTTTTAT-TTTTTTGTCTT-TGATTTTTTATATTGTTTTT-TATTATTT
* * * * *
379723 TTTAT-T-TTTTTT-CTATTTTTTCATTTCATTTCATTTGTC-TTT--TTTAATTTTTAATTTTT
406 TTTATATGTTTTTTAAT-TTTTTTCATTT-TTTTCATTTTTCATTTCATTTCATTTTTTATTTTT
* * *
379782 GA-TTTT-CTTACTTATATTTTTTATCGCATTTTTGTTTGTTTTATATTTTATA-TTTTTTGTAT
469 GATTTTTGATTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTAT
* * *
379844 TTTATTTATATTTTTTGTTTTGCTTTAATATTTCTTTCTTATTTTATTTTTA-----ATTTTAAT
534 TTTATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTTATTTTTAT
* * *
379904 CTCTTTCTTTATTTATATTTTCATAAATTTTTATCATG-TTTTTAATTTTTTTATTTTTCTATCT
599 TTCTTTCTTTATTTATATTTTCATAAATTTTTATCATGTTTTTTATTTTTTTTATCTTTCTA---
* * *
379968 TTTTTTTTTATTTATCGTTGTTGGTTATTTTTTGTTTTATTTTTGTAATTTTTCATTAACTCTTT
661 TTTTTTTTTATTTATCGTTATTGGTTATTTTTCGTTTTATTTTTATAATTTTTCATTAACTCTTT
380033 TTCCTTTTT-CTTTTAAATTTTTCA
726 TTCCTTTTTCCTTTTAAATTTTTCA
* * *
380057 CTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTTTGTTTTCACATTTTTCTTTGTTT
1 TTTTTTTACTTATCTTTTCATGTGCTTT--TATATATTTTTTTGTTTTCACATTTTTCTTTGTTT
* * *
380122 TAAAAATTTCTATAAAACTATTTTATCTTTTTATTTTGTTTCATATTTTTGCCTTTTCATTTTTT
64 TAAAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTT
* * *
380187 CTTTTTTCTTGTGTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTATTTTTA
129 ATTTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTTTTTTTA
* *
380252 TACTTCTTAGGATTTTTTTTTCATAAATTTTGTCTTTTCATTTTTATTCTTTTCTTAATTCTTTT
194 TACTTCTTTGGATTTTTTTTTCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTC-TTT
*
380317 ACAAATTTCTTTTTATTTCTTGTTTTCATTTTTAAATTCTTATAGTTTTTTTTTGTTGCATTTTC
258 ACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAG-TTTTTTTTGTTGCATTTTC
** ** * *
380382 TTCTTTTGTTTTCATTTTTAATTTT--TTGGCTTTGAT-TTTTTATATTGTTT-TCTTATTATTT
322 TTCTTTTGTTTTCATTTTT-ATTTTGATTAACTTTTCTCTTTTTAT-TTTTTTGTCTT-TGATTT
* * * *
380443 TTTATA-TGTTTTTCA--ATTTTTTGTAT-TTTTTT-ATATTTTCTCATTTCATTTCATTCTTTC
384 TTTATATTGTTTTTTATTATTTTTTATATGTTTTTTAAT-TTTTTTCATTT-TTTTCATT-TTTC
* * * *
380503 -TTT--TTTTATTTTTTATTTTTGATTTTCTTACTTCTTATATTTTTTATCGTATTTTTGTTTAT
446 ATTTCATTTCATTTTTTATTTTTGATTTT-TGATTTCTTATATTTTTTATCGCATTTTTGTTTAT
*
380565 TTTATATTTTATATTTTTTTGTATTTTATTTATCTTTTTTGTTTTACTTTAATATTTTTTTC---
510 TTTATATTTTATATTTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTA
* * *
380627 --TTA-TTTTATTTTTGTTTTT-TTTCTTTTTTTATTTATATTTTAATAAATTTTTATCATGTTT
575 TTTTATTTTTATTTTTATTTTTATTTCTTTCTTTATTTATATTTTCATAAATTTTTATCATGTTT
** * *
380688 TTT-TTAATTTT-TCTATCT-TTTTTTTTTATTTATCGTTGTTGGTTATTTTTTC-TTTTATTTT
640 TTTATTTTTTTTATCTTTCTATTTTTTTTTATTTATCGTTATTGGTTA-TTTTTCGTTTTATTTT
380749 TATAATTTTTCATTAACTCTTTCTT-CTTTTTCCTTTTAAATTTTTCA
704 TATAATTTTTCATTAACTCTTT-TTCCTTTTTCCTTTTAAATTTTTCA
* * *
380796 TTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTGTTTCCACATTTTTCTTTGTTTTA
1 TTTTTTTACTTATCTTTTCATGTGCTTTTATATATTTTTTTGTTTTCACATTTTTCTTTGTTTTA
* *
380861 AAAATATCTACAAAACTTTTTTTTCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTA-
66 AAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTAT
* *
380925 TTTTTCTTGTTTTTTTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATATTTTTTATA
131 TTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTTTTTTTATA
*
380990 CTTCTTTGGATTTTTTTTTCATAAA-----TCTTTTCATTTTTATTCTTCTCTTAATTCTTTACA
196 CTTCTTTGGATTTTTTTTTCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTCTTTACA
*
381050 AATTTTTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTTTTGTTGTTGCATTTTCTTC
261 AATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTTTT-TTGTTGCATTTTCTTC
* *
381115 TTTTGTTTTCATTTTTAATTTGTATTAACTTTTCTCATTTTTAATTTTTTGTCTTTGATTTTTTA
325 TTTTGTTTTCATTTTTATTTTG-ATTAACTTTTCTC-TTTTTATTTTTTTGTCTTTGATTTTTTA
* * ** *
381180 TATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTTTTTGTTTTTTTTTTGTATGTTTTTCAT
388 TATTG-TTTTTTATTATTTTTTATATGTTTTTTAATTTTTT-TCATTTTTTT-CA--TTTTTCAT
* *
381245 TTCATTTCATTTTTCTCTTTTTTTTTTATTTTTGATTTTCTTACTTCTTATATTTTTTATCGCAT
448 TTCATTTCA------------TTTTTTATTTTTGATTTT-TGATTTCTTATATTTTTTATCGCAT
* *
381310 TTTTATTTATTTTATATTATATATATTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATA
500 TTTTGTTTATTTTATATTTTATAT-TTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATA
381375 TTTTTTTCTTATTTTATTTTTATTTT
564 TTTTTTTCTTATTTTATTTTTATTTT
381401 CATAAATTTT
Statistics
Matches: 2545, Mismatches: 196, Indels: 320
0.83 0.06 0.10
Matches are distributed among these distances:
729 10 0.00
730 78 0.03
731 28 0.01
732 7 0.00
733 16 0.01
734 12 0.00
735 6 0.00
736 85 0.03
737 103 0.04
738 75 0.03
739 68 0.03
740 37 0.01
741 124 0.05
742 96 0.04
743 65 0.03
744 82 0.03
745 45 0.02
746 1 0.00
748 2 0.00
755 65 0.03
756 47 0.02
759 19 0.01
760 39 0.02
761 63 0.02
762 132 0.05
763 58 0.02
764 61 0.02
765 114 0.04
766 24 0.01
767 24 0.01
768 5 0.00
769 8 0.00
771 2 0.00
772 25 0.01
773 60 0.02
774 6 0.00
775 87 0.03
776 8 0.00
777 101 0.04
783 46 0.02
784 197 0.08
785 13 0.01
786 13 0.01
787 8 0.00
792 2 0.00
794 6 0.00
795 5 0.00
796 3 0.00
798 1 0.00
801 7 0.00
802 36 0.01
803 41 0.02
804 1 0.00
805 3 0.00
806 14 0.01
811 3 0.00
813 5 0.00
814 2 0.00
815 10 0.00
816 16 0.01
817 55 0.02
818 110 0.04
819 21 0.01
820 9 0.00
821 26 0.01
822 4 0.00
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.69
Consensus pattern (750 bp):
TTTTTTTACTTATCTTTTCATGTGCTTTTATATATTTTTTTGTTTTCACATTTTTCTTTGTTTTA
AAAATTTCTACAAAACTTTTTTATCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTAT
TTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTTTTTTTATA
CTTCTTTGGATTTTTTTTTCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTCTTTACA
AATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTTTTTTGTTGCATTTTCTTCT
TTTGTTTTCATTTTTATTTTGATTAACTTTTCTCTTTTTATTTTTTTGTCTTTGATTTTTTATAT
TGTTTTTTATTATTTTTTATATGTTTTTTAATTTTTTTCATTTTTTTCATTTTTCATTTCATTTC
ATTTTTTATTTTTGATTTTTGATTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTA
TATTTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTA
TTTTTATTTTTATTTCTTTCTTTATTTATATTTTCATAAATTTTTATCATGTTTTTTATTTTTTT
TATCTTTCTATTTTTTTTTATTTATCGTTATTGGTTATTTTTCGTTTTATTTTTATAATTTTTCA
TTAACTCTTTTTCCTTTTTCCTTTTAAATTTTTCA
Found at i:379096 original size:23 final size:23
Alignment explanation
Indices: 379070--379140 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
379060 TTTGCTTTAA
379070 TATTTTTTTTCTTATTTTATTTT
1 TATTTTTTTTCTTATTTTATTTT
**
379093 TATTTTTTATT-TTGGTTTATTTT
1 TATTTTTT-TTCTTATTTTATTTT
*
379116 TATTTTCTTTCTTTATTTATATTTT
1 TATTTTTTTTC-TTATTT-TATTTT
379141 CATAAATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 2 0.05
23 25 0.64
24 6 0.15
25 6 0.15
ACGTcount: A:0.14, C:0.04, G:0.03, T:0.79
Consensus pattern (23 bp):
TATTTTTTTTCTTATTTTATTTT
Found at i:379105 original size:29 final size:29
Alignment explanation
Indices: 378880--379105 Score: 72
Period size: 29 Copynumber: 7.4 Consensus size: 29
378870 TTTGTCTTTG
378880 ATTTTTTATATTGTTTTCTTA--TTATTTCTT
1 ATTTTTTAT-TT-TTTTCTTATTTTATTT-TT
*
378910 ATGTTTTTCATTTTTTT-TGTATTTT-TTTCT
1 AT-TTTTT-ATTTTTTTCT-TATTTTATTTTT
* *
378940 ATTTTCTCATTTCATTTC--ATTTTATTTTTT
1 ATTTT-TTATTT-TTTTCTTATTTTA-TTTTT
* * * *
378970 ATTTTTGATTTTCTTACTTCTTATATTTTT
1 ATTTTTTATTTT-TTTCTTATTTTATTTTT
* ** *
379000 -TATTGCATTTTTGT-TTATTTTATATTTT
1 ATTTTTTATTTTTTTCTTATTTTAT-TTTT
* * *
379028 ATATTTTATTGTATTTTATCTATCTTTTTTGCTTT
1 ATTTTTTATT-T-TTTTCT-TAT-TTTATT--TTT
* **
379063 GCTTTAATATTTTTTTTCTTATTTTATTTTT
1 -ATTTTTTA-TTTTTTTCTTATTTTATTTTT
379094 ATTTTTTATTTT
1 ATTTTTTATTTT
379106 GGTTTATTTT
Statistics
Matches: 143, Mismatches: 29, Indels: 49
0.65 0.13 0.22
Matches are distributed among these distances:
27 7 0.05
28 10 0.07
29 35 0.24
30 35 0.24
31 20 0.14
32 5 0.03
33 9 0.06
34 7 0.05
35 8 0.06
36 5 0.03
37 2 0.01
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.73
Consensus pattern (29 bp):
ATTTTTTATTTTTTTCTTATTTTATTTTT
Found at i:379420 original size:38 final size:40
Alignment explanation
Indices: 379373--379453 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
379363 TCTTTTTATT
379373 TTGTTTC--ATATTTTTG-TCTATTCATTTTTTATTTTTTC
1 TTGTTTCATATATTTTTGCT-TATTCATTTTTTATTTTTTC
* *
379411 TTGTTTCATATATTTTTGCTTTTTTATTTTTTATTTTTTC
1 TTGTTTCATATATTTTTGCTTATTCATTTTTTATTTTTTC
379451 TTG
1 TTG
379454 GTTTTTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 7 0.18
40 30 0.79
41 1 0.03
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.73
Consensus pattern (40 bp):
TTGTTTCATATATTTTTGCTTATTCATTTTTTATTTTTTC
Found at i:379695 original size:22 final size:22
Alignment explanation
Indices: 379670--379713 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
379660 AGTTTTTTGG
379670 CTTA-GATTTTTTATATTGTTTT
1 CTTATGATTTTTTATA-TGTTTT
*
379692 CTTATTATTTTTTATATGTTTT
1 CTTATGATTTTTTATATGTTTT
379714 TCCATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (22 bp):
CTTATGATTTTTTATATGTTTT
Found at i:379724 original size:20 final size:20
Alignment explanation
Indices: 379675--379743 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
379665 TTTGGCTTAG
* *
379675 ATTTTTTATATTG-TTTTCTT
1 ATTTTTTTTATTGTTTTTC-C
379695 ATTATTTTTTATATGTTTTTCC
1 ATT-TTTTTTAT-TGTTTTTCC
* *
379717 ATTTTTTTTATTTTTTTTCT
1 ATTTTTTTTATTGTTTTTCC
379737 ATTTTTT
1 ATTTTTT
379744 CATTTCATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 17 0.40
21 15 0.36
22 5 0.12
23 5 0.12
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (20 bp):
ATTTTTTTTATTGTTTTTCC
Found at i:379748 original size:19 final size:18
Alignment explanation
Indices: 379697--379748 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
379687 GTTTTCTTAT
*
379697 TATTTTTTATATGTTTTTCC
1 TATTTTTTAT-T-TTTTTTC
*
379717 ATTTTTTTTATTTTTTTTC
1 -TATTTTTTATTTTTTTTC
379736 TATTTTTTCATTT
1 TATTTTTT-ATTT
379749 CATTTCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.26
19 10 0.37
20 1 0.04
21 9 0.33
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (18 bp):
TATTTTTTATTTTTTTTC
Found at i:379853 original size:20 final size:20
Alignment explanation
Indices: 379828--379892 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
379818 TGTTTTATAT
379828 TTTATATTTTTTGTATTTTA
1 TTTATATTTTTTGTATTTTA
**
379848 TTTATATTTTTTGT-TTTGC
1 TTTATATTTTTTGTATTTTA
*
379867 TTTAATATTTCTTTCTTATTTTA
1 TTT-ATATTT-TTT-GTATTTTA
379890 TTT
1 TTT
379893 TTAATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.17
20 20 0.56
21 3 0.08
22 1 0.03
23 6 0.17
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTATATTTTTTGTATTTTA
Found at i:380480 original size:19 final size:20
Alignment explanation
Indices: 380416--380481 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 20
380406 TTTGGCTTTG
*
380416 ATTTTTTATATTGTTTTCTTATT
1 ATTTTTTATA-TGTTTT-TCA-T
380439 ATTTTTTATATGTTTTTCA-
1 ATTTTTTATATGTTTTTCAT
* *
380458 ATTTTTTGTAT-TTTTTTAT
1 ATTTTTTATATGTTTTTCAT
380477 ATTTT
1 ATTTT
380482 CTCATTTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.15
19 15 0.38
21 2 0.05
22 6 0.15
23 10 0.26
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTTATATGTTTTTCAT
Found at i:380516 original size:7 final size:7
Alignment explanation
Indices: 380504--380583 Score: 54
Period size: 7 Copynumber: 10.9 Consensus size: 7
380494 CATTCTTTCT
380504 TTTTTTA
1 TTTTTTA
380511 TTTTTTA
1 TTTTTTA
*
380518 TTTTTGA
1 TTTTTTA
380525 TTTTCTTA
1 TTTT-TTA
*
380533 CTTCTTATA
1 -TT-TTTTA
380542 TTTTTTA
1 TTTTTTA
*
380549 TCGTATTT-
1 T--TTTTTA
*
380557 TTGTTTA
1 TTTTTTA
*
380564 TTTTATA
1 TTTTTTA
*
380571 TTTTATA
1 TTTTTTA
380578 TTTTTT
1 TTTTTT
380584 TGTATTTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
6 4 0.07
7 39 0.67
8 5 0.09
9 8 0.14
10 2 0.03
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:380622 original size:19 final size:16
Alignment explanation
Indices: 380552--380654 Score: 56
Period size: 15 Copynumber: 6.4 Consensus size: 16
380542 TTTTTTATCG
380552 TATTTTTG-TTTATTT
1 TATTTTTGTTTTATTT
* *
380567 TA-TATT-TTATATTT
1 TATTTTTGTTTTATTT
* *
380581 T-TTTGTATTTTATTT
1 TATTTTTGTTTTATTT
*
380596 ATCTTTTTTGTTTTACTTT
1 -T-ATTTTTGTTTTA-TTT
380615 AATATTTTT-TTCTTATTT
1 --TATTTTTGTT-TTATTT
380633 TATTTTTGTTTT-TTT
1 TATTTTTGTTTTATTT
*
380648 TCTTTTT
1 TATTTTT
380655 TTATTTATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
14 12 0.17
15 18 0.26
16 10 0.14
17 2 0.03
18 14 0.20
19 11 0.16
20 2 0.03
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.78
Consensus pattern (16 bp):
TATTTTTGTTTTATTT
Found at i:380625 original size:23 final size:22
Alignment explanation
Indices: 380572--380667 Score: 83
Period size: 23 Copynumber: 4.5 Consensus size: 22
380562 TATTTTATAT
*
380572 TTTATATTTTTTT-GTATTTTA
1 TTTATATTTTTTTCTTATTTTA
* * *
380593 TTTATCTTTTTTGTTTTACTTTA
1 TTTATATTTTTT-TCTTATTTTA
380616 ---ATATTTTTTTCTTATTTTA
1 TTTATATTTTTTTCTTATTTTA
* * *
380635 TTTTTGTTTTTTTTCTTTTTTTA
1 TTTAT-ATTTTTTTCTTATTTTA
380658 TTTATATTTT
1 TTTATATTTT
380668 AATAAATTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 8 0.14
20 8 0.14
21 11 0.19
22 6 0.10
23 25 0.43
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTATATTTTTTTCTTATTTTA
Found at i:380696 original size:21 final size:20
Alignment explanation
Indices: 380672--380712 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
380662 TATTTTAATA
*
380672 AATTTTTATCATGTTTTTTTT
1 AATTTTTAT-ATCTTTTTTTT
*
380693 AATTTTTCTATCTTTTTTTT
1 AATTTTTATATCTTTTTTTT
380713 TTATTTATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (20 bp):
AATTTTTATATCTTTTTTTT
Found at i:380699 original size:22 final size:22
Alignment explanation
Indices: 380674--380715 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
380664 TTTTAATAAA
380674 TTTT-TATCATGTTTTTTTTAAT
1 TTTTCTATC-TGTTTTTTTTAAT
*
380696 TTTTCTATCTTTTTTTTTTA
1 TTTTCTATCTGTTTTTTTTA
380716 TTTATCGTTG
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:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTCTATCTGTTTTTTTTAAT
Found at i:381201 original size:737 final size:737
Alignment explanation
Indices: 379396--381400 Score: 2835
Period size: 741 Copynumber: 2.7 Consensus size: 737
379386 TTGTCTATTC
* * * * *
379396 ATTTTTTATTTTT-TCTTGTTTCATATATTTTTGCTTTTTTATTTTTTATTTTTTCTTGGTTTTT
1 ATTTTTTCTTTTTATTTTGTTTCAT--ATTTTTGCCTTTTCATTTTTTA-TTTTTCTTGTTTTTT
** * *
379460 TAATAATTTTCACAAAATTCTTTTTATTTCTTGTTTCTATTTTTTTTTATACTTCCTAGGATTTT
63 TAATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCA--TTTTTTTATACTTCTTAGGA-TTT
379525 TTTTTTCATAAATCTTGTCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTA
125 TTTTTTCATAAA---T-TCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTA
* ** *
379590 TTTCATATTTTCATTTTTAAATAAATAATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCA
186 TTTCTTATTTTCATTTTTAAAT-TCTTATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCA
* * *
379655 TTTTTAGTTTTTTGGCTTAGATTTTTTATATTGTTTTCTTATTATTTTTTATATGTTTTTCCATT
250 TTTTTAATTTTTTGGCTTTGATTTTTTATATTGTTTTCTTATTATTTTTTATATGTTTTTTCATT
* * * * *
379720 -TTTTTTAT-TTTTTTTCTATTTTTTCATTTCATTTCATT-TGTCTTTTTTAATTTTTAATTTTT
315 ATTTTTTGTATTTTTTTATATTTTTTCATTTCATTTCATTCTTTCTTTTTTTATTTTTTATTTTT
*
379782 GATTTTCTTA---CTTATATTTTTTATCGCATTTTTGTTTGTTTTATATTTTATA-TTTTTTGTA
380 GATTTTCTTACTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTA
* *
379843 TTTTATTTATATTTTTTGTTTTGCTTTAATATTTCTTTCTTATTTTATTTTTAATTTTAATCTCT
445 TTTTATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTT-ATTTTAATCTCT
* *
379908 TTCTTTATTTATATTTTCATAAATTTTTATCATGTTTTTAATTTTTTTATTTTTCTATCTTTTTT
509 TTCTTTATTTATATTTTAATAAATTTTTATCATG--TTT-ATTTTTTAATTTTTCTATCTTTTTT
* *
379973 TTTTATTTATCGTTGTTGGTTATTTTTTGTTTTATTTTTGTAATTTTTCATTAACTCTTTTTCCT
571 TTTTATTTATCGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTCTTTTTCCT
380038 TTTTCTTTTAAATTTTTCACTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTTTGTT
636 TTTTCTTTTAAATTTTTCACTTTTTTACTTATCTTTTCATGTGCTTTCATA-TTTTTTTTTTGTT
* * *
380103 TTCACATTTTTCTTTGTTTTAAAAATTTCTATAAAACT
700 TCCACATTTTTCTTTGTTTTAAAAATATCTACAAAACT
* * * *
380141 ATTTTATCTTTTTATTTTGTTTCATATTTTTGCCTTTTCATTTTTTCTTTTTTCTTGTGTTTCTA
1 ATTTTTTCTTTTTATTTTGTTTCATATTTTTGCCTTTTCATTTTTT-ATTTTTCTTGTTTTTTTA
380206 ATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTATTTTTATACTTCTTAGGATTTTTTT
65 ATTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATT-TTTTTATACTTCTTAGGATTTTTTT
380271 TTCATAAATTTTGTCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTC
129 TTCATAAA---T-TCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTC
*
380336 TTGTTTTCATTTTTAAATTCTTATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTT
190 TTATTTTCATTTTTAAATTCTTATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTT
380401 AATTTTTTGGCTTTGATTTTTTATATTGTTTTCTTATTATTTTTTATATG-TTTTTCA--ATTTT
255 AATTTTTTGGCTTTGATTTTTTATATTGTTTTCTTATTATTTTTTATATGTTTTTTCATTATTTT
*
380463 TTGTATTTTTTTATATTTTCTCATTTCATTTCATTCTTTCTTTTTTTATTTTTTATTTTTGATTT
320 TTGTATTTTTTTATATTTTTTCATTTCATTTCATTCTTTCTTTTTTTATTTTTTATTTTTGATTT
*
380528 TCTTACTTCTTATATTTTTTATCGTATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTTTA
385 TCTTACTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTTTA
* * * * *
380593 TTTATCTTTTTTGTTTTACTTTAATATTTTTTTCTTATTTTATTTTTGTTTT-TTTTCTTTTTTT
450 TTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTAATCTCTTTCTTT
380657 ATTTATATTTTAATAAATTTTTATCATG-TT-TTTTTTAATTTTTCTATCTTTTTTTTTTATTTA
515 ATTTATATTTTAATAAATTTTTATCATGTTTATTTTTTAATTTTTCTATCTTTTTTTTTTATTTA
380720 TCGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTCTTTCTT-CTTTTTCCTT
580 TCGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTCTTT-TTCCTTTTT-CTT
*
380784 TTAAATTTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATA-TTTTTTTTTGTTTCCACATT
643 TTAAATTTTTCACTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTTGTTTCCACATT
380848 TTTCTTTGTTTTAAAAATATCTACAAAACT
708 TTTCTTTGTTTTAAAAATATCTACAAAACT
* *
380878 TTTTTTTCTTTTTATTTTGTTTCATATTTTTGCCTCTTCATTTTTTATTTTTCTTGTTTTTTTAA
1 ATTTTTTCTTTTTATTTTGTTTCATATTTTTGCCTTTTCATTTTTTATTTTTCTTGTTTTTTTAA
*
380943 TTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATATTTTTTATACTTCTTTGGATTTTTTTT
66 TTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCAT-TTTTTTATACTTCTTAGGATTTTTTTT
* *
381008 TCATAAA-TCTTTTCATTTTTATTCTTCTCTTAATTC-TTTACAAATTTTTTTTTATTTCTTATT
130 TCATAAATTCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTCTTATT
*
381071 TTCATTTTTAAATTCTTATAGTTTTTTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTT
195 TTCATTTTTAAATTCTTATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTT
** ** * * *
381136 GTATTAACTTTTCTCATTTTTA-ATTTTTTGTCTT-TGATTTTTTATATTGTTTTTTTATTATTT
260 -T-TTGGCTTTGAT--TTTTTATATTGTTT-TCTTATTATTTTTTATA-TGTTTTTTCATTATTT
* * ** *
381199 TTTGTATGTTTTTCAATTTTTTGTTTTTTTTTTGTATGTTTTTCATTTCATTTCATTTTTCTCTT
319 TTTGTA--TTTTT---TTATAT-TTTTTCATTT-CA----TTTCA-TTC-TTTC---TTT-T-TT
* * *
381264 TTTTTTTTATTTTTGATTTTCTTACTTCTTATATTTTTTATCGCATTTTTATTTATTTTATATTA
366 TATTTTTTATTTTTGATTTTCTTACTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTT
381329 TATATATTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTT
431 TATAT-TTTTTTGTATTTTATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTT
381394 TTATTTT
495 TTATTTT
381401 CATAAATTTT
Statistics
Matches: 1144, Mismatches: 75, Indels: 71
0.89 0.06 0.06
Matches are distributed among these distances:
730 89 0.08
731 29 0.03
732 7 0.01
733 17 0.01
734 12 0.01
735 6 0.01
736 85 0.07
737 101 0.09
738 87 0.08
739 60 0.05
740 36 0.03
741 123 0.11
742 93 0.08
743 60 0.05
744 112 0.10
745 69 0.06
746 10 0.01
748 5 0.00
749 3 0.00
750 4 0.00
753 3 0.00
754 1 0.00
755 68 0.06
756 64 0.06
ACGTcount: A:0.17, C:0.09, G:0.05, T:0.69
Consensus pattern (737 bp):
ATTTTTTCTTTTTATTTTGTTTCATATTTTTGCCTTTTCATTTTTTATTTTTCTTGTTTTTTTAA
TTTTTTTCACAAAATTCTTTTTATTTCTTGTTTCCATTTTTTTATACTTCTTAGGATTTTTTTTT
CATAAATTCTTTTCATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTCTTATTT
TCATTTTTAAATTCTTATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTT
TTGGCTTTGATTTTTTATATTGTTTTCTTATTATTTTTTATATGTTTTTTCATTATTTTTTGTAT
TTTTTTATATTTTTTCATTTCATTTCATTCTTTCTTTTTTTATTTTTTATTTTTGATTTTCTTAC
TTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTTTATTTATC
TTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTAATCTCTTTCTTTATTTAT
ATTTTAATAAATTTTTATCATGTTTATTTTTTAATTTTTCTATCTTTTTTTTTTATTTATCGTTG
TTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTCTTTTTCCTTTTTCTTTTAAATTT
TTCACTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTTGTTTCCACATTTTTCTTTG
TTTTAAAAATATCTACAAAACT
Found at i:381229 original size:19 final size:17
Alignment explanation
Indices: 381182--381230 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
381172 ATTTTTTATA
381182 TTGTTTTTTTATTATTTT
1 TTGTTTTTTT-TTATTTT
**
381200 TTGTATGTTTTTCAATTTT
1 TTGT-T-TTTTTTTATTTT
381219 TTGTTTTTTTTT
1 TTGTTTTTTTTT
381231 TGTATGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 10 0.40
20 5 0.20
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (17 bp):
TTGTTTTTTTTTATTTT
Found at i:381349 original size:20 final size:20
Alignment explanation
Indices: 381313--381362 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
381303 ATCGCATTTT
381313 TATTTATTT-TATATTATATA
1 TATTT-TTTGTATATTATATA
* *
381333 TATTTTTTGTATTTTATTTA
1 TATTTTTTGTATATTATATA
*
381353 TCTTTTTTGT
1 TATTTTTTGT
381363 TTTGCTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TATTTTTTGTATATTATATA
Found at i:381378 original size:20 final size:20
Alignment explanation
Indices: 381331--381380 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
381321 TTATATTATA
*
381331 TATATTTTTTGTATTTTATT
1 TATATTTTTTGTATTTGATT
* *
381351 TATCTTTTTTGT-TTTGCTT
1 TATATTTTTTGTATTTGATT
381370 TAATATTTTTT
1 T-ATATTTTTT
381381 TCTTATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (20 bp):
TATATTTTTTGTATTTGATT
Found at i:381441 original size:29 final size:29
Alignment explanation
Indices: 381409--381469 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
381399 TTCATAAATT
** *
381409 TTTATC-ATGTTTTTTATTTTTTATTTTTA
1 TTTATCGATGTTGGTTATTTTTT-GTTTTA
*
381438 TTTATCGTTGTTGGTTATTTTTTGTTTTA
1 TTTATCGATGTTGGTTATTTTTTGTTTTA
381467 TTT
1 TTT
381470 TTATAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (29 bp):
TTTATCGATGTTGGTTATTTTTTGTTTTA
Found at i:381547 original size:18 final size:18
Alignment explanation
Indices: 381526--381563 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
381516 TCTTTTCATG
* *
381526 TGCTTTCATATTTTTTTT
1 TGCTTTCACATTTTTCTT
381544 TGCTTTCACATTTTTCTT
1 TGCTTTCACATTTTTCTT
381562 TG
1 TG
381564 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.16, G:0.08, T:0.66
Consensus pattern (18 bp):
TGCTTTCACATTTTTCTT
Found at i:381873 original size:707 final size:713
Alignment explanation
Indices: 379420--382108 Score: 3085
Period size: 707 Copynumber: 3.7 Consensus size: 713
379410 CTTGTTTCAT
* * * **
379420 ATATTTTTGCTTTTTTATTTTTTATTTTTTCTTGGTTTTT-TAATAATTTTCACAAAATTCTTTT
1 ATATTTTTGCCTCTTCATTTTTTA-TTTTTCTT-GTTTTTCTAATTTTTTTCACAAAATTCTTTT
* * * * *
379484 TATTTCTTGTTTCTATTTTTTTTTATACTTCCTAGGATTTTTTTTTTCATAAATCTTGTCTTTTC
64 TATTTCTTGTTTCCA-TATTTTTTATACTACTTTGGA-TTTTTTTTTCATAAA-----TCTTTTC
* * * *
379549 ATTTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTCATATTTTCATTTTTAAATAA
122 ATTTTTATTCTTCTCCTAATTC-TTTACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAAT-T
* * *
379614 ATAATAGTTTTTTTTTGTTGCATTTTCTTCTTTTGTTTTCATTTTT-A---G-------------
185 CTTATAGTTTTTTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGCATTAACTTTTCT
* * * * *
379662 ---------TTTTTTGGCTTAGATTTTTTATATTGTTTTCTTATTATTTTTTATATGTTTTTCCA
250 CATTTTTAATTTTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAA
* *
379718 TTTTTT-TTATTTTTTTTCTATTTTTTCATTTCATTTCATTTGTCT-TTTTTAATTTTTAATTTT
315 TTTTTTGTT-TTTTTTTTGTATTTTTTCATTTCATTTCATTTTTCTCTTTTT--TTTTT-ATTTT
*
379781 TGATTTTCTTA---CTTATATTTTTTATCGCATTTTTGTTTGTTTTATATTTTATA-TTTTTTGT
376 TGATTTTCTTACTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGT
* *
379842 ATTTTATTTATATTTTTTGTTTTGCTTTAATATTTCTTTCTTATTTTATTTTTAATTTTAATCTC
441 ATTTTATTTATCTTTTTTGTTTTGCTTTAATA---------T-TTTT-TTCTT-ATTTT-A----
*
379907 TTTCTTTATTTATATTTTCATAAATTTTTATCATGTTTTTAATTTTTTTATTTTTCTATCTTTTT
489 ------T-TTT-TATTTTCATAAATTTTTATCATG----T--TTTTTTAATTTTTCTA------T
* *
379972 TTTTTATTTATCGTTGTTGGTTATTTTTTGTTTTATTTTTGTAATTTTTCATTAACTCTTTTTCC
534 TTTTTATTTATCGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTC--TTT-C
** *
380037 TTTTTCTTTTAAATTTTTCACTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTTTGT
596 ---TTC---T-CCTTTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATA--TTTTTTTTTGT
* * * **
380102 TTTCACATTTTTCTTTGTTTTAAAAATTTCTATAAAACTATTTT-ATCTTTTTATTTTGTTTC
652 TTCCACATTTTTCTTTGTTTTAAAAATATCTACAAAACT-TTTTCATCTTTTTATTTAATTTC
* * *
380164 ATATTTTTGCCTTTTCATTTTTTCTTTTTTCTTGTGTTTCTAATTTTTTTCACAAAATTCTTTTT
1 ATATTTTTGCCTCTTCATTTTTT-ATTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTT
* *
380229 ATTTCTTGTTTCCAT-TATTTTTATACTTCTTAGGATTTTTTTTTCATAAATTTTGTCTTTTCAT
65 ATTTCTTGTTTCCATAT-TTTTTATACTACTTTGGATTTTTTTTTCATAAA-----TCTTTTCAT
* * *
380293 TTTTATTCTTTTCTTAATTCTTTTACAAATTTCTTTTTATTTCTTGTTTTCATTTTTAAATTCTT
124 TTTTATTCTTCTCCTAATTC-TTTACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTT
*
380358 ATAGTTTTTTTTTGTTGCA--TT-TTC-------TTC-----T--TTTG--------TTT-TCAT
188 ATAGTTTTTTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGCATTAACTTTTCTCAT
* * *
380397 TTTTAATTTTTTGGCTTTGATTTTTTATATTGTTTTCTTATTATTTTTTATATGTTTTTCAATTT
253 TTTTAATTTTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTT
* * * *
380462 TTTG-TATTTTTTTATATTTTCTCATTTCATTTCATTCTTTCTTTTTTTATTTTTTATTTTTGAT
318 TTTGTTTTTTTTTTGTATTTTTTCATTTCATTTCATT-TTTC-TCTTTT-TTTTTTATTTTTGAT
*
380526 TTTCTTACTTCTTATATTTTTTATCGTATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTT
380 TTTCTTACTTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTT
*
380591 TATTTATCTTTTTTGTTTTACTTTAATATTTTTTTCTTATTTTATTTTTGTTTTTTTTCTTTTTT
445 TATTTATCTTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTA---------------------
*
380656 TATTTATATTTTAATAAATTTTTATCATGTTTTTTTTAATTTTTCTATCTTTTTTTTTTATTTAT
489 T-TTT-TATTTTCATAAATTTTTATCATG-TTTTTTTAATTTTTCTA------TTTTTTATTTAT
380721 CGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTCTTTCTTCTTTTTCCTTTT
545 CGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCATTAACTCTTTCTTC----TCC----
380786 AAATTTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTGTTTCCACATTTTT
602 ---TTTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTGTTTCCACATTTTT
** **
380851 CTTTGTTTTAAAAATATCTACAAAACTTTTTTTTCTTTTTATTTTGTTTC
664 CTTTGTTTTAAAAATATCTACAAAACTTTTTCATCTTTTTATTTAATTTC
*
380901 ATATTTTTGCCTCTTCATTTTTTATTTTTCTTGTTTTTTTAATTTTTTTCACAAAATTCTTTTTA
1 ATATTTTTGCCTCTTCATTTTTTATTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTA
*
380966 TTTCTTGTTTCCATATTTTTTATACTTCTTTGGATTTTTTTTTCATAAATCTTTTCATTTTTATT
66 TTTCTTGTTTCCATATTTTTTATACTACTTTGGATTTTTTTTTCATAAATCTTTTCATTTTTATT
* *
381031 CTTCTCTTAATTCTTTACAAATTTTTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTT
131 CTTCTCCTAATTCTTTACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTT
*
381096 TTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGTATTAACTTTTCTCATTTTTAATT
196 TTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGCATTAACTTTTCTCATTTTTAATT
381161 TTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTTTTTGTTTT
261 TTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTTTTTGTTTT
381226 TTTTTTGTATGTTTTTCATTTCATTTCATTTTTCTCTTTTTTTTTTATTTTTGATTTTCTTACTT
326 TTTTTTGTAT-TTTTTCATTTCATTTCATTTTTCTCTTTTTTTTTTATTTTTGATTTTCTTACTT
* *
381291 CTTATATTTTTTATCGCATTTTTATTTATTTTATATTATATATATTTTTTGTATTTTATTTATCT
390 CTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATAT-TTTTTTGTATTTTATTTATCT
381356 TTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTCATAAATTTTTATCATG-TT
454 TTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTCATAAATTTTTATCATGTTT
*
381420 TTTT-ATTTTT-TA-TTTTTATTTATCGTTGTTGGTTATTTTTTGTTTTATTTTTATAATTTTTC
519 TTTTAATTTTTCTATTTTTTATTTATCGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTC
381482 ATTAACTCTTT-TTC-CC-TTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTT
584 ATTAACTCTTTCTTCTCCTTTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTT
* *
381544 TGCTTT-CACATTTTTCTTTGTTTTAAAAATTTCTAGAAAACTTTTTCATCTTTTTATTTAATTT
649 TG-TTTCCACATTTTTCTTTGTTTTAAAAATATCTACAAAACTTTTTCATCTTTTTATTTAATTT
381608 C
713 C
*
381609 ATATTTTTGTCTCTTCATTTTTTATTTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTT
1 ATATTTTTGCCTCTTCATTTTTTA-TTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTT
* *
381674 ATTTCTTGTTTCCAT-TTTTTTTTA-TAC-TTGGCTTTTTTTTTCATAAATCTTTTCATTTTTAT
65 ATTTCTTGTTTCCATATTTTTTATACTACTTTGGATTTTTTTTTCATAAATCTTTTCATTTTTAT
*
381736 TCTTTTCCTAATTCTTTTACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTT
130 TCTTCTCCTAATTC-TTTACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTT
381801 TTTTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGCATTAACTTTTCTCATTTTTAA
194 TTTTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGCATTAACTTTTCTCATTTTTAA
381866 TTTTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTTTTTGTT
259 TTTTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTTTTTGTT
381931 TTTTTTTTGTATTTTTTCATTTCATTTCATTTTTCTCTTTTTTTTTTTATTTTTGATTTTCTTAC
324 TTTTTTTTGTATTTTTTCATTTCATTTCATTTTTCTC-TTTTTTTTTTATTTTTGATTTTCTTAC
381996 TTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTTTATTTATC
388 TTCTTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTTTATTTATC
382061 TTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTCA
453 TTTTTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTCA
382109 CAAAATTCTT
Statistics
Matches: 1786, Mismatches: 77, Indels: 202
0.86 0.04 0.10
Matches are distributed among these distances:
706 139 0.08
707 262 0.15
708 132 0.07
709 57 0.03
716 2 0.00
721 3 0.00
722 60 0.03
726 1 0.00
728 1 0.00
729 2 0.00
730 66 0.04
731 37 0.02
732 6 0.00
733 34 0.02
734 7 0.00
735 6 0.00
736 93 0.05
737 87 0.05
738 81 0.05
739 40 0.02
740 33 0.02
741 100 0.06
742 94 0.05
743 63 0.04
744 106 0.06
745 39 0.02
747 4 0.00
755 68 0.04
756 130 0.07
757 15 0.01
758 18 0.01
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (713 bp):
ATATTTTTGCCTCTTCATTTTTTATTTTTCTTGTTTTTCTAATTTTTTTCACAAAATTCTTTTTA
TTTCTTGTTTCCATATTTTTTATACTACTTTGGATTTTTTTTTCATAAATCTTTTCATTTTTATT
CTTCTCCTAATTCTTTACAAATTTCTTTTTATTTCTTATTTTCATTTTTAAATTCTTATAGTTTT
TTGTTGTTGCATTTTCTTCTTTTGTTTTCATTTTTAATTTGCATTAACTTTTCTCATTTTTAATT
TTTTGTCTTTGATTTTTTATATTGTTTTTTTATTATTTTTTGTATGTTTTTCAATTTTTTGTTTT
TTTTTTGTATTTTTTCATTTCATTTCATTTTTCTCTTTTTTTTTTATTTTTGATTTTCTTACTTC
TTATATTTTTTATCGCATTTTTGTTTATTTTATATTTTATATTTTTTTGTATTTTATTTATCTTT
TTTGTTTTGCTTTAATATTTTTTTCTTATTTTATTTTTATTTTCATAAATTTTTATCATGTTTTT
TTAATTTTTCTATTTTTTATTTATCGTTGTTGGTTATTTTTTCTTTTATTTTTATAATTTTTCAT
TAACTCTTTCTTCTCCTTTTTCATTTTTTTACTTATCTTTTCATGTGCTTTCATATTTTTTTTTG
TTTCCACATTTTTCTTTGTTTTAAAAATATCTACAAAACTTTTTCATCTTTTTATTTAATTTC
Found at i:381926 original size:29 final size:29
Alignment explanation
Indices: 381892--381949 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
381882 TTTTATATTG
*
381892 TTTTTTTATTATTTTTTGTATGTTTTTCAA
1 TTTTTTGATTATTTTTTGTAT-TTTTTCAA
* *
381922 TTTTTTGTTTTTTTTTTGTATTTTTTCA
1 TTTTTTGATTATTTTTTGTATTTTTTCA
381950 TTTCATTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (29 bp):
TTTTTTGATTATTTTTTGTATTTTTTCAA
Found at i:381936 original size:19 final size:17
Alignment explanation
Indices: 381889--381937 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
381879 ATTTTTTATA
381889 TTGTTTTTTTATTATTTT
1 TTGTTTTTTT-TTATTTT
**
381907 TTGTATGTTTTTCAATTTT
1 TTGT-T-TTTTTTTATTTT
381926 TTGTTTTTTTTT
1 TTGTTTTTTTTT
381938 TGTATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
19 10 0.40
20 5 0.20
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (17 bp):
TTGTTTTTTTTTATTTT
Found at i:381946 original size:39 final size:37
Alignment explanation
Indices: 381892--381984 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 37
381882 TTTTATATTG
* * *
381892 TTTTTTTATTATTTTTTGTATGTT-TTTCAATTTTT-TGT
1 TTTTTTTTTTATTTTTT-CAT-TTATTTC-ATTTTTCTCT
381930 TTTTTTTTTGTATTTTTTCATTTCATTTCATTTTTCTCT
1 TTTTTTTTT-TATTTTTTCATTT-ATTTCATTTTTCTCT
381969 TTTTTTTTTTATTTTT
1 TTTTTTTTTTATTTTT
381985 GATTTTCTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.04
38 23 0.48
39 23 0.48
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.78
Consensus pattern (37 bp):
TTTTTTTTTTATTTTTTCATTTATTTCATTTTTCTCT
Found at i:381964 original size:30 final size:30
Alignment explanation
Indices: 381892--381964 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
381882 TTTTATATTG
* *
381892 TTTTTTTATTATTTTTTGTATGTTTTTCAA
1 TTTTTTCATTTTTTTTTGTATGTTTTTCAA
**
381922 TTTTTTGTTTTTTTTTTGTAT-TTTTTC-A
1 TTTTTTCATTTTTTTTTGTATGTTTTTCAA
381950 TTTCATTTCATTTTT
1 TTT--TTTCATTTTT
381965 CTCTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.11
29 6 0.17
30 26 0.72
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.77
Consensus pattern (30 bp):
TTTTTTCATTTTTTTTTGTATGTTTTTCAA
Found at i:382284 original size:12 final size:12
Alignment explanation
Indices: 382267--382295 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
382257 GCTGTAGGGT
382267 GGCTGGTCGGGA
1 GGCTGGTCGGGA
382279 GGCTGGTCGGGA
1 GGCTGGTCGGGA
382291 -GCTGG
1 GGCTGG
382296 CGACAGCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.07, C:0.17, G:0.59, T:0.17
Consensus pattern (12 bp):
GGCTGGTCGGGA
Found at i:382605 original size:15 final size:15
Alignment explanation
Indices: 382585--382619 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
382575 AATAAGAGGC
382585 TGTTGTTGATTCATT
1 TGTTGTTGATTCATT
382600 TGTTGTTGATTCATT
1 TGTTGTTGATTCATT
382615 TGTTG
1 TGTTG
382620 ATCTAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.23, T:0.60
Consensus pattern (15 bp):
TGTTGTTGATTCATT
Found at i:393543 original size:22 final size:22
Alignment explanation
Indices: 393515--393557 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
393505 TTTCTCTGTC
393515 TGTGTGTTTGTCGATTTTATTT
1 TGTGTGTTTGTCGATTTTATTT
* *
393537 TGTGTGTTTGTTGGTTTTATT
1 TGTGTGTTTGTCGATTTTATT
393558 CTGCAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.02, G:0.26, T:0.65
Consensus pattern (22 bp):
TGTGTGTTTGTCGATTTTATTT
Found at i:393619 original size:22 final size:22
Alignment explanation
Indices: 393568--393619 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
393558 CTGCAAGTTG
*
393568 GCTTCTAAATTTCATTCCCATA
1 GCTTCTAGATTTCATTCCCATA
393590 GCTTCTAGATTTCATTCCCATA
1 GCTTCTAGATTTCATTCCCATA
393612 GCTTCTAG
1 GCTTCTAG
393620 TTAATGTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (22 bp):
GCTTCTAGATTTCATTCCCATA
Found at i:394738 original size:50 final size:50
Alignment explanation
Indices: 394660--394761 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
394650 TTTCTAAAAT
*
394660 AGCATTGTTCTTTATACATGTGACATGTTGCTTGTGTTTAACTTAAATGC
1 AGCATTGTTCTTTATACATGTGACATGTTGCTTATGTTTAACTTAAATGC
* ** *
394710 AGCATTGTTCTTTATATATGTGGTATGTTGTTTATGTTTAACTTAAATGC
1 AGCATTGTTCTTTATACATGTGACATGTTGCTTATGTTTAACTTAAATGC
394760 AG
1 AG
394762 ATCACCTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.46
Consensus pattern (50 bp):
AGCATTGTTCTTTATACATGTGACATGTTGCTTATGTTTAACTTAAATGC
Found at i:396786 original size:343 final size:345
Alignment explanation
Indices: 396027--396901 Score: 1327
Period size: 343 Copynumber: 2.6 Consensus size: 345
396017 ACATATAATT
* *
396027 AGAGTTTCAAAAAATTCAGCAAAAGAAAATAATCTTCCTTTTAAGCATTCAATCACAATGCATGT
1 AGAGTTCCAAAGAATTCAGCAAAAGAAAATAATCTTCCTTTTAAGCATTCAATCACAATGCATGT
*
396092 CAAAATTAAATTACATAAATTGAACCTAACAAATCAATCTGCCCTGTAACAAATAGAGTGAAACC
66 CAAAATTAAATTACATAAATTGAACCTAACAAA-CAATCTGCTCTGTAACAAATAGAGTGAAACC
396157 AACAAAATAAAACCCTCCCTAAACACATACCTACACACACAAGAGGCACAAAAATTAAATTCACT
130 AACAAAATAAAACCCTCCCTAAACACATACCTACACACACAAGAGGCACAAAAATTAAATTCACT
*
396222 GCTTGAAACACACAAAGAGAAAAACAACAGGGAAACTCCCATACACATAGCCACATAAATTTTTA
195 GCTTGAAACACACAAAGAGAAAAACAACAGGAAAACTCCCATACACATAGCCACATAAATTTTTA
* *
396287 ATCCTTAAATGCTACACAACCATAGAAATTTAGAATCCTTAATTCTCCCTACACTACAAAACAAG
260 ATCCTTAAATGCTACACAACCATAGAAATTTAGAATCATTAATTCCCCCTACACTACAAAACAAG
* *
396352 GAAACTCCTATACACATATTT
325 GAAACTCCCATACACATATTG
* *
396373 AGAGTTCCAAAGAATTCAGCAAAAGGAAATAATCTTCCTTTTAAGCATTCAATCACAATGCATAT
1 AGAGTTCCAAAGAATTCAGCAAAAGAAAATAATCTTCCTTTTAAGCATTCAATCACAATGCATGT
396438 CAAAATTAAATTACATAAATTGAACCTAACAAACCAATCTGCTCTGTAACAAATAGAGTGAAACC
66 CAAAATTAAATTACATAAATTGAACCTAACAAA-CAATCTGCTCTGTAACAAATAGAGTGAAACC
* * * *
396503 AACAAAATAAAATCTTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTAAATTTACT
130 AACAAAATAAAACCCTCCCTAAACACATACCTACACACACAAGAGGCACAAAAATTAAATTCACT
* *
396568 GCTTGAAACACAC-AAG-GAGAAA-AACAGGAAAACTCCCATACACATAGTCACATAAATTTTTA
195 GCTTGAAACACACAAAGAGAAAAACAACAGGAAAACTCCCATACACATAGCCACATAAATTTTTA
396630 ATCCTTAAATGCTACACAACCATAGAAATTTAGAATCATTAATTCCCCCTACACTACAAAACAAG
260 ATCCTTAAATGCTACACAACCATAGAAATTTAGAATCATTAATTCCCCCTACACTACAAAACAAG
396695 GAAACTCCCATACACATATTG
325 GAAACTCCCATACACATATTG
* * * ** *
396716 AGAGTTCCAAAGAATCCAACAAAAGAAAATAATCTTCCTTTTAAACATTTTACCACAATGCATGT
1 AGAGTTCCAAAGAATTCAGCAAAAGAAAATAATCTTCCTTTTAAGCATTCAATCACAATGCATGT
* * * * * *
396781 CAAAATTAAATTTCAAAAATTGAACCCAACAAACAACCTGTTCTGTAAC----AGAGTGAAATCA
66 CAAAATTAAATTACATAAATTGAACCTAACAAACAATCTGCTCTGTAACAAATAGAGTGAAACCA
* ** * * * ** * *
396842 ACAAAACAAAAAACTCTC-AAA-ATACACCTACACACACATCAGGCACAGAAATTGAATTCA
131 ACAAAATAAAACCCTCCCTAAACACATACCTACACACACAAGAGGCACAAAAATTAAATTCA
396902 ACTAATCATG
Statistics
Matches: 487, Mismatches: 42, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
336 33 0.07
337 3 0.01
338 24 0.05
342 14 0.03
343 207 0.43
344 5 0.01
345 3 0.01
346 198 0.41
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (345 bp):
AGAGTTCCAAAGAATTCAGCAAAAGAAAATAATCTTCCTTTTAAGCATTCAATCACAATGCATGT
CAAAATTAAATTACATAAATTGAACCTAACAAACAATCTGCTCTGTAACAAATAGAGTGAAACCA
ACAAAATAAAACCCTCCCTAAACACATACCTACACACACAAGAGGCACAAAAATTAAATTCACTG
CTTGAAACACACAAAGAGAAAAACAACAGGAAAACTCCCATACACATAGCCACATAAATTTTTAA
TCCTTAAATGCTACACAACCATAGAAATTTAGAATCATTAATTCCCCCTACACTACAAAACAAGG
AAACTCCCATACACATATTG
Found at i:398796 original size:870 final size:868
Alignment explanation
Indices: 396367--399064 Score: 4210
Period size: 870 Copynumber: 3.1 Consensus size: 868
396357 TCCTATACAC
* * * * *
396367 ATATTTAGAGTTCCAAAGAATTCAGCAAAAGGAAATAATCTTCCTTTTAAGCATTCAATCACAAT
1 ATATTTAGAGTTTCAAAGAATCCAACAAAAAGAAATAATCTTCCTTTTAAGCATTCAACCACAAT
* * * *
396432 GCATATCAAAATTAAATTACATAAATTGAACCTAACAAACCAATCTGCTCTGTAACAAATAGAGT
66 GCATGTCAAAATTAAATTACAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGT
* * *
396497 GAAACCAACAAAATAAAATCTTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTAAA
131 GAAACCAACAAAATAAAAACCTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTGAA
* * * *
396562 TTTACTGCTTGAAACACACAAGGAG--AAA-AACAGGAAAACTCCCATACACATAGTCACATAAA
196 TTCACTGCTTGAAGCACACAAGGAGAAAAACAACAGAAAAACTCTCATACAC--AGTCACATAAA
* * *
396624 TTTTTAATCCTTAAATGCTACACAACCATAGAAATTTAGAATCATTAATTCCCCCTACACTACAA
259 TTTTTAATCTTTAAATGCTACACAACCATAAAAATTTAGAATCATTAATTTCCCCTACACTACAA
* *
396689 AACAAGGAAACTCCCATACACATATTGAGAGTTCCAAAGAATCCAACAAAAGAAAATAATCTTCC
324 AACAAGGAAACTCCCATACACATATTGAGAGTTTCAAAGAATCCAGCAAAAGAAAATAATCTTCC
*
396754 TTTTAAACATTTTACCACAATGCATGTCAAAATTAAATTTCAAAAATTGAACCCAACAAACAACC
389 TTTTAAACATTTTACCACAATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACAACC
396819 TGTTCTGTAAC---AGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCTACACACACAT
454 TGTTCTGTAACAAAAGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCT--ACACACAT
* * * *
396881 CAGGCACAGAAATTGAATTCAACTAATCATGCAACCCATTAACTTAGAGCACACAACGAGAAAAA
517 CAGGCACAGAAATTGAATTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAAAGAGAAAAA
* * * *
396946 CAAGAAAACTCCTATACACAGTCACACAAATTTTTAATCCTTAAATCCTATACACATACAACTTT
582 CAAGGAAACTCCCATACACAGCCACACAAATTTTTAATCCTTAAATCCTACACACATACAACTTT
* * * *
397011 AGAATCCTTAATTCTCCATATACTACAAGTCATTCTTGGAGCACATAGAGCACATAGCGCATAAG
647 AGAATCCTTAATTCTCCCTACACTGCAAGTCGTTCTT---G------GAGCACATAGCGCATAAG
* * * *
397076 TTTCATAGAGACTAAAGAATCACAAACCACACT-AA--AA-TACAACCCAAGGAATTTTTCAAAG
703 TTTCATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACAACCCAAGAAATTTTTCAAAG
397137 TAAAGTTACAAAGCCCTAATTTATGT--AAGTTTAAAAATGAAACAAGAAGAATCAAGACACAAT
768 TAAAGTTACAAAGCCCTAATTTATGTAAAAGTTTAAAAATGAAACAAGAAGAATCAAGACACAAT
397200 CTCAATGAGAAAGACACCAACTGAGAGCCTATGACAACAT
833 CTCAATGAGAAAGACA-C--C-GAGAGCCTATGACAACAT
*
397240 ATATTTAGAGTTTCAAAGAATCCAGC-AAAAGAAAATAATCTTCCTTTTAAGCATTCAACCACAA
1 ATATTTAGAGTTTCAAAGAATCCAACAAAAAG-AAATAATCTTCCTTTTAAGCATTCAACCACAA
* *
397304 TGCATGTC--AATTAAATTACAGAAATTGAACCTAGCAAACCAATCTGCCTTGTAACAAATAAAG
65 TGCATGTCAAAATTAAATTACAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAG
*
397367 TGAAACCAACAAAATAAAAACCTCTCTAAACACATACCTACACACACAAGAGGCACAGAAATTGA
130 TGAAACCAACAAAATAAAAACCTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTGA
* * * * *
397432 ATTCGCTGCTTGAAGCACACATGGAAAAAAACAACAAGAAAAA-TCTTATACACAGCCACATAAA
195 ATTCACTGCTTGAAGCACACAAGGAGAAAAACAAC-AGAAAAACTCTCATACACAGTCACATAAA
* ** *
397496 TTTTTAATCTTTAAATGCAACACAACCATAAAAATTTAGAATCCCTAA-TTCTCCTTACACTACA
259 TTTTTAATCTTTAAATGCTACACAACCATAAAAATTTAGAATCATTAATTTC-CCCTACACTAC-
*
397560 AAACAACAAGGAAACTCCCATACACATATTTAGAGTTTCAAAGAATCCAGCAAAAGAAAATAATC
322 -AA-AACAAGGAAACTCCCATACACATATTGAGAGTTTCAAAGAATCCAGCAAAAGAAAATAATC
*
397625 CTCCTTTTAAACATTTTACCACAATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAAC
385 TTCCTTTTAAACATTTTACCACAATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAA-
397690 CAACCTGTTCTGTAACAAACAGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCTACAC
449 CAACCTGTTCTGTAACAAA-AGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCTACAC
397755 ACATCAGGCACAGAAATTGAATTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAAAGAGA
513 ACATCAGGCACAGAAATTGAATTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAAAGAGA
*
397820 AAAACAAGGAAACTCACATACACAGCCACACAAATTTTTAATCCTTAAATCCTACACACATACAA
578 AAAACAAGGAAACTCCCATACACAGCCACACAAATTTTTAATCCTTAAATCCTACACACATACAA
* *
397885 CTTTAGAATCCTTAATT-TCCCTTACAATGCAAGTCGTTCTTGGAGCACATAGCGCATACGTTTC
643 CTTTAGAATCCTTAATTCTCCC-TACACTGCAAGTCGTTCTTGGAGCACATAGCGCATAAGTTTC
397949 ATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACAACCCAAGAAATTTTTCAAAGTAAA
707 ATAGAGACCAACGAATCACAAACCACACTAAAGGAAGAACAACCCAAGAAATTTTTCAAAGTAAA
* * * * *
398014 GTTACAAAGCCTTAATTTATGTAAAAATTTAAAAATGACACAAGAAGAATCCAGAGACAATCTCA
772 GTTACAAAGCCCTAATTTATGTAAAAGTTTAAAAATGAAACAAGAAGAATCAAGACACAATCTCA
398079 ATGAGAAAGACACCGAGAGCCTATGACAACAT
837 ATGAGAAAGACACCGAGAGCCTATGACAACAT
* * *
398111 ATATTTAGAGTTTCATAGAATCCAACAAAAAGAAATATTCTTCCTTTCAAGCATTCAACCACAAT
1 ATATTTAGAGTTTCAAAGAATCCAACAAAAAGAAATAATCTTCCTTTTAAGCATTCAACCACAAT
398176 GCATGTCAAAATTAAATTACAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGT
66 GCATGTCAAAATTAAATTACAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGT
398241 GAAACCAACAAAATAAAAACCTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTGAA
131 GAAACCAACAAAATAAAAACCTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTGAA
* *
398306 TTCAATGCTTGAAGCACACAAGGAGAAAAACAACAGAAAAACTCTCATACTCAGTCACATAAATT
196 TTCACTGCTTGAAGCACACAAGGAGAAAAACAACAGAAAAACTCTCATACACAGTCACATAAATT
398371 TTTAATCTTTAAATGCTACACAACCATAAAAATTTAGAATCATTAATTTCCCCTACACTACAAAA
261 TTTAATCTTTAAATGCTACACAACCATAAAAATTTAGAATCATTAATTTCCCCTACACTACAAAA
*
398436 CAAGGAAACTCCCATACACATATTGAGAGTTTCAAAGAATCCAGCAAAAGGAAATAATCTTCCTT
326 CAAGGAAACTCCCATACACATATTGAGAGTTTCAAAGAATCCAGCAAAAGAAAATAATCTTCCTT
* * * *
398501 TTAAACATTTGACCACGATGCATGTCAAAATTAAGTTTCAGAAATTTAACCCAACAAATCAACCT
391 TTAAACATTTTACCACAATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAA-CAACCT
*
398566 GTTTTGTAACAAATAGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCTACACACATCA
455 GTTCTGTAACAAA-AGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCTACACACATCA
*
398631 GGCACAGAAATTGAATTCAGCTAATCATGCGAGCCATTAGCTTAGAGCACACAAAGAGAAAAACA
519 GGCACAGAAATTGAATTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAAAGAGAAAAACA
*
398696 AGGAAACTCCCATACACAACCACACAAATTTTTAATCCTTAAATCCTACACACATACAACTTTAG
584 AGGAAACTCCCATACACAGCCACACAAATTTTTAATCCTTAAATCCTACACACATACAACTTTAG
* *
398761 AATCCTTAATTCTCCCTACACTGCAAGTGGTTCTTGGAGCACATAGCGCATAAGTTTCACAGAGA
649 AATCCTTAATTCTCCCTACACTGCAAGTCGTTCTTGGAGCACATAGCGCATAAGTTTCATAGAGA
** *
398826 CCAACGAATCAGGAACCACACTAAAGGAAGAAGAACCCAAGAAATTTTTCAAAGTAAAGTTACAA
714 CCAACGAATCACAAACCACACTAAAGGAAGAACAACCCAAGAAATTTTTCAAAGTAAAGTTACAA
*
398891 AGCCCTAATTTATGTAAAAGTTTAAAAATGAAACAAGAAGAATCAAGACACAATCTCAACGAGAA
779 AGCCCTAATTTATGTAAAAGTTTAAAAATGAAACAAGAAGAATCAAGACACAATCTCAATGAGAA
*
398956 AGATACCAACTGAGAGCCTATGACAACAT
844 AG--A-C-ACCGAGAGCCTATGACAACAT
* * *
398985 ATATTTAAAGTTTAAAAGAATCCAACAAAAAAAAATAATCTTCCTTTTAAGCATTCAAGCC-CAA
1 ATATTTAGAGTTTCAAAGAATCCAACAAAAAGAAATAATCTTCCTTTTAAGCATTCAA-CCACAA
399049 TGCATGTCAAAATTAA
65 TGCATGTCAAAATTAA
399065 GTTTTAAAAA
Statistics
Matches: 1683, Mismatches: 110, Indels: 63
0.91 0.06 0.03
Matches are distributed among these distances:
869 48 0.03
870 495 0.29
871 220 0.13
872 83 0.05
873 334 0.20
874 108 0.06
875 178 0.11
876 16 0.01
877 3 0.00
878 157 0.09
880 41 0.02
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.23
Consensus pattern (868 bp):
ATATTTAGAGTTTCAAAGAATCCAACAAAAAGAAATAATCTTCCTTTTAAGCATTCAACCACAAT
GCATGTCAAAATTAAATTACAGAAATTGAACCTAGCAAACCAATCTGCCCTGTAACAAATAGAGT
GAAACCAACAAAATAAAAACCTCCCTAAACACATACCTACACACACAAGAGGCACAGAAATTGAA
TTCACTGCTTGAAGCACACAAGGAGAAAAACAACAGAAAAACTCTCATACACAGTCACATAAATT
TTTAATCTTTAAATGCTACACAACCATAAAAATTTAGAATCATTAATTTCCCCTACACTACAAAA
CAAGGAAACTCCCATACACATATTGAGAGTTTCAAAGAATCCAGCAAAAGAAAATAATCTTCCTT
TTAAACATTTTACCACAATGCATGTCAAAATTAAGTTTCAAAAATTGAACCCAACAAACAACCTG
TTCTGTAACAAAAGAGTGAAATCAACAAAACAAAAAACTCTCAAAATACACCTACACACATCAGG
CACAGAAATTGAATTCAGCTAATCATGCAAGCCATTAGCTTAGAGCACACAAAGAGAAAAACAAG
GAAACTCCCATACACAGCCACACAAATTTTTAATCCTTAAATCCTACACACATACAACTTTAGAA
TCCTTAATTCTCCCTACACTGCAAGTCGTTCTTGGAGCACATAGCGCATAAGTTTCATAGAGACC
AACGAATCACAAACCACACTAAAGGAAGAACAACCCAAGAAATTTTTCAAAGTAAAGTTACAAAG
CCCTAATTTATGTAAAAGTTTAAAAATGAAACAAGAAGAATCAAGACACAATCTCAATGAGAAAG
ACACCGAGAGCCTATGACAACAT
Found at i:406925 original size:20 final size:20
Alignment explanation
Indices: 406878--406925 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
406868 TCTCAGCATC
*
406878 CAGCCTTAGCAGTTGCTTTA
1 CAGCCTTCGCAGTTGCTTTA
406898 CAGCCTTCGCAGTTGCTTTA
1 CAGCCTTCGCAGTTGCTTTA
406918 CAGCCTTC
1 CAGCCTTC
406926 AGGAAAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (20 bp):
CAGCCTTCGCAGTTGCTTTA
Found at i:409413 original size:17 final size:17
Alignment explanation
Indices: 409391--409447 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
409381 AAAAAGATAA
409391 ATAAAATACAAAAAAAT
1 ATAAAATACAAAAAAAT
* *
409408 ATAAAATATAAAATAAAC
1 ATAAAATACAAAA-AAAT
*
409426 A-AAAATGCGATAAAAAAT
1 ATAAAATAC-A-AAAAAAT
409444 ATAA
1 ATAA
409448 GAAGTAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 17 0.55
18 9 0.29
19 5 0.16
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (17 bp):
ATAAAATACAAAAAAAT
Found at i:409473 original size:7 final size:7
Alignment explanation
Indices: 409435--409583 Score: 50
Period size: 7 Copynumber: 19.3 Consensus size: 7
409425 CAAAAATGCG
409435 ATAAAAA
1 ATAAAAA
409442 ATATAAGAA
1 ATA-AA-AA
*
409451 GTAAGAAA
1 ATAA-AAA
*
409459 ATCAAAA
1 ATAAAAA
409466 ATAAAAAA
1 AT-AAAAA
*
409474 AGAGAAAA
1 ATA-AAAA
409482 ATGAAATGAA
1 AT-AAA--AA
409492 ATGAAAAA
1 AT-AAAAA
*
409500 ATACAAA
1 ATAAAAA
409507 A-AAAAA
1 ATAAAAA
*
409513 ACAAAAA
1 ATAAAAA
409520 ATTGAAAAA
1 A-T-AAAAA
409529 CATACAAAA
1 -ATA-AAAA
409538 ATAATAAGA
1 ATAA-AA-A
*
409547 A-AACAAT
1 ATAA-AAA
409554 ATAAAAA
1 ATAAAAA
* *
409561 ATCAAAG
1 ATAAAAA
*
409568 ACAAAAA
1 ATAAAAA
*
409575 ATTAAAA
1 ATAAAAA
409582 AT
1 AT
409584 GAGAAAAGTT
Statistics
Matches: 107, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
6 5 0.05
7 40 0.37
8 35 0.33
9 18 0.17
10 9 0.08
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:409568 original size:22 final size:23
Alignment explanation
Indices: 409534--409582 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
409524 AAAAACATAC
*
409534 AAAAATAATAAGA-AAACAATATA
1 AAAAATAATAAGACAAAAAAT-TA
*
409557 AAAAATCA-AAGACAAAAAATTA
1 AAAAATAATAAGACAAAAAATTA
409579 AAAA
1 AAAA
409583 TGAGAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (23 bp):
AAAAATAATAAGACAAAAAATTA
Found at i:410032 original size:19 final size:21
Alignment explanation
Indices: 410008--410052 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
409998 AATAAAAAAA
*
410008 GAAAACATG-A-AAAAGTTAT
1 GAAAACATGAATAAAAATTAT
410027 GAAAACATGAATAAAAATTAT
1 GAAAACATGAATAAAAATTAT
410048 GAAAA
1 GAAAA
410053 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 13 0.57
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.20
Consensus pattern (21 bp):
GAAAACATGAATAAAAATTAT
Found at i:410060 original size:21 final size:22
Alignment explanation
Indices: 410017--410063 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
410007 AGAAAACATG
**
410017 AAAAAGTTATGAAAACATGAAT
1 AAAAAGTTATGAAAACAAAAAT
*
410039 AAAAA-TTATGAAAATAAAAAT
1 AAAAAGTTATGAAAACAAAAAT
410060 AAAA
1 AAAA
410064 TAAGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (22 bp):
AAAAAGTTATGAAAACAAAAAT
Found at i:410121 original size:18 final size:17
Alignment explanation
Indices: 410087--410153 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 17
410077 TTAAAGCAAA
*
410087 ACAAAAAAGA-ATAAAT
1 ACAAAAAAAATATAAAT
410103 ACAAAAAAAATATATAAT
1 ACAAAAAAAATATA-AAT
* * *
410121 ATAAAATAAATAAAAAT
1 ACAAAAAAAATATAAAT
* *
410138 GCGATAAAAAATATAA
1 AC-AAAAAAAATATAA
410154 GAAGTAAGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 9 0.23
17 6 0.15
18 24 0.62
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (17 bp):
ACAAAAAAAATATAAAT
Found at i:410401 original size:25 final size:23
Alignment explanation
Indices: 410371--410417 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
410361 AGAAATTTGT
410371 AAAAGAATTAGGAAAGAACAAAATG
1 AAAAGAATTAGGAAA-AA-AAAATG
* *
410396 AAAAGATTTATGAAAAAAAAAT
1 AAAAGAATTAGGAAAAAAAAAT
410418 CCAAGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 2 0.10
25 13 0.65
ACGTcount: A:0.66, C:0.02, G:0.15, T:0.17
Consensus pattern (23 bp):
AAAAGAATTAGGAAAAAAAAATG
Found at i:410608 original size:610 final size:627
Alignment explanation
Indices: 409916--411163 Score: 1942
Period size: 610 Copynumber: 2.0 Consensus size: 627
409906 TATGAAGCAC
409916 ATGAAAAGATAAGTAAAAAATGAAAAGGAAAAAGAGTTAATGAAAAATTATAAAAATAAACAAAA
1 ATGAAAAGATAAGTAAAAAATGAAAAGGAAAAAGAGTTAATGAAAAATTATAAAAATAAACAAAA
* * ** *
409981 AATAACCAACAACGATAAAT-AAAAAAA-GAAAACATGAAAAAGTTATGAAAACATGAATAAAAA
66 AATAACCAACAACGATAAATAAAAAAAATAAAAAAAT-AAAAAAATA-AAAAACATG-ATAAAAA
410044 -TTATGAAAATAAAAATAAAATAAG-AAAAAATAATTAAAGCAAAACAAAAAAG-AAT-AAATAC
128 TTTATGAAAATAAAAATAAAATAAGAAAAAAAT-ATTAAAGCAAAACAAAAAAGAAATAAAATAC
*
410105 AAAAAAAATATATAATATAAAATAAATAAAAATGCG-ATAAAAAATATAAGAAGTAAGAAAATCA
192 AAAAAAAATATATAATATAAAATAAACAAAAATGCGAATAAAAAATATAAGAAGTAAGAAAATCA
* * * *
410169 AAAATAAAAAAAAGAAGA-A-AAATGAAATGAAATGAAAACATAC-AAAAAATA-AAAAACCT-A
257 AAAATAAAAAAAA-AAAACAGAAATGAAATGAAATGAAAAAATACAAAAAAAAACAAAAAACTGA
**
410229 AAAA-ATTGAAAAAACAATATAAAATAAT-AAAAAC-AAATT-AAAA-AG-AA-TCAATGCCAAA
321 AAAACATACAAAAAACAATATAAAA-AATCAAAAACAAAATTAAAAAGAGAAAGTCAATG-CAAA
410287 AATAAAAATG-AAACAAAAGAAGAAAATGCAACAAC-AAAAACTATAAGAATTT-AAAATGAAAA
384 AA-AAAAATGAAAACAAAAGAAGAAAATGCAACAACAAAAAACTATAAGAATTTAAAAATGAAAA
* *
410349 TAAGATATAAAAAGAAATTTGTAAAAGAATTAGG-AAAGAA-CAAAATGAAAAGATTTATGAAAA
448 TAAGAAAT-AAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATGAAAA
*
410412 AAAAATCCAAGTAT-AAAAAAAAT-GAAACAAGAAATAAAAAGAATTTTGTGAAAAAAAATTAGA
512 AAAAATCCAAGTATAAAAAAAAATGGAAACAAGAAATAAAAAAAATTTTGTG-AAAAAAATTAG-
410475 AAAACAAGAAAAAAT-AAAAATGAAGAGACAAAAATATGAAATTAAATAAAAG
575 AAAACAAGAAAAAATAAAAAATGAAGAGACAAAAATATGAAATTAAATAAAAG
*
410527 ATGAAAAGATAAGTAAAAAATG-AAAGGGAAAA-AGTTAATGAAAAATTATAAAAATAAAACAAA
1 ATGAAAAGATAAGTAAAAAATGAAAAGGAAAAAGAGTTAATGAAAAATTATAAAAAT-AAACAAA
410590 AAATAACCAACAACGATAAATAAAAAAAATAAAAAAATAAAAAAATAAAAAACATGATAAAAATT
65 AAATAACCAACAACGATAAATAAAAAAAATAAAAAAATAAAAAAATAAAAAACATGATAAAAATT
410655 TATGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAAGATAAATAAAATACA
130 TATGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAAG--AAATAAAATACA
*
410720 AAAAATATATATAATATAAAATAAACAAAAATGCGAATAAAAAATATAAGAAGTAAGAAAATCAA
193 AAAAAAATATATAATATAAAATAAACAAAAATGCGAATAAAAAATATAAGAAGTAAGAAAATCAA
*
410785 AAATAAAAAAAAAAAACAGAAATGAAATGAAATGAAAAAATACAAAAAAAAACAAAAAATTGAAA
258 AAATAAAAAAAAAAAACAGAAATGAAATGAAATGAAAAAATACAAAAAAAAACAAAAAACTGAAA
* * * *
410850 AACATACAAAAAATAATATAAAAAATCAAAGACAAAATTAAAAATGAGAAAAGTTAATGCAAATA
323 AACATACAAAAAACAATATAAAAAATCAAAAACAAAATTAAAAA-GAG-AAAGTCAATGCAAAAA
*
410915 AAAAATGAAAACAAAAGAAGAAAATGCAACAACAAAAAACTATAAGAATTTAAAAATTAAAATAA
386 AAAAATGAAAACAAAAGAAGAAAATGCAACAACAAAAAACTATAAGAATTTAAAAATGAAAATAA
410980 GAAATAAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATGAAAAAAAA
451 GAAATAAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATGAAAAAAAA
411045 ATCCAAGTATAAAAAAAAATGGAAACAAGAAATAAAAAAAATTTTGTGAAAAAAATTAGAAAACA
516 ATCCAAGTATAAAAAAAAATGGAAACAAGAAATAAAAAAAATTTTGTGAAAAAAATTAGAAAACA
411110 AGAAAAAATAAAAAATGAAGAGACAAAAATATGAAATTAAATAAAAG
581 AGAAAAAATAAAAAATGAAGAGACAAAAATATGAAATTAAATAAAAG
411157 ATGAAAA
1 ATGAAAA
411164 AGTTTTCTAA
Statistics
Matches: 582, Mismatches: 23, Indels: 45
0.90 0.04 0.07
Matches are distributed among these distances:
609 30 0.05
610 89 0.15
611 43 0.07
612 6 0.01
613 3 0.01
614 43 0.07
615 42 0.07
616 23 0.04
617 7 0.01
618 6 0.01
619 8 0.01
620 22 0.04
621 5 0.01
622 4 0.01
624 2 0.00
625 7 0.01
626 32 0.05
627 47 0.08
628 22 0.04
629 51 0.09
630 64 0.11
631 26 0.04
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.17
Consensus pattern (627 bp):
ATGAAAAGATAAGTAAAAAATGAAAAGGAAAAAGAGTTAATGAAAAATTATAAAAATAAACAAAA
AATAACCAACAACGATAAATAAAAAAAATAAAAAAATAAAAAAATAAAAAACATGATAAAAATTT
ATGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAAGAAATAAAATACAAAA
AAAATATATAATATAAAATAAACAAAAATGCGAATAAAAAATATAAGAAGTAAGAAAATCAAAAA
TAAAAAAAAAAAACAGAAATGAAATGAAATGAAAAAATACAAAAAAAAACAAAAAACTGAAAAAC
ATACAAAAAACAATATAAAAAATCAAAAACAAAATTAAAAAGAGAAAGTCAATGCAAAAAAAAAA
TGAAAACAAAAGAAGAAAATGCAACAACAAAAAACTATAAGAATTTAAAAATGAAAATAAGAAAT
AAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATGAAAAAAAAATCCA
AGTATAAAAAAAAATGGAAACAAGAAATAAAAAAAATTTTGTGAAAAAAATTAGAAAACAAGAAA
AAATAAAAAATGAAGAGACAAAAATATGAAATTAAATAAAAG
Found at i:410625 original size:8 final size:8
Alignment explanation
Indices: 410607--410641 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
410597 CAACAACGAT
410607 AAATAAAAA
1 AAAT-AAAA
410616 AAATAAAA
1 AAATAAAA
410624 AAATAAAA
1 AAATAAAA
410632 AAATAAAA
1 AAATAAAA
410640 AA
1 AA
410642 CATGATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAATAAAA
Found at i:410633 original size:16 final size:17
Alignment explanation
Indices: 410607--410726 Score: 64
Period size: 16 Copynumber: 6.8 Consensus size: 17
410597 CAACAACGAT
410607 AAATAAAAAAAATAAAA
1 AAATAAAAAAAATAAAA
410624 AAAT-AAAAAAATAAAA
1 AAATAAAAAAAATAAAA
* * ** *
410640 AACATGATAAAAATTTAT
1 AA-ATAAAAAAAATAAAA
* *
410658 GAA-AATAAAAATAAAA
1 AAATAAAAAAAATAAAA
* *
410674 TAAGAAAAAAATATTAAAGCA
1 AAATAAAAAAA-A-TAAA--A
* *
410695 AAACAAAAAAGATAAATA
1 AAATAAAAAAAATAAA-A
*
410713 AAATACAAAAAATA
1 AAATAAAAAAAATA
410727 TATATAATAT
Statistics
Matches: 78, Mismatches: 18, Indels: 13
0.72 0.17 0.12
Matches are distributed among these distances:
16 25 0.32
17 13 0.17
18 22 0.28
19 8 0.10
20 1 0.01
21 9 0.12
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (17 bp):
AAATAAAAAAAATAAAA
Found at i:410665 original size:680 final size:695
Alignment explanation
Indices: 409338--410653 Score: 1739
Period size: 706 Copynumber: 1.9 Consensus size: 695
409328 AAGAATTTTG
409338 TGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAAGATAAATAAAATACAAA
1 TGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAAG--AAATAAAATACAAA
409403 AAAATATAAAATATAAAATAAACAAAAATGCGATAAAAAATATAAGAAGTAAGAAAATCAAAAAT
64 AAAATATAAAATATAAAATAAACAAAAATGCGATAAAAAATATAAGAAGTAAGAAAATCAAAAAT
*
409468 AAAAAAAGAGAAAAATGAAATGAAATGAAAAAATACAAAAAAAAAACAAAAAATTGAAAAACATA
129 AAAAAAAGAGAAAAA-GAAATGAAATG--AAAAT--AAAAAAAAAACAAAAAATTAAAAAACATA
*
409533 CAAAAATAATAAGAAAACAATATAAAAAATCAAAGACAAAAAATTAAAAATGAGAAAAGTTAATG
189 CAAAAAT-ATAAGAAAACAATATAAAAAAT-AAAGACAAAAAATTAAAAA-GAG-AAAGTCAATG
409598 CAAAATAAAAATGAAAACAAAAGAAGAAAATGCAACAAAAAAAAAACTATAAGAATTTAAAAATG
250 CAAAATAAAAATGAAAACAAAAGAAGAAAATGCAAC-AAAAAAAAACTATAAGAATTTAAAAATG
409663 AAAATAAGAAATAAAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATG
314 AAAATAAGAAATAAAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATG
409728 AAAAAAAAGCCAAGTATAAAAAAAATGGAAACAAGAAATAAAAAGAATTTTGTGAAAAAAATTAG
379 AAAAAAAAGCCAAGTATAAAAAAAATGGAAACAAGAAATAAAAAGAATTTTGTGAAAAAAATTAG
*
409793 AAAAACAAGAAAAAATGAAAAATTGAAGAGGCAAAAATATGAAATTAAATAAAAAGATGAAAAAG
444 AAAAACAAGAAAAAATGAAAAATTGAAGAGACAAAAATATGAAATTAAATAAAAAGATGAAAAAG
* ** * * *** * * * * * *
409858 TTTTCTAGAAATTTTTAAAACAAAGAAAAATGTGAAAGCAAAAAAAAATATGAAGCACATGAAAA
509 ATAACTAAAAAATGAAAAAAAAAAGAAAAATATAAAAACAAAAAAAAATATGAACCACACGAAAA
* * ** *
409923 GATAAGTAAAAAATGAAAAGGAAAAAGAGTTAATGAAAAATTATAAAAATAAACAAAAAATAACC
574 GATAAG-AAAAAATGAAAAGAAAAAAAAAATAA-GAAAAATGATAAAAATAAACAAAAAATAACC
409988 AACAACGATAAATAAAAAAAGAAAACATGAAAAAGTTATGAAAACATGAATAAAAATTA
637 AACAACGATAAATAAAAAAAGAAAACATGAAAAAGTTATGAAAACATGAATAAAAATTA
410047 TGAAAATAAAAATAAAATAAG-AAAAAATAATTAAAGCAAAACAAAAAAG-AAT-AAATACAAAA
1 TGAAAATAAAAATAAAATAAGAAAAAAAT-ATTAAAGCAAAACAAAAAAGAAATAAAATAC-AAA
* *
410109 AAAATATATAATATAAAATAAATAAAAATGCGATAAAAAATATAAGAAGTAAGAAAATCAAAAAT
64 AAAATATAAAATATAAAATAAACAAAAATGCGATAAAAAATATAAGAAGTAAGAAAATCAAAAAT
* * * * *
410174 AAAAAAA-AGAAGAA-AAATGAAATG-AAAT-GAAAACATACAAAAAA-TAAAAAACCTA-AAAA
129 AAAAAAAGAGAAAAAGAAATGAAATGAAAATAAAAAAAAAACAAAAAATTAAAAAACATACAAAA
*
410233 AT-TGAA-AAAACAATATAAAATAAT-AA-A-AACAAATT-AAAA-AG-AA-TCAATGCCAAAAA
194 ATAT-AAGAAAACAATATAAAA-AATAAAGACAAAAAATTAAAAAGAGAAAGTCAATG-C-AAAA
*
410289 TAAAAATG-AAACAAAAGAAGAAAATGCAAC-AACAAAAACTATAAGAATTT-AAAATGAAAATA
255 TAAAAATGAAAACAAAAGAAGAAAATGCAACAAAAAAAAACTATAAGAATTTAAAAATGAAAATA
* *
410351 AGATATAAAAAGAAATTTGTAAAAGAATTAGG-AAAGAA-CAAAATGAAAAGATTTATGAAAAAA
320 AGAAATAAAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATG-AAAAA
*
410414 AAATCCAAGTATAAAAAAAAT-GAAACAAGAAATAAAAAGAATTTTGTGAAAAAAAATTAGAAAA
384 AAAGCCAAGTATAAAAAAAATGGAAACAAGAAATAAAAAGAATTTTGTG-AAAAAAATTAGAAAA
410478 ACAAGAAAAAAT-AAAAA-TGAAGAGACAAAAATATGAAATTAAAT-AAAAGATG-AAAAGATAA
448 ACAAGAAAAAATGAAAAATTGAAGAGACAAAAATATGAAATTAAATAAAAAGATGAAAAAGATAA
* *
410539 GTAAAAAATGAAAGGGAAAAAGTTAATGAAAAATTATAAAAATAAAACAAAAA-AT-AACCAACA
513 CTAAAAAATGAAA---AAAAA---AA-GAAAAA-TATAAAAACAAAA-AAAAATATGAACC-AC-
*
410602 ACGATAA-ATAA-AAAAAAT-AAAA-AAATAAAAAAATAA-AAAACATGATAAAAAT
567 ACGAAAAGATAAGAAAAAATGAAAAGAAA-AAAAAAATAAGAAAA-ATGATAAAAAT
410654 TTATGAAAAT
Statistics
Matches: 549, Mismatches: 37, Indels: 70
0.84 0.06 0.11
Matches are distributed among these distances:
677 13 0.02
678 8 0.01
679 26 0.05
680 58 0.11
681 70 0.13
682 54 0.10
683 28 0.05
684 14 0.03
685 42 0.08
686 22 0.04
687 2 0.00
689 4 0.01
690 7 0.01
691 1 0.00
692 2 0.00
693 15 0.03
694 5 0.01
695 6 0.01
696 9 0.02
697 13 0.02
700 4 0.01
703 10 0.02
705 12 0.02
706 76 0.14
708 7 0.01
709 41 0.07
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (695 bp):
TGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAAGAAATAAAATACAAAAA
AATATAAAATATAAAATAAACAAAAATGCGATAAAAAATATAAGAAGTAAGAAAATCAAAAATAA
AAAAAGAGAAAAAGAAATGAAATGAAAATAAAAAAAAAACAAAAAATTAAAAAACATACAAAAAT
ATAAGAAAACAATATAAAAAATAAAGACAAAAAATTAAAAAGAGAAAGTCAATGCAAAATAAAAA
TGAAAACAAAAGAAGAAAATGCAACAAAAAAAAACTATAAGAATTTAAAAATGAAAATAAGAAAT
AAAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAATGAAAAGATTTATGAAAAAAAAGCCA
AGTATAAAAAAAATGGAAACAAGAAATAAAAAGAATTTTGTGAAAAAAATTAGAAAAACAAGAAA
AAATGAAAAATTGAAGAGACAAAAATATGAAATTAAATAAAAAGATGAAAAAGATAACTAAAAAA
TGAAAAAAAAAAGAAAAATATAAAAACAAAAAAAAATATGAACCACACGAAAAGATAAGAAAAAA
TGAAAAGAAAAAAAAAATAAGAAAAATGATAAAAATAAACAAAAAATAACCAACAACGATAAATA
AAAAAAGAAAACATGAAAAAGTTATGAAAACATGAATAAAAATTA
Found at i:410704 original size:20 final size:21
Alignment explanation
Indices: 410679--410727 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
410669 TAAAATAAGA
*
410679 AAAAAATATTAAAGCAAA-AC
1 AAAAAATATTAAAGAAAATAC
* *
410699 AAAAAAGA-TAAATAAAATAC
1 AAAAAATATTAAAGAAAATAC
410719 AAAAAATAT
1 AAAAAATAT
410728 ATATAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAATATTAAAGAAAATAC
Found at i:410843 original size:19 final size:19
Alignment explanation
Indices: 410819--410864 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
410809 AAATGAAATG
410819 AAAAAATACAAAAAAAAAC
1 AAAAAATACAAAAAAAAAC
** * *
410838 AAAAAATTGAAAAACATAC
1 AAAAAATACAAAAAAAAAC
410857 AAAAAATA
1 AAAAAATA
410865 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.78, C:0.09, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAAATACAAAAAAAAAC
Found at i:411196 original size:19 final size:19
Alignment explanation
Indices: 411172--411214 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
411162 AAAGTTTTCT
* * *
411172 AAAAATTTTTAAAACAAAG
1 AAAAATTGTGAAAACAAAA
411191 AAAAA-TGTGAAAACAAAA
1 AAAAATTGTGAAAACAAAA
411209 AAAAAT
1 AAAAAT
411215 ATGAAAGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAAATTGTGAAAACAAAA
Found at i:411203 original size:18 final size:18
Alignment explanation
Indices: 411182--411220 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
411172 AAAAATTTTT
* *
411182 AAAACAAAGAAAAATGTG
1 AAAACAAAAAAAAATATG
411200 AAAACAAAAAAAAATATG
1 AAAACAAAAAAAAATATG
411218 AAA
1 AAA
411221 GCACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAACAAAAAAAAATATG
Found at i:411331 original size:8 final size:8
Alignment explanation
Indices: 411306--411353 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
411296 AACAACAACG
411306 ATAAATAAA
1 ATAAA-AAA
411315 A-AAAGAAA
1 ATAAA-AAA
*
411323 AGAAAAAA
1 ATAAAAAA
411331 ATAAAAAA
1 ATAAAAAA
411339 ATAAAAAA
1 ATAAAAAA
411347 ATAAAAA
1 ATAAAAA
411354 CATGATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
8 32 0.89
9 4 0.11
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.10
Consensus pattern (8 bp):
ATAAAAAA
Found at i:411537 original size:28 final size:28
Alignment explanation
Indices: 411520--411574 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
411510 TGAAATGAAA
411520 TGAAAAAATACAAAAAAAATACAAAAAT
1 TGAAAAAATACAAAAAAAATACAAAAAT
* *
411548 TGAAAAAATACAAAAATAATAAAAAAA
1 TGAAAAAATACAAAAAAAATACAAAAA
411575 CAATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (28 bp):
TGAAAAAATACAAAAAAAATACAAAAAT
Found at i:411538 original size:11 final size:11
Alignment explanation
Indices: 411522--411546 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
411512 AAATGAAATG
411522 AAAAAATACAA
1 AAAAAATACAA
411533 AAAAAATACAA
1 AAAAAATACAA
411544 AAA
1 AAA
411547 TTGAAAAAAT
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAATACAA
Found at i:411577 original size:17 final size:18
Alignment explanation
Indices: 411523--411577 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
411513 AATGAAATGA
*
411523 AAAAATACAAAAAAAATAC
1 AAAAATA-ATAAAAAATAC
411542 AAAAAT--TGAAAAAATAC
1 AAAAATAAT-AAAAAATAC
411559 AAAAATAATAAAAAA-AC
1 AAAAATAATAAAAAATAC
411576 AA
1 AA
411578 TATAAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 19 0.59
18 6 0.19
19 7 0.22
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAATAATAAAAAATAC
Found at i:411668 original size:711 final size:707
Alignment explanation
Indices: 410527--413279 Score: 2886
Period size: 711 Copynumber: 3.9 Consensus size: 707
410517 TAAATAAAAG
410527 ATGAAAAGATAAGT-AAAAAATG-AAAGGG-AAAA-AGTTAATGAAAAATTATAAAAATAAAACA
1 ATGAAAAGATAAGTAAAAAAATGAAAAGGGAAAAAGAGTTAATGAAAAATTATAAAAATAAAAC-
* *
410588 AAAAATAACCAACAACGATAAAT---AAAA-AAAATAAAAAAAT-----A-A-AAAAAT-A-AAA
65 AAAAATAAACAACAACGATAAATAAAAAAAGAAAAGAAAAAAATAAAAAACATAAAAATAATAAA
* *
410640 AACAT-GATA-AAAATTTATGAAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAA
130 AACATAAATAGAAAATTTAAG-AAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAA
*
410703 AAGATAAATAAAATACAAAAAATATATATAATATAAAATAAACAAAAATGCGAATAAAAAATATA
194 AAGATAAATAAAATACAAAAAA-ATATAAAATAT-AAATAAACAAAAATGCG-ATAAAAAATATA
*
410768 AGAAGTAAGAAAATCAAAAATAAAAAAAAAAAACAGAAATGAAATGAAATGAAAAAATACAAAAA
256 AGAAGTAAGAAAATCAAAAAT-AAAAAAAAAGACA-AAATGAAATGAAATGAAAAAATACAAAAA
* * * * * *
410833 AAA-ACAAAAAATTGAAAAACATACAAAAAATAATATAAAAAATCAAAGACAAAATTAAA-AATG
319 AAATAC-AAAAATTGAAAAACATAC-AAAAATAATA-AGAAAA-C-AATATAAAATCAAAGACTA
* *
410896 A-GAAAAGTTAATGCAAATAAAAAATGAAAACAAAAGAAGAAAATGCAACAACAAAAAACTATAA
379 AGGAAAAATTAA-ACAAAT-AAAAATGAAAACAAAAGAAGAAAATGCAACAA-AAAAAACTATAA
* *
410960 GAATTTAAAAATTAAAATAAGAAAT-AAAAGAAATTTGTAAAAGAATTAGGAAAAGAATAAAAAT
441 GAATTTAAAAATGAAAATAAGAAATAAAAAGAAATTTGTAAAAGAATTAAGAAAAGAATAAAAAT
*
411024 G-AA-A-AGATTTATGAAAAAAAAATCC-AAGTATAAAAAAAAATGGAAACAAGAAATAAAAAAA
506 GAAAGACAGATTTATG-AAAAAAAATCCGAAGTATAAAAAAAAATGGAAACAAGAAATAAAAAGA
* * **
411085 ATTTTGTGAAAAAAATT-AGAAAACAAGAAAAAATAAAAAATGAAGAGACAAAAATATGAAATTA
570 ATTTTGTGAAAAAAATTAAAAAAACAAG-AAAAATAAAAAATGAAGAGGCAAAAATATGAAACAA
411149 AATAAAAGATGAAAAAGTTTTCTAAAAATTTTTAAAACAAAGAAAAATGTGAAAACAAAAAAAAA
634 AATAAAAGATGAAAAAGTTTT-TAAAAATTTTTAAAACAAAGAAAAATGTGAAAAC-AAAAAAAA
411214 TATGAAAGCAC
697 TATGAAAGCAC
411225 ATGAAAAGATAAGTAAAAAAATGAAAAGGGAAAAAGAGTTAATGAAAAATTATAAAAATAAAACA
1 ATGAAAAGATAAGTAAAAAAATGAAAAGGGAAAAAGAGTTAATGAAAAATTATAAAAATAAAACA
411290 AAAATAAACAACAACGATAAATAAAAAAAGAAAAGAAAAAAATAAAAAA-ATAAAAA-AATAAAA
66 AAAATAAACAACAACGATAAATAAAAAAAGAAAAGAAAAAAATAAAAAACATAAAAATAATAAAA
* *
411353 ACAT-GATA-AAAATTTATGAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAAC-AAAAA
131 ACATAAATAGAAAATTTAAGAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAA
411415 GATAAAT-AAATACAAAAAAATATAAAATATTAAAATAAACAAAAATGCGAT-AAAAATATAAGA
196 GATAAATAAAATACAAAAAAATATAAAATA-T-AAATAAACAAAAATGCGATAAAAAATATAAGA
411478 AGTAAG-AAATCAAAAAT-AAAAAAAAGACAAAATGAAATGAAATGAAAAAATACAAAAAAAATA
259 AGTAAGAAAATCAAAAATAAAAAAAAAGACAAAATGAAATGAAATGAAAAAATACAAAAAAAATA
*
411541 CAAAAATTGAAAAA-ATACAAAAATAATAAAAAAACAATATAAAAATCAAAGACAAAATTAAAAA
324 CAAAAATTGAAAAACATACAAAAATAATAAGAAAACAATAT-AAAATCAAAGAC-----T---AA
*
411605 TGAGAAAAAGTTAATACAAATTAAAAATTG-AAACAAAAGAAGAAAATGCAACAACAAAAACTAT
380 -G-GAAAAA-TTAA-ACAAA-TAAAAA-TGAAAACAAAAGAAGAAAATGCAACAAAAAAAACTAT
*
411669 AAGAATTTAAAAATG-AAATAAGAAAT-AAAAGAAATTTGTTAAAAGAATTAAGAGAAGAAT-AA
439 AAGAATTTAAAAATGAAAATAAGAAATAAAAAGAAATTTG-TAAAAGAATTAAGAAAAGAATAAA
*
411731 AATGAAA-AGA-ATTTATGAAAAAAAATCCAAAGAAGTAT-AAAAAAAATGGAAACAAGAAATAA
503 AATGAAAGACAGATTTATGAAAAAAAATCC---GAAGTATAAAAAAAAATGGAAACAAGAAATAA
411793 AAAGAATTTTGTG-AAAAAATTAAAAAAACAAGAAAAATAAAAAATGAAGAGGC-AAAATATGAA
565 AAAGAATTTTGTGAAAAAAATTAAAAAAACAAGAAAAATAAAAAATGAAGAGGCAAAAATATGAA
* * * * *
411856 ACAAAATATAAA-A-GAAAAAAGTTTATGAGATATTTTTAAAACAAAGAAAAATGTGGAACCAAA
630 ACAAAATA-AAAGATG-AAAAAGTTT-TTAAAAATTTTTAAAACAAAGAAAAATGTGAAAACAAA
411919 AAAAATACTGAAAGCAC
692 AAAAATA-TGAAAGCAC
*
411936 ATGAAAAGATAAGTAAAATGAAAAATTTTAATAATGGAAAAAAAGAAGAAAGAAAAGCAAGTTAA
1 ATGAAAAGATAAG-----T---AAA----AA-AAT-G---AAAAG--G-GA-AAAAG--AGTTAA
* * *
412001 TGAAAAA-TAT-AAAATAAAAGAAAAAATAACCAACAACGATAAATAAAAAAAG-ATAGAAAAAT
43 TGAAAAATTATAAAAATAAAA-CAAAAATAAACAACAACGATAAATAAAAAAAGAAAAGAAAAA-
* * * *
412063 AA-AAAAAACATGATAAAATTATTAAAATCATAAATAGAAAA---AAGAAAAAAACAAAATAAAT
106 AATAAAAAACAT-A-AAAA-TAATAAAAACATAAATAGAAAATTTAAGAAATAAA-AATA-AAAT
412124 AA-AGAAAAAATAATTAAAGCAAAAC--AAAAGAT-AA-AAAATACAAAAAAATAT--AATATAA
166 AAGA-AAAAAAT-ATTAAAGCAAAACAAAAAAGATAAATAAAATACAAAAAAATATAAAATATAA
* *
412182 ATAAAC-AAAATACGAT--AAAATATAAGAAGTAAGAAAATCAAAATAAAAAATAAAAAAAGA-A
229 ATAAACAAAAATGCGATAAAAAATATAAGAAGTAAGAAAATC--AA-AAATAA-AAAAAAAGACA
* * *
412243 AGAAGTGAAATGAAATGAGAAAATATAAAAAAAATACAAAAATTGAAAAACATATAAAAAT-ATA
290 A-AA-TGAAATGAAATGAAAAAATACAAAAAAAATACAAAAATTGAAAAACATACAAAAATAATA
412307 AGAAAACAATATAAAATCAAAG-C-----AAAAA-T-------TAAAAATGAAAAC-AAAGAAGA
353 AGAAAACAATATAAAATCAAAGACTAAGGAAAAATTAAACAAATAAAAATGAAAACAAAAGAAGA
*
412357 AAATGCAACAAAAAAAAACTATAAGAATTTAAAAATGAAAACAAGAAATAAAAAGAAATTTGTAA
418 AAATGCAAC-AAAAAAAACTATAAGAATTTAAAAATGAAAATAAGAAATAAAAAGAAATTTGTAA
*
412422 AAGAATTAAGAAAAGAATAAAAATGAAAGACAAATTTATGAAAAAAAATCCTAGGAAGTAT-AAA
482 AAGAATTAAGAAAAGAATAAAAATGAAAGACAGATTTATGAAAAAAAATCC---GAAGTATAAAA
* * *
412486 AATAATGGAAACAAGAAATAAAAAGAATTTTGTGAAAAAAATTAGAAACACAAGAAAAATAAAAA
544 AAAAATGGAAACAAGAAATAAAAAGAATTTTGTGAAAAAAATTAAAAAAACAAGAAAAATAAAAA
*
412551 ATGAAAAGGCAAAAATATGAAACAAAATAAAAGAT-AAAATAGTTTTTATAGAAATTTTTAAAAC
609 ATGAAGAGGCAAAAATATGAAACAAAATAAAAGATGAAAA-AGTTTTTA-A-AAATTTTTAAAAC
*
412615 AAAGAAAAATGTGAAAACAAAAAAAATATGAAAACAC
671 AAAGAAAAATGTGAAAACAAAAAAAATATGAAAGCAC
* **** ** *
412652 ATG--AAGATAAGTAAAAAAGTGAAAAATTTAAAAGA-AAAAGGAAAAATGTTAATGAAAAATTA
1 ATGAAAAGATAAGTAAAAAAATGAAAAGGGAAAAAGAGTTAATGAAAAA--TT-AT-AAAAA-TA
* * * * *
412714 CAAA-AATAACAAATAACAACGATAAATAAAAAAAGATAGAAAAATAAAAAAATAAAAACATGAT
61 -AAACAAAAATAAACAACAACGATAAAT--AAAAA-A-AG-AAAAGAAAAAAATAAAAA-A-CAT
* * * ** * *
412778 AAAAATTTATGAAAATATAAATAAAGAAAGAGATAAAAAATAAAAAT-AAATAAGAAAGAAATAT
118 AAAAA-TAATAAAAACATAAAT--AGAAA-ATTTAAGAAATAAAAATAAAATAAGAAAAAAATAT
*
412842 TAAAGCAAAACAAAAAAGATAAATAAAATAC-AAAAAATATAAAATATAAA-CAACAAAAAATGC
179 TAAAGCAAAACAAAAAAGATAAATAAAATACAAAAAAATATAAAATATAAATAAAC-AAAAATGC
412905 GATAAAAAATATAAGAAGTAAGAAAATCAAAAATTAAAAATTAAAAAAGAC-AAATGAAATGAAA
243 GATAAAAAATATAAGAAGTAAGAAAATCAAAAA-T--AAA--AAAAAAGACAAAATGAAATGAAA
* * *
412969 TTGAAAAAATAGAAAAAAAATAAAAAAAATTGAAAAACATATAAAACATAATAAGAAAACAATAT
303 -TGAAAAAATACAAAAAAAAT-ACAAAAATTGAAAAACATACAAAA-ATAATAAGAAAACAATAT
* **
413034 -AAA--AAA-TCTAAGCCAAAA--AAAC---TAAAAATGAAAACAAAAGAAGAAAATGCAACAAA
365 AAAATCAAAGACTAAGGAAAAATTAAACAAATAAAAATGAAAACAAAAGAAGAAAATGCAACAAA
*** *
413090 AAAAACTATTATTTATTTAAAAATGAAAATATG-AATAAAAAGAAATTTGTAAAAGAATTAAGAA
430 AAAAACTA-TAAGAATTTAAAAATGAAAATAAGAAATAAAAAGAAATTTGTAAAAGAATTAAGAA
*
413154 AAGGAATAAAAATGAAAAGACAGATTTATGAAAAAAAAAATCCTAGGAAGTATAAAAAAAAATAG
494 AA-GAATAAAAATG-AAAGACAGATTTATG--AAAAAAAATCC---GAAGTATAAAAAAAAATGG
*
413219 AAACAAGAAATAAAAAGAATTTTGTGAAAAATTATTAAAAAAACAAGAAAAAAATAAAAAA
552 AAACAAGAAATAAAAAGAATTTTGTGAAAAA-AATTAAAAAAACAAG--AAAAATAAAAAA
413280 GCAAAAAAGC
Statistics
Matches: 1786, Mismatches: 99, Indels: 310
0.81 0.05 0.14
Matches are distributed among these distances:
690 8 0.00
691 1 0.00
693 6 0.00
694 2 0.00
696 23 0.01
697 6 0.00
698 25 0.01
699 18 0.01
700 16 0.01
701 40 0.02
702 62 0.03
703 47 0.03
704 37 0.02
705 26 0.01
706 22 0.01
707 31 0.02
708 30 0.02
709 62 0.03
710 112 0.06
711 220 0.12
712 163 0.09
713 82 0.05
714 81 0.05
715 61 0.03
716 36 0.02
717 42 0.02
719 4 0.00
720 57 0.03
721 52 0.03
722 14 0.01
723 2 0.00
724 24 0.01
725 41 0.02
726 12 0.01
728 17 0.01
730 1 0.00
731 18 0.01
732 42 0.02
733 45 0.03
734 17 0.01
735 11 0.01
736 12 0.01
737 52 0.03
738 80 0.04
739 26 0.01
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (707 bp):
ATGAAAAGATAAGTAAAAAAATGAAAAGGGAAAAAGAGTTAATGAAAAATTATAAAAATAAAACA
AAAATAAACAACAACGATAAATAAAAAAAGAAAAGAAAAAAATAAAAAACATAAAAATAATAAAA
ACATAAATAGAAAATTTAAGAAATAAAAATAAAATAAGAAAAAAATATTAAAGCAAAACAAAAAA
GATAAATAAAATACAAAAAAATATAAAATATAAATAAACAAAAATGCGATAAAAAATATAAGAAG
TAAGAAAATCAAAAATAAAAAAAAAGACAAAATGAAATGAAATGAAAAAATACAAAAAAAATACA
AAAATTGAAAAACATACAAAAATAATAAGAAAACAATATAAAATCAAAGACTAAGGAAAAATTAA
ACAAATAAAAATGAAAACAAAAGAAGAAAATGCAACAAAAAAAACTATAAGAATTTAAAAATGAA
AATAAGAAATAAAAAGAAATTTGTAAAAGAATTAAGAAAAGAATAAAAATGAAAGACAGATTTAT
GAAAAAAAATCCGAAGTATAAAAAAAAATGGAAACAAGAAATAAAAAGAATTTTGTGAAAAAAAT
TAAAAAAACAAGAAAAATAAAAAATGAAGAGGCAAAAATATGAAACAAAATAAAAGATGAAAAAG
TTTTTAAAAATTTTTAAAACAAAGAAAAATGTGAAAACAAAAAAAATATGAAAGCAC
Found at i:412133 original size:15 final size:15
Alignment explanation
Indices: 412098--412147 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
412088 AATCATAAAT
*
412098 AGAAAAAAGAAA-AA
1 AGAAAAAATAAATAA
*
412112 A-ACAAAATAAATAA
1 AGAAAAAATAAATAA
*
412126 AGAAAAAATAATTAA
1 AGAAAAAATAAATAA
412141 AGCAAAA
1 AG-AAAA
412148 CAAAAGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
15 13 0.45
16 4 0.14
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (15 bp):
AGAAAAAATAAATAA
Found at i:412134 original size:53 final size:53
Alignment explanation
Indices: 412039--412141 Score: 122
Period size: 53 Copynumber: 1.9 Consensus size: 53
412029 ACCAACAACG
* * * *
412039 ATAAATAAAAAAAGATAGAAAAATAAAAAAAACATGATAAAATTATTAAAATC
1 ATAAATAAAAAAAGATAGAAAAACAAAAAAAACAAGAAAAAATAATTAAAATC
412092 ATAAATAGAAAAAAGA-A-AAAAACAAAATAAATA-AAGAAAAAATAATTAAA
1 ATAAATA-AAAAAAGATAGAAAAACAAAA-AAA-ACAAGAAAAAATAATTAAA
412142 GCAAAACAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
52 9 0.21
53 25 0.58
54 9 0.21
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (53 bp):
ATAAATAAAAAAAGATAGAAAAACAAAAAAAACAAGAAAAAATAATTAAAATC
Found at i:412314 original size:20 final size:19
Alignment explanation
Indices: 412262--412322 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
412252 ATGAAATGAG
* *
412262 AAAATATAAAAAAAATACA
1 AAAATATAAAAAACATATA
*
412281 AAAAT-TGAAAAACATATA
1 AAAATATAAAAAACATATA
412299 AAAATATAAGAAAACAATATA
1 AAAATATAA-AAAAC-ATATA
412320 AAA
1 AAA
412323 TCAAAGCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.43
19 7 0.20
20 5 0.14
21 8 0.23
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATATAAAAAACATATA
Found at i:412639 original size:17 final size:18
Alignment explanation
Indices: 412610--412650 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
412600 AGAAATTTTT
*
412610 AAAACAAAGAAAAATGTG
1 AAAACAAAGAAAAATATG
412628 AAAACAAA-AAAAATATG
1 AAAACAAAGAAAAATATG
412645 AAAACA
1 AAAACA
412651 CATGAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.73, C:0.07, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAACAAAGAAAAATATG
Found at i:412710 original size:21 final size:20
Alignment explanation
Indices: 412664--412703 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
412654 GAAGATAAGT
412664 AAAAAAGTGAAAAATTTAAA
1 AAAAAAGTGAAAAATTTAAA
412684 AGAAAAAG-GAAAAATGTTAA
1 A-AAAAAGTGAAAAAT-TTAA
412704 TGAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (20 bp):
AAAAAAGTGAAAAATTTAAA
Found at i:412894 original size:20 final size:19
Alignment explanation
Indices: 412848--412899 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
412838 ATATTAAAGC
412848 AAAACAAAAAAGATAAATA
1 AAAACAAAAAAGATAAATA
*
412867 AAATACAAAAAATATAAAATA
1 AAA-ACAAAAAAGAT-AAATA
*
412888 TAAACAACAAAA
1 AAAACAA-AAAA
412900 AATGCGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 14 0.50
21 11 0.39
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.13
Consensus pattern (19 bp):
AAAACAAAAAAGATAAATA
Found at i:412989 original size:20 final size:20
Alignment explanation
Indices: 412972--413039 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
412962 AATGAAATTG
412972 AAAAAATAGAAAAAAAATAA
1 AAAAAATAGAAAAAAAATAA
* *
412992 AAAAAATTGAAAAACATATAA
1 AAAAAATAGAAAAA-AAATAA
* *
413013 AACATAATAAGAAAACAATATAA
1 AA-AAAAT-AGAAAA-AAAATAA
413036 AAAA
1 AAAA
413040 TCTAAGCCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 13 0.33
21 7 0.18
22 5 0.13
23 13 0.33
24 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAAATAGAAAAAAAATAA
Found at i:413420 original size:20 final size:20
Alignment explanation
Indices: 413379--413421 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
413369 AGAAATTTTT
*
413379 AAAACAAAAGAAAAAATGTG
1 AAAACAAAAGAAAAAATATG
413399 AAAACAAAA-AAAAATATATG
1 AAAACAAAAGAAAAA-ATATG
413419 AAA
1 AAA
413422 GCACATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAACAAAAGAAAAAATATG
Found at i:413642 original size:10 final size:11
Alignment explanation
Indices: 413622--413648 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
413612 AAAATAAACC
413622 AAATAAAAAAA
1 AAATAAAAAAA
413633 AAATAAAAAAA
1 AAATAAAAAAA
413644 AAATA
1 AAATA
413649 TTAAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (11 bp):
AAATAAAAAAA
Done.