Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 53 of 126
Found at i:10536473 original size:27 final size:26
Alignment explanation
Indices: 10536443--10536497 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
10536433 AAATAAGATG
10536443 ATATCATCTAATC-TATTCCTATTCATA
1 ATATCATCTAATCTTA-TCCTA-TCATA
*
10536470 ATATCATCTTATCTTATCCTATCATA
1 ATATCATCTAATCTTATCCTATCATA
10536496 AT
1 AT
10536498 TTTGTGTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 17 0.65
28 2 0.08
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
ATATCATCTAATCTTATCCTATCATA
Found at i:10543519 original size:8 final size:8
Alignment explanation
Indices: 10543506--10543531 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10543496 TCCAATATGT
10543506 AAAAAATA
1 AAAAAATA
10543514 AAAAAATA
1 AAAAAATA
10543522 AAAAAATA
1 AAAAAATA
10543530 AA
1 AA
10543532 TCTTAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:10546425 original size:15 final size:16
Alignment explanation
Indices: 10546393--10546426 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10546383 TTATTGATTT
10546393 TTAAAATCAAATTAGA
1 TTAAAATCAAATTAGA
*
10546409 TTAAATTCAAATT-GA
1 TTAAAATCAAATTAGA
10546424 TTA
1 TTA
10546427 TTTGATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (16 bp):
TTAAAATCAAATTAGA
Found at i:10547391 original size:23 final size:23
Alignment explanation
Indices: 10547360--10547413 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
10547350 TTTTAATAAG
* *
10547360 TTTTCATTTGTGTTGTAGTTATTA
1 TTTT-ATTTATGTTATAGTTATTA
*
10547384 TTTTATTTATGTTATATTTATTA
1 TTTTATTTATGTTATAGTTATTA
10547407 TTTTATT
1 TTTTATT
10547414 AAATTAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.69
Consensus pattern (23 bp):
TTTTATTTATGTTATAGTTATTA
Found at i:10554977 original size:16 final size:16
Alignment explanation
Indices: 10554956--10555118 Score: 85
Period size: 16 Copynumber: 9.9 Consensus size: 16
10554946 AAAAAAAATT
*
10554956 AATAATTTGAATTTAA
1 AATAATTTAAATTTAA
*** *
10554972 AATAATTCGTATTAAAA
1 AATAATTTAAATT-TAA
*
10554989 AATAACTTAAATTTAA
1 AATAATTTAAATTTAA
* * * *
10555005 AGTATGATTCAAAGTTGA
1 A--ATAATTTAAATTTAA
*
10555023 AATAATTTAATTTTAA
1 AATAATTTAAATTTAA
*
10555039 AATAATTTAAATTCAA
1 AATAATTTAAATTTAA
* *
10555055 AATGATTTAAACTT-A
1 AATAATTTAAATTTAA
** *
10555070 AATTGTTTCAAACTTAA
1 AATAATTT-AAATTTAA
* *
10555087 ATTATTTTAAATTTAA
1 AATAATTTAAATTTAA
* *
10555103 ATTAAATATAAATTTA
1 AAT-AATTTAAATTTA
10555119 TTTTTAAAAA
Statistics
Matches: 110, Mismatches: 31, Indels: 11
0.72 0.20 0.07
Matches are distributed among these distances:
15 7 0.06
16 65 0.59
17 27 0.25
18 11 0.10
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:10557642 original size:21 final size:21
Alignment explanation
Indices: 10557620--10557688 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 21
10557610 AAATTTTAAA
10557620 TTTAAAATAATTCAAAAAGAAT
1 TTTAAAAT-ATTCAAAAAGAAT
*
10557642 TTTAAAATTTTC--AAA-AAT
1 TTTAAAATATTCAAAAAGAAT
* *
10557660 TTTGAAATATTCAAAAAAAAT
1 TTTAAAATATTCAAAAAGAAT
10557681 TCTTAAAA
1 T-TTAAAA
10557689 AATTATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 13 0.33
19 3 0.08
20 3 0.08
21 7 0.18
22 13 0.33
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (21 bp):
TTTAAAATATTCAAAAAGAAT
Found at i:10557725 original size:21 final size:21
Alignment explanation
Indices: 10557674--10557725 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 21
10557664 AAATATTCAA
*
10557674 AAAAAATTCTTAAAAAATTAT
1 AAAAAATTTTTAAAAAATTAT
** * * *
10557695 AAAAGTTTTTTTAAGAATTCT
1 AAAAAATTTTTAAAAAATTAT
10557716 AAAAAATTTT
1 AAAAAATTTT
10557726 AATAAACTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAAATTTTTAAAAAATTAT
Found at i:10557795 original size:19 final size:18
Alignment explanation
Indices: 10557744--10557805 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
10557734 TTCTATATAG
10557744 AAAAATATCAAAATTTTTCAA
1 AAAAATAT-AAAATTTTT--A
*
10557765 AAAAATAGAAAATTTTTA
1 AAAAATATAAAATTTTTA
**
10557783 AAAAATTATAAAAAGTTTA
1 AAAAA-TATAAAATTTTTA
10557802 AAAA
1 AAAA
10557806 TTTTGTGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.17
19 14 0.39
20 9 0.25
21 7 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAATTTTTA
Found at i:10557796 original size:20 final size:19
Alignment explanation
Indices: 10557744--10557805 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
10557734 TTCTATATAG
*
10557744 AAAAATATCAAAATTTTTCA
1 AAAAATATAAAAATTTTT-A
10557764 AAAAA-ATAGAAAATTTTTA
1 AAAAATATA-AAAATTTTTA
*
10557783 AAAAATTATAAAAA-GTTTA
1 AAAAA-TATAAAAATTTTTA
10557802 AAAA
1 AAAA
10557806 TTTTGTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 16 0.43
20 18 0.49
21 3 0.08
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAATATAAAAATTTTTA
Found at i:10557855 original size:20 final size:20
Alignment explanation
Indices: 10557832--10557875 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
10557822 AAAAAACTTG
10557832 AAATTTTAATAAAAATA-AAA
1 AAATTTTAA-AAAAATATAAA
*
10557852 AAA-TTTAAAAATATATAAA
1 AAATTTTAAAAAAATATAAA
10557871 AAATT
1 AAATT
10557876 AAATTTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATTTTAAAAAAATATAAA
Found at i:10557956 original size:18 final size:18
Alignment explanation
Indices: 10557917--10557965 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
10557907 TCAAAATTTT
* * *
10557917 TTTATAAATTTTTTAAAT
1 TTTATATATTTTTAAAAG
10557935 TTTATATATTTTTAAAAG
1 TTTATATATTTTTAAAAG
*
10557953 TTTAGAT-TTTTTA
1 TTTATATATTTTTA
10557966 TTTTAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTATATATTTTTAAAAG
Found at i:10558100 original size:11 final size:11
Alignment explanation
Indices: 10558084--10558122 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
10558074 AAGTTTCCTT
10558084 AATTTTTTTAG
1 AATTTTTTTAG
*
10558095 AA-TTTTTTAA
1 AATTTTTTTAG
*
10558105 AAGTTTTTTAG
1 AATTTTTTTAG
10558116 AATTTTT
1 AATTTTT
10558123 AATATTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
AATTTTTTTAG
Found at i:10558159 original size:11 final size:10
Alignment explanation
Indices: 10558087--10558256 Score: 81
Period size: 10 Copynumber: 17.5 Consensus size: 10
10558077 TTTCCTTAAT
*
10558087 TTTTTTAGAA
1 TTTTTTAAAA
10558097 TTTTTTAAAA
1 TTTTTTAAAA
*
10558107 GTTTTTTAGAA
1 -TTTTTTAAAA
*
10558118 -TTTTTAATA
1 TTTTTTAAAA
*
10558127 -TTATT-AAA
1 TTTTTTAAAA
* * *
10558135 CTTTTTAGAG
1 TTTTTTAAAA
10558145 TTTTTTAAAA
1 TTTTTTAAAA
10558155 TTTTTTAAAA
1 TTTTTTAAAA
10558165 TATTTTT---A
1 T-TTTTTAAAA
*
10558173 TTTTTCTATAA
1 TTTTT-TAAAA
10558184 -TTTTTAAAA
1 TTTTTTAAAA
10558193 TATTTTT--AA
1 T-TTTTTAAAA
10558202 TTTTTT-AAA
1 TTTTTTAAAA
** *
10558211 TTATTTTTGAG
1 TT-TTTTAAAA
***
10558222 TTTTTTTTTA
1 TTTTTTAAAA
*
10558232 TTTTTTATAA
1 TTTTTTAAAA
10558242 TTTTTTAAAA
1 TTTTTTAAAA
*
10558252 ATTTT
1 TTTTT
10558257 CTTTTAATGC
Statistics
Matches: 125, Mismatches: 22, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
7 4 0.03
8 10 0.08
9 26 0.21
10 62 0.50
11 23 0.18
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:10558176 original size:28 final size:28
Alignment explanation
Indices: 10558145--10558256 Score: 111
Period size: 28 Copynumber: 3.9 Consensus size: 28
10558135 CTTTTTAGAG
10558145 TTTTTTAAAATTTTTTAAAATATTTTTA
1 TTTTTTAAAATTTTTTAAAATATTTTTA
*
10558173 TTTTTCTATAA-TTTTTAAAATATTTTTAA
1 TTTTT-TAAAATTTTTTAAAATATTTTT-A
* *** *
10558202 TTTTTTAAATTATTTTTGAGTTTTTTTTTA
1 TTTTTTAAA--ATTTTTTAAAATATTTTTA
*
10558232 TTTTTTATAATTTTTTAAAA-ATTTT
1 TTTTTTAAAATTTTTTAAAATATTTT
10558257 CTTTTAATGC
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
27 4 0.06
28 31 0.47
29 10 0.15
30 10 0.15
31 11 0.17
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTTAAAATTTTTTAAAATATTTTTA
Found at i:10558188 original size:48 final size:47
Alignment explanation
Indices: 10558088--10558256 Score: 148
Period size: 48 Copynumber: 3.5 Consensus size: 47
10558078 TTCCTTAATT
* * *
10558088 TTTTTAGAATTTTTTAAAAGTTTTTTAGAAT-TTTTAATATTATTA-AA
1 TTTTTAGAATTTTTTAAAA-TTTTTTAAAATATTTTTAT-TTTTTATAA
*
10558135 CTTTTTAGAGTTTTTTAAAATTTTTTAAAATATTTTTATTTTTCTATAA
1 -TTTTTAGAATTTTTTAAAATTTTTTAAAATATTTTTATTTTT-TATAA
* * * *
10558184 TTTTTAAAATATTTTT--AATTTTTTAAATTATTTTTGAGTTTTTTTTTAT
1 TTTTTAGAAT-TTTTTAAAATTTTTTAAAATATTTTT-A--TTTTTTATAA
* *
10558233 TTTTTATAATTTTTTAAAAATTTT
1 TTTTTAGAATTTTTTAAAATTTTT
10558257 CTTTTAATGC
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
47 31 0.31
48 40 0.40
49 19 0.19
50 11 0.11
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (47 bp):
TTTTTAGAATTTTTTAAAATTTTTTAAAATATTTTTATTTTTTATAA
Found at i:10558207 original size:58 final size:54
Alignment explanation
Indices: 10558082--10558256 Score: 138
Period size: 58 Copynumber: 3.0 Consensus size: 54
10558072 TTAAGTTTCC
* * * *
10558082 TTAATTTTTTTAGAATTTTTTAAAAGTTTTTTAGAATTTTTA-ATATTATT-AAACTTT
1 TTAA-TTTTTTAAAATTTTTTAAAA-TTTTTT--ATTTTTTATA-ATTTTTAAAAATTT
10558139 TTAGAGTTTTTTAAAATTTTTTAAAATATTTTTATTTTTCTATAATTTTTAAAATATTT
1 TTA-A-TTTTTTAAAATTTTTTAAAAT-TTTTTATTTTT-TATAATTTTTAAAA-ATTT
* ***
10558198 TTAATTTTTTAAATTATTTTTGAGTTTTTTTTTATTTTTTATAATTTTTTAAAAATTT
1 TTAATTTTTTAAA--ATTTTTTA-AAATTTTTTATTTTTTATAA-TTTTTAAAAATTT
10558256 T
1 T
10558257 CTTTTAATGC
Statistics
Matches: 99, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
56 5 0.05
57 20 0.20
58 40 0.40
59 33 0.33
60 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (54 bp):
TTAATTTTTTAAAATTTTTTAAAATTTTTTATTTTTTATAATTTTTAAAAATTT
Found at i:10558646 original size:17 final size:17
Alignment explanation
Indices: 10558606--10558648 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
10558596 CCACGTAAAA
*
10558606 TATATTATTTTTATATT
1 TATATTATTTGTATATT
*
10558623 T-TAATTATTTGTGTATT
1 TAT-ATTATTTGTATATT
10558640 TATATTATT
1 TATATTATT
10558649 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TATATTATTTGTATATT
Found at i:10558764 original size:38 final size:37
Alignment explanation
Indices: 10558690--10558768 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 37
10558680 TGTGTTATGA
10558690 TTTAATAATAAATATTTTCAATATAAAATATAACTAT
1 TTTAATAATAAATATTTTCAATATAAAATATAACTAT
*
10558727 TTTAATAGCATAAATATTTT-AATA-ACAAATATTACTAT
1 TTTAATA--ATAAATATTTTCAATATA-AAATATAACTAT
10558765 TTTA
1 TTTA
10558769 TATTATTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
37 8 0.21
38 19 0.50
39 11 0.29
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.44
Consensus pattern (37 bp):
TTTAATAATAAATATTTTCAATATAAAATATAACTAT
Found at i:10558847 original size:29 final size:28
Alignment explanation
Indices: 10558762--10558854 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
10558752 CAAATATTAC
* * *
10558762 TATTTTATATTATT-ATATTAATAAAAAA
1 TATTTTAAAATATTAATA-TAATAATAAA
**
10558790 TATTTTAATAATATTAATACT-ATTTTAAA
1 TATTTTAA-AATATTAATA-TAATAATAAA
10558819 TATTTTAAAATATTAATATAAATAATAAA
1 TATTTTAAAATATTAATAT-AATAATAAA
10558848 TAATTTT
1 T-ATTTT
10558855 GTTTTAAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 17 0.33
29 25 0.48
30 9 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (28 bp):
TATTTTAAAATATTAATATAATAATAAA
Found at i:10558940 original size:15 final size:15
Alignment explanation
Indices: 10558920--10558959 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10558910 CATAGTTATT
*
10558920 TTTTAATATTAATAA
1 TTTTAATATAAATAA
*
10558935 TTTTAATAAAAATAA
1 TTTTAATATAAATAA
*
10558950 TTTCAATATA
1 TTTTAATATA
10558960 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:10561303 original size:2 final size:2
Alignment explanation
Indices: 10561298--10561323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10561288 TTTTTTTACC
10561298 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10561324 TCTTTGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10561575 original size:3 final size:3
Alignment explanation
Indices: 10561567--10561617 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
10561557 TCCTTTTCTC
10561567 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
10561615 ATT
1 ATT
10561618 TACTTACATT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10562520 original size:18 final size:18
Alignment explanation
Indices: 10562490--10562530 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10562480 TTGTTCAATT
10562490 TAAAATAATAAATAATAA
1 TAAAATAATAAATAATAA
*
10562508 TAAAA-AATAAAATAATAG
1 TAAAATAAT-AAATAATAA
10562526 TAAAA
1 TAAAA
10562531 GGAAAGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
TAAAATAATAAATAATAA
Found at i:10564582 original size:43 final size:44
Alignment explanation
Indices: 10564535--10564746 Score: 141
Period size: 43 Copynumber: 4.9 Consensus size: 44
10564525 AAAATTGATC
*
10564535 CTTTTAAACAGAGGTTAAAT-AATTTAAAAATATGAAATAAGTT
1 CTTTTAAATAGAGGTTAAATCAATTTAAAAATATGAAATAAGTT
** * * * *
10564578 CTTTTATTTAGATGTTAAA-CAATTTTAAAATATAAAAT-GGATT
1 CTTTTAAATAGAGGTTAAATCAATTTAAAAATATGAAATAAG-TT
* * * * **
10564621 TTTTTAAATAAAAGAT-AATCAATTTTAAAAATATGAAATGGGTT
1 CTTTTAAATAGAGGTTAAATCAA-TTTAAAAATATGAAATAAGTT
* ** * * * * *
10564665 CATTTATTTAAAGGTTAAATGACTTT-AAAATACGAAATGAACTT
1 CTTTTAAATAGAGGTTAAATCAATTTAAAAATATGAAAT-AAGTT
*
10564709 -TTTTAAATAGAGGTT-AATCAATTTTAAAAATATAAAAT
1 CTTTTAAATAGAGGTTAAATCAA-TTTAAAAATATGAAAT
10564747 GGGTTCGTTT
Statistics
Matches: 125, Mismatches: 35, Indels: 17
0.71 0.20 0.10
Matches are distributed among these distances:
42 7 0.06
43 71 0.57
44 41 0.33
45 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (44 bp):
CTTTTAAATAGAGGTTAAATCAATTTAAAAATATGAAATAAGTT
Found at i:10564692 original size:87 final size:87
Alignment explanation
Indices: 10564557--10564783 Score: 265
Period size: 87 Copynumber: 2.6 Consensus size: 87
10564547 GGTTAAATAA
** * * * * * * *
10564557 TTTAAAAATATGAAATAAGTTCTTTTATTTAGATGTTAAACAATTTTAAAATATAAAATGGATTT
1 TTTAAAAATATGAAATGGGTTCATTTATTTAAAAGTTAAACAACTTTAAAATACAAAATGAACTT
10564622 TTTTAAATAAAAGATAATCAAT
66 TTTTAAATAAAAGATAATCAAT
* ** *
10564644 TTTAAAAATATGAAATGGGTTCATTTATTTAAAGGTTAAATGACTTTAAAATACGAAATGAACTT
1 TTTAAAAATATGAAATGGGTTCATTTATTTAAAAGTTAAACAACTTTAAAATACAAAATGAACTT
* * *
10564709 TTTTAAATAGAGGTTAATCAAT
66 TTTTAAATAAAAGATAATCAAT
* * * * *
10564731 TTTAAAAATATAAAATGGGTTCGTTTATTAAAAAGTTAAACAATTTTGAAATA
1 TTTAAAAATATGAAATGGGTTCATTTATTTAAAAGTTAAACAACTTTAAAATA
10564784 GAAATTGATT
Statistics
Matches: 117, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 117 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.39
Consensus pattern (87 bp):
TTTAAAAATATGAAATGGGTTCATTTATTTAAAAGTTAAACAACTTTAAAATACAAAATGAACTT
TTTTAAATAAAAGATAATCAAT
Found at i:10564769 original size:44 final size:44
Alignment explanation
Indices: 10564557--10564777 Score: 150
Period size: 44 Copynumber: 5.1 Consensus size: 44
10564547 GGTTAAATAA
** * * * *
10564557 TTTAAAAATATGAAATAAGTTCTTTTATTTAGATGTTAAACAAT
1 TTTAAAAATATGAAATGGGTTCTTTTATTAAAAAGTTAATCAAT
* * * * *
10564601 TTT-AAAATATAAAATGGATTTTTTTA-AATAAAAGATAATCAAT
1 TTTAAAAATATGAAATGGGTTCTTTTATTA-AAAAGTTAATCAAT
* * * * *
10564644 TTTAAAAATATGAAATGGGTTCATTTATTTAAAGGTTAAAT-GAC
1 TTTAAAAATATGAAATGGGTTCTTTTATTAAAAAGTT-AATCAAT
* **
10564688 TTT-AAAATACGAAAT--GAACTTTT-TTAAATAGAGGTTAATCAAT
1 TTTAAAAATATGAAATGGGTTCTTTTATTAAA-A-A-GTTAATCAAT
* * *
10564731 TTTAAAAATATAAAATGGGTTCGTTTATTAAAAAGTTAAACAAT
1 TTTAAAAATATGAAATGGGTTCTTTTATTAAAAAGTTAATCAAT
10564775 TTT
1 TTT
10564778 GAAATAGAAA
Statistics
Matches: 130, Mismatches: 35, Indels: 24
0.69 0.19 0.13
Matches are distributed among these distances:
40 4 0.03
41 6 0.05
42 3 0.02
43 49 0.38
44 53 0.41
45 4 0.03
46 6 0.05
47 5 0.04
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.40
Consensus pattern (44 bp):
TTTAAAAATATGAAATGGGTTCTTTTATTAAAAAGTTAATCAAT
Found at i:10565402 original size:31 final size:31
Alignment explanation
Indices: 10565361--10565421 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
10565351 TTTGAAAATT
*
10565361 TAAAGGTTCATAACAAAACTTCAAAGATTCG
1 TAAAGGTTCATAACAAAAATTCAAAGATTCG
* *
10565392 TAAAGTTTCATAACAAAAATTGAAAGATTC
1 TAAAGGTTCATAACAAAAATTCAAAGATTC
10565422 TAAGACTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (31 bp):
TAAAGGTTCATAACAAAAATTCAAAGATTCG
Found at i:10565588 original size:17 final size:17
Alignment explanation
Indices: 10565555--10565620 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
10565545 CAAAAATAGA
10565555 AGATTCACAAG-AATTT
1 AGATTCACAAGAAATTT
10565571 AGATTCACAAGAAATTT
1 AGATTCACAAGAAATTT
* *** *
10565588 AGCTTTGTAAGAGATTT
1 AGATTCACAAGAAATTT
*
10565605 AGATTCATAA-AAATTT
1 AGATTCACAAGAAATTT
10565621 CAAAAATTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
16 16 0.40
17 24 0.60
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (17 bp):
AGATTCACAAGAAATTT
Found at i:10567272 original size:24 final size:24
Alignment explanation
Indices: 10567211--10567352 Score: 118
Period size: 24 Copynumber: 6.1 Consensus size: 24
10567201 TGTTTGCTTG
* *
10567211 ATTAATATATTTATTTGTGTGA-T
1 ATTAATATATATATTTGTATGATT
*
10567234 -TTATTA-ATATATTTGTATGATT
1 ATTAATATATATATTTGTATGATT
10567256 ATTAATATATATATTTGTATGATT
1 ATTAATATATATATTTGTATGATT
* * *
10567280 A-T-ATTTA-ATTTGATTGCATGATT
1 ATTAATATATATAT--TTGTATGATT
* *
10567303 ATTAATATATTTAATTGCT-TGATT
1 ATTAATATATATATTTG-TATGATT
* *
10567327 ATTAATATATTTATTTGCATGATT
1 ATTAATATATATATTTGTATGATT
10567351 AT
1 AT
10567353 ATATTTAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
21 15 0.16
22 10 0.11
23 16 0.17
24 49 0.52
25 4 0.04
26 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (24 bp):
ATTAATATATATATTTGTATGATT
Found at i:10567301 original size:47 final size:45
Alignment explanation
Indices: 10567211--10567338 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 45
10567201 TGTTTGCTTG
* * *
10567211 ATTAATATATTTATTTGTGTGATTTATTAATATATTTGTATGATT
1 ATTAATATATATATTTGTATGATTTATTAATATATTTGCATGATT
*
10567256 ATTAATATATATATTTGTATGATTATATTTAATTTGA-TTGCATGATT
1 ATTAATATATATATTTGTATGATT-TA-TTAATAT-ATTTGCATGATT
* *
10567303 ATTAATATATTTAATTGCT-TGA-TTATTAATATATTT
1 ATTAATATATATATTTG-TATGATTTATTAATATATTT
10567339 ATTTGCATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 8 0.11
45 24 0.34
46 3 0.04
47 33 0.46
48 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (45 bp):
ATTAATATATATATTTGTATGATTTATTAATATATTTGCATGATT
Found at i:10567356 original size:20 final size:20
Alignment explanation
Indices: 10567331--10567454 Score: 86
Period size: 20 Copynumber: 5.8 Consensus size: 20
10567321 TTGATTATTA
10567331 ATATATTTATTTGCATGATT
1 ATATATTTATTTGCATGATT
* *
10567351 ATATATTTAATTGCATGTTT
1 ATATATTTATTTGCATGATT
* * *** *
10567371 ATTTGCATGATTATCTATTTAATT
1 ATAT--AT--TTATTTGCATGATT
*
10567395 ACATATTTATTTGCATGATTT
1 ATATATTTATTTGCATGA-TT
10567416 ATATATTTTTATTTGCATGATT
1 ATATA--TTTATTTGCATGATT
* *
10567438 ATATACTTAATTGCATG
1 ATATATTTATTTGCATG
10567455 TCTAATTGCA
Statistics
Matches: 77, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
20 38 0.49
21 6 0.08
22 11 0.14
23 13 0.17
24 9 0.12
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (20 bp):
ATATATTTATTTGCATGATT
Found at i:10567357 original size:44 final size:44
Alignment explanation
Indices: 10567192--10567454 Score: 141
Period size: 44 Copynumber: 5.9 Consensus size: 44
10567182 TTTATTTGCC
* * * * **
10567192 TAATATATATGTTTGCTTGATTAATATATTTATTTGTGTGATTTAT
1 TAATATATTTATTTGCATGATT-ATATATTTAATTGCATGA-TTAT
* * * * * *
10567238 TAATATATTTGTATG-ATTATTAATATATATATTTGTATGATTA-
1 TAATATATTTATTTGCATGATT-ATATATTTAATTGCATGATTAT
* *
10567281 T-ATTTAATTTGA-TTGCATGATTATTAATATATTTAATTGCTTGATTAT
1 TAATAT-ATTT-ATTTGCATG---ATT-ATATATTTAATTGCATGATTAT
*
10567329 TAATATATTTATTTGCATGATTATATATTTAATTGCATGTTTATT
1 TAATATATTTATTTGCATGATTATATATTTAATTGCATGATTA-T
* * * *
10567374 TGCATGATTATCTATTT--A--ATTACATATTTATTTGCATGA-T-T
1 T-AAT-A-TATTTATTTGCATGATTATATATTTAATTGCATGATTAT
* *
10567415 TATATATTTTTATTTGCATGATTATATACTTAATTGCATG
1 TA-ATATATTTATTTGCATGATTATATATTTAATTGCATG
10567455 TCTAATTGCA
Statistics
Matches: 171, Mismatches: 28, Indels: 39
0.72 0.12 0.16
Matches are distributed among these distances:
39 7 0.04
40 1 0.01
41 5 0.03
42 3 0.02
43 25 0.15
44 42 0.25
45 26 0.15
46 16 0.09
47 23 0.13
48 20 0.12
49 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (44 bp):
TAATATATTTATTTGCATGATTATATATTTAATTGCATGATTAT
Found at i:10567372 original size:32 final size:32
Alignment explanation
Indices: 10567333--10567573 Score: 173
Period size: 32 Copynumber: 7.8 Consensus size: 32
10567323 GATTATTAAT
*
10567333 ATATTTATTTGCATGATTATATATTTAATTGC
1 ATATTTATTTGCATGATTATATATTTAATTAC
* *
10567365 ATGTTTATTTGCATGATTATCTATTTAATTAC
1 ATATTTATTTGCATGATTATATATTTAATTAC
10567397 ATATTTATTTGCATGATT-TATA--T-A-T--
1 ATATTTATTTGCATGATTATATATTTAATTAC
* *
10567422 -T-TTTATTTGCATGATTATATACTTAATTGC
1 ATATTTATTTGCATGATTATATATTTAATTAC
* * * * *
10567452 ATGTCTAATTGCATGATTAT-TAATTTATTTAT
1 ATATTTATTTGCATGATTATAT-ATTTAATTAC
* * * * **
10567484 TTGTGTGA-CTGCATGATTATATATTTAATTGT
1 ATAT-TTATTTGCATGATTATATATTTAATTAC
* * *
10567516 ATATTTATTTGCATGGTTTATATATTTACTTGC
1 ATATTTATTTGCAT-GATTATATATTTAATTAC
* *
10567549 ATGTTTTATTTACATGATT-TATATT
1 AT-ATTTATTTGCATGATTATATATT
10567574 GTTAATTGCA
Statistics
Matches: 167, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
23 15 0.09
24 5 0.03
26 1 0.01
27 2 0.01
28 2 0.01
29 1 0.01
31 7 0.04
32 102 0.61
33 22 0.13
34 10 0.06
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (32 bp):
ATATTTATTTGCATGATTATATATTTAATTAC
Found at i:10567428 original size:23 final size:22
Alignment explanation
Indices: 10567400--10567442 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
10567390 TAATTACATA
10567400 TTTATTTGCATGATTTATATATT
1 TTTATTTGCATGA-TTATATATT
10567423 TTTATTTGCATGATTATATA
1 TTTATTTGCATGATTATATA
10567443 CTTAATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (22 bp):
TTTATTTGCATGATTATATATT
Found at i:10567478 original size:87 final size:88
Alignment explanation
Indices: 10567309--10567471 Score: 249
Period size: 87 Copynumber: 1.9 Consensus size: 88
10567299 GATTATTAAT
* * * *
10567309 ATATTTAATTGCTTGATTATTAATATATTTATTTGCATGATTATATATTTAATTGCATGTTTATT
1 ATATTTAATTGCATGATTATTAATATATTTATTTGCATGATTATATACTTAATTGCATGTCTAAT
10567374 TGCATGATTATCTATTTAATTAC
66 TGCATGATTATCTATTTAATTAC
* *
10567397 ATATTTATTTGCATGA-T-TTATATATTTTTATTTGCATGATTATATACTTAATTGCATGTCTAA
1 ATATTTAATTGCATGATTATTA-ATATATTTATTTGCATGATTATATACTTAATTGCATGTCTAA
10567460 TTGCATGATTAT
65 TTGCATGATTAT
10567472 TAATTTATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
86 3 0.04
87 51 0.75
88 14 0.21
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (88 bp):
ATATTTAATTGCATGATTATTAATATATTTATTTGCATGATTATATACTTAATTGCATGTCTAAT
TGCATGATTATCTATTTAATTAC
Found at i:10567497 original size:87 final size:86
Alignment explanation
Indices: 10567327--10567509 Score: 228
Period size: 87 Copynumber: 2.1 Consensus size: 86
10567317 TTGCTTGATT
* * * *
10567327 ATTA-ATATATTTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTATCTATTT
1 ATTATATATTTTTATTTGCATGATTATATACTTAATTGCATGTCTAATTGCATGATTATCTATTT
* *
10567391 AATTACATATTTATTTGCATG
66 AATTACATATTGATCTGCATG
10567412 ATTTATATATTTTTATTTGCATGATTATATACTTAATTGCATGTCTAATTGCATGATTAT-TAAT
1 A-TTATATATTTTTATTTGCATGATTATATACTTAATTGCATGTCTAATTGCATGATTATCT-AT
* ** *
10567476 TTATTTATTTGTGTGA-CTGCATG
64 TTAATTACATAT-TGATCTGCATG
10567499 ATTATATATTT
1 ATTATATATTT
10567510 AATTGTATAT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
85 1 0.01
86 14 0.17
87 67 0.80
88 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (86 bp):
ATTATATATTTTTATTTGCATGATTATATACTTAATTGCATGTCTAATTGCATGATTATCTATTT
AATTACATATTGATCTGCATG
Found at i:10567540 original size:21 final size:21
Alignment explanation
Indices: 10567515--10567557 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10567505 TATTTAATTG
*
10567515 TATATTTATTTGCATGGTTTA
1 TATATTTACTTGCATGGTTTA
*
10567536 TATATTTACTTGCATGTTTTA
1 TATATTTACTTGCATGGTTTA
10567557 T
1 T
10567558 TTACATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.58
Consensus pattern (21 bp):
TATATTTACTTGCATGGTTTA
Found at i:10567570 original size:34 final size:34
Alignment explanation
Indices: 10567495--10567588 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 34
10567485 TGTGTGACTG
* *
10567495 CATGA-TTATATATTTAATTGTAT-ATTTATTTG
1 CATGATTTATATATTTAATTGCATGATTTATTTA
* * *
10567527 CATGGTTTATATATTTACTTGCATGTTTTATTTA
1 CATGATTTATATATTTAATTGCATGATTTATTTA
10567561 CATGATTTATAT-TGTTAATTGCATGATT
1 CATGATTTATATAT-TTAATTGCATGATT
10567589 GTTAATTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 4 0.08
33 17 0.33
34 30 0.59
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (34 bp):
CATGATTTATATATTTAATTGCATGATTTATTTA
Found at i:10567601 original size:32 final size:32
Alignment explanation
Indices: 10567565--10567637 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
10567555 TATTTACATG
* *
10567565 ATTTATATTGT-TAATTGCATGATTGTTAATTT
1 ATTTAT-TTGTGTAATTGCATGATTATTAATAT
* **
10567597 ATTTATTTGTGTGATTGTGTGATTATTAATAT
1 ATTTATTTGTGTAATTGCATGATTATTAATAT
10567629 ATTTATTTG
1 ATTTATTTG
10567638 CATACTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (32 bp):
ATTTATTTGTGTAATTGCATGATTATTAATAT
Found at i:10567620 original size:151 final size:151
Alignment explanation
Indices: 10567342--10567637 Score: 357
Period size: 151 Copynumber: 2.0 Consensus size: 151
10567332 TATATTTATT
* *
10567342 TGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTATCTATTTAATTACATATTTATTT
1 TGCATGATTATATATTTAATTGCATATTTATTTGCATGATTATATATTTAATTACATATTTATTT
* * * *
10567407 GCATGATTTATATATTTTTATTTGCATGATTATATACTTAATTGCATGTCTAATTGCATGATTAT
66 ACATGATTTATATATTGTTAATTGCATGATTATATAATTAATTGCATGTCTAATTGCATGATTAT
*
10567472 TAATTTATTTATTTGTGTGAC
131 TAATATATTTATTTGTGTGAC
* * * * *
10567493 TGCATGATTATATATTTAATTGTATATTTATTTGCATGGTTTATATATTTACTTGCATGTTTTAT
1 TGCATGATTATATATTTAATTGCATATTTATTTGCAT-GATTATATATTTAATTACAT-ATTTAT
* * * * * **
10567558 TTACATGA-TT-TATATTGTTAATTGCATGATTGT-TAATTTATT-TATTTGTGTGATTGTGTGA
64 TTACATGATTTATATATTGTTAATTGCATGATTATATAATTAATTGCA--TGTCTAATTGCATGA
10567619 TTATTAATATATTTATTTG
127 TTATTAATATATTTATTTG
10567638 CATACTTATT
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
149 1 0.01
150 7 0.06
151 84 0.69
152 18 0.15
153 12 0.10
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (151 bp):
TGCATGATTATATATTTAATTGCATATTTATTTGCATGATTATATATTTAATTACATATTTATTT
ACATGATTTATATATTGTTAATTGCATGATTATATAATTAATTGCATGTCTAATTGCATGATTAT
TAATATATTTATTTGTGTGAC
Found at i:10567622 original size:119 final size:118
Alignment explanation
Indices: 10567374--10567610 Score: 316
Period size: 119 Copynumber: 2.0 Consensus size: 118
10567364 CATGTTTATT
* *
10567374 TGCATGATTATCTATTTAATTACATATTTATTTGCATGATTTATATATTTTTATTTGCATGATTA
1 TGCATGATTATATATTTAATTACATATTTATTTGCATGATTTATATA-TTTTACTTGCATGATTA
* *
10567439 TATACTTAATTGCATGTCTAATTGCATGATTATTAATTTATTTATTTGTGTGAC
65 TATACTGAATTACATGTCTAATTGCATGATTATTAATTTATTTATTTGTGTGAC
** * *
10567493 TGCATGATTATATATTTAATTGTATATTTATTTGCATGGTTTATATA-TTTACTTGCATGTTTTA
1 TGCATGATTATATATTTAATTACATATTTATTTGCATGATTTATATATTTTACTTGCATG-ATTA
* * * *
10567557 TTTACATGATTTATATTGT-TAATTGCATGATTGTTAATTTATTTATTTGTGTGA
65 TATAC-TGAATTACA-TGTCTAATTGCATGATTATTAATTTATTTATTTGTGTGA
10567611 TTGTGTGATT
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
117 11 0.11
118 7 0.07
119 82 0.80
120 3 0.03
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (118 bp):
TGCATGATTATATATTTAATTACATATTTATTTGCATGATTTATATATTTTACTTGCATGATTAT
ATACTGAATTACATGTCTAATTGCATGATTATTAATTTATTTATTTGTGTGAC
Found at i:10567677 original size:24 final size:23
Alignment explanation
Indices: 10567650--10567718 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
10567640 TACTTATTTA
10567650 TTTATATATTTATTATTGCATGA-
1 TTTATATA-TTATTATTGCATGAT
10567673 TTT-TATA-T-TTATTGCATGAT
1 TTTATATATTATTATTGCATGAT
* *
10567693 ATGATATTATATATTATTGCATGAT
1 TTTATA-TAT-TATTATTGCATGAT
10567718 T
1 T
10567719 AATATTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 11 0.30
20 2 0.05
21 2 0.05
22 6 0.16
23 3 0.08
24 1 0.03
25 12 0.32
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.55
Consensus pattern (23 bp):
TTTATATATTATTATTGCATGAT
Found at i:10567723 original size:24 final size:23
Alignment explanation
Indices: 10567651--10567728 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
10567641 ACTTATTTAT
*
10567651 TTATA-TATTTATTATTGCATGA
1 TTATATTATATATTATTGCATGA
10567673 -T-T-TTATAT-TTATTGCATGA
1 TTATATTATATATTATTGCATGA
10567692 TATGATATTATATATTATTGCATGA
1 T-T-ATATTATATATTATTGCATGA
10567717 TTAATATTATAT
1 TT-ATATTATAT
10567729 TTGACTGATA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 11 0.23
20 5 0.11
21 2 0.04
23 1 0.02
24 16 0.34
25 12 0.26
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (23 bp):
TTATATTATATATTATTGCATGA
Found at i:10567723 original size:29 final size:24
Alignment explanation
Indices: 10567669--10567730 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
10567659 TTATTATTGC
*
10567669 ATGATTTTATATTTATTGCATGAT
1 ATGATATTATATTTATTGCATGAT
10567693 ATGATATTATATATTATTGCATGAT
1 ATGATATTATAT-TTATTGCATGAT
*
10567718 -TAATATTATATTT
1 ATGATATTATATTT
10567731 GACTGATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 12 0.34
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTGCATGAT
Found at i:10567727 original size:22 final size:21
Alignment explanation
Indices: 10567654--10567729 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 21
10567644 TATTTATTTA
10567654 TATATT-TATTATTGCATGAT
1 TATATTATATTATTGCATGAT
*
10567674 TTTA-TAT-TTATTGCATGAT
1 TATATTATATTATTGCATGAT
10567693 ATGATATTATATATTATTGCATGAT
1 -T-ATA-T-TATATTATTGCATGAT
10567718 TAATATTATATT
1 T-ATATTATATT
10567730 TGACTGATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 13 0.28
20 5 0.11
21 2 0.04
22 6 0.13
23 1 0.02
24 7 0.15
25 12 0.26
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (21 bp):
TATATTATATTATTGCATGAT
Found at i:10567952 original size:20 final size:18
Alignment explanation
Indices: 10567840--10567954 Score: 76
Period size: 18 Copynumber: 6.2 Consensus size: 18
10567830 ATTTGCATGA
10567840 ATGATTATTAATATATTTGC
1 ATGA-TATT-ATATATTTGC
* *
10567860 ATGGTATTTTATATTATTGC
1 ATGATATTATATA-T-TTGC
*
10567880 ATCATA--ATATATTTGC
1 ATGATATTATATATTTGC
* *
10567896 ATGATATTATATATCTAC
1 ATGATATTATATATTTGC
* *
10567914 ATTATTGTTAT-TA-TTGC
1 ATGA-TATTATATATTTGC
10567931 ATGATAATTAATATATTTGC
1 ATGAT-ATT-ATATATTTGC
10567951 ATGA
1 ATGA
10567955 CATTCTTGCA
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
16 10 0.14
17 8 0.11
18 23 0.32
19 12 0.17
20 19 0.26
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (18 bp):
ATGATATTATATATTTGC
Found at i:10568982 original size:23 final size:22
Alignment explanation
Indices: 10568903--10568981 Score: 90
Period size: 21 Copynumber: 3.5 Consensus size: 22
10568893 CAGTTTAAGC
10568903 TTTTCTTTTTTCTCTTTTTTTT
1 TTTTCTTTTTTCTCTTTTTTTT
*
10568925 TCTTTC-TTTTGC-CTTTTTTTT
1 T-TTTCTTTTTTCTCTTTTTTTT
10568946 TTTTACATTTTTTCATCTTTTTTTT
1 TTTT-C-TTTTTTC-TCTTTTTTTT
10568971 TATTTCTTTTT
1 T-TTTCTTTTT
10568982 CCCTTTGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
20 3 0.06
21 11 0.23
22 6 0.12
23 9 0.19
24 5 0.10
25 11 0.23
26 3 0.06
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.80
Consensus pattern (22 bp):
TTTTCTTTTTTCTCTTTTTTTT
Found at i:10575135 original size:3 final size:3
Alignment explanation
Indices: 10575121--10575160 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
10575111 GATCCCTTTT
* *
10575121 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10575161 AATTGTAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10575788 original size:12 final size:13
Alignment explanation
Indices: 10575763--10575787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10575753 AGTTTAATAA
10575763 AATTTATTTTTTT
1 AATTTATTTTTTT
10575776 AATTTATTTTTT
1 AATTTATTTTTT
10575788 AGAGATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
AATTTATTTTTTT
Found at i:10576045 original size:12 final size:12
Alignment explanation
Indices: 10576030--10576055 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10576020 ATTTAATTTT
10576030 TATTTTAAAATA
1 TATTTTAAAATA
10576042 TATTTTAAAATA
1 TATTTTAAAATA
10576054 TA
1 TA
10576056 AAATATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTTTAAAATA
Found at i:10577630 original size:26 final size:25
Alignment explanation
Indices: 10577563--10577642 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
10577553 TTTTCATTTC
*
10577563 TATTTTTTTTACTTTTGCTTTTT-A
1 TATTTTTTTTACTTTTGTTTTTTAA
* *
10577587 T-TTGTTGTTTCATTTTTTGTTTTTTAAA
1 TATT-TT-TTTTA-CTTTTGTTTTTT-AA
10577615 TATTTTTTTTACTTTTGTTTTTT-A
1 TATTTTTTTTACTTTTGTTTTTTAA
10577639 TATT
1 TATT
10577643 AGATAAAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 2 0.04
24 8 0.18
25 4 0.09
26 21 0.47
27 4 0.09
28 4 0.09
29 2 0.04
ACGTcount: A:0.14, C:0.05, G:0.06, T:0.75
Consensus pattern (25 bp):
TATTTTTTTTACTTTTGTTTTTTAA
Found at i:10581851 original size:71 final size:70
Alignment explanation
Indices: 10581762--10582158 Score: 297
Period size: 71 Copynumber: 5.5 Consensus size: 70
10581752 TTCAATAAGT
* * *
10581762 ACTACGTTTTTAAAATAAAAAACATAAT-AATTGTTGAAATTATATTTTTGAAAATTTGAAATTT
1 ACTAC-TTTTTAAGATAAAAAATATAGTGAA-TGTTGAAATTATATTTTT-AAAATTTGAAATTT
10581826 TAACAAAA
63 TAACAAAA
* * * *
10581834 ACCACTTTTTAAGATAAAAAATGTAGTGAAAGTTGAAACTT-TATTTTTAAGATTATGAAATTTT
1 ACTACTTTTTAAGATAAAAAATATAGTGAATGTTGAAA-TTATATTTTTAAAATT-TGAAATTTT
* *
10581898 GATAAAA
64 AACAAAA
* * * * * ** *
10581905 ACTACATTTTAA-ATATTAAAAATGTAGTGAATGTTGAAACTATATCTTCAAGGTTCTAAAATTT
1 ACTACTTTTTAAGATA--AAAAATATAGTGAATGTTGAAATTATATTTTTAAAATT-TGAAATTT
* *
10581969 TAATAAAT
63 TAACAAAA
* * *
10581977 ACTA-TGTTTTAAAGAT-AAAAATATAGTGGATGTCGAAATTATATTTTTTAAATTTTGAAATTT
1 ACTACT-TTTT-AAGATAAAAAATATAGTGAATGTTGAAATTATA-TTTTTAAAATTTGAAATTT
*
10582040 TAACAAAG
63 TAACAAAA
*** * * *
10582048 A-TCACATTTTTTTTATATAAAAATGTAGTGAATGTTGAAACTATATTTTTAAAATTTTAAAATT
1 ACT-AC-TTTTTAAGATA-AAAAATATAGTGAATGTTGAAATTATATTTTTAAAA-TTTGAAATT
10582112 TTAACAAAA
62 TTAACAAAA
* * *
10582121 ACTA-TAATTTTAAGAT-AAAAACATAGTGGATGTCGAAA
1 ACTACT--TTTTAAGATAAAAAATATAGTGAATGTTGAAA
10582159 AAAAATACGT
Statistics
Matches: 257, Mismatches: 49, Indels: 39
0.74 0.14 0.11
Matches are distributed among these distances:
70 9 0.04
71 116 0.45
72 79 0.31
73 50 0.19
74 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (70 bp):
ACTACTTTTTAAGATAAAAAATATAGTGAATGTTGAAATTATATTTTTAAAATTTGAAATTTTAA
CAAAA
Found at i:10581967 original size:72 final size:71
Alignment explanation
Indices: 10581793--10582141 Score: 312
Period size: 71 Copynumber: 4.9 Consensus size: 71
10581783 ACATAATAAT
* * * *
10581793 TGTTGAAATTATATTTTTGAAAATT-TGAAATTTTAACAAAAACCACTTTTTAAGATA-AAAAAT
1 TGTTGAAACTATATTTTT-AAGATTATGAAATTTTAACAAAAACTACATTTTAA-ATATAAAAAT
10581856 GTAGTGAA
64 GTAGTGAA
* * * *
10581864 AGTTGAAACTTTATTTTTAAGATTATGAAATTTTGATAAAAACTACATTTTAAATATTAAAAATG
1 TGTTGAAACTATATTTTTAAGATTATGAAATTTTAACAAAAACTACATTTTAAATA-TAAAAATG
10581929 TAGTGAA
65 TAGTGAA
* * * * * * * ** * *
10581936 TGTTGAAACTATATCTTCAAGGTTCTAAAATTTTAATAAATACTATGTTTTAAAGATAAAAATAT
1 TGTTGAAACTATATTTTTAAGATTATGAAATTTTAACAAAAACTACATTTTAAATATAAAAATGT
*
10582001 AGTGGA
66 AGTGAA
* * * * **
10582007 TGTCGAAATTATATTTTTTAA-ATTTTGAAATTTTAACAAAGA-TCACATTTTTTTTATATAAAA
1 TGTTGAAACTATA-TTTTTAAGATTATGAAATTTTAACAAAAACT-ACA--TTTTAAATATAAAA
10582070 ATGTAGTGAA
62 ATGTAGTGAA
* * * * *
10582080 TGTTGAAACTATATTTTTAAAATTTTAAAATTTTAACAAAAACTATAATTTT-AAGATAAAAA
1 TGTTGAAACTATATTTTTAAGATTATGAAATTTTAACAAAAACTA-CATTTTAAATATAAAAA
10582142 CATAGTGGAT
Statistics
Matches: 223, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
70 9 0.04
71 88 0.39
72 74 0.33
73 50 0.22
74 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (71 bp):
TGTTGAAACTATATTTTTAAGATTATGAAATTTTAACAAAAACTACATTTTAAATATAAAAATGT
AGTGAA
Found at i:10582109 original size:144 final size:141
Alignment explanation
Indices: 10581793--10582158 Score: 407
Period size: 144 Copynumber: 2.5 Consensus size: 141
10581783 ACATAATAAT
* * * *
10581793 TGTTGAAATTATATTTTTGAAAA-TTTGAAATTTTAACAAAAACCACTTTTTAAGATAAAAAATG
1 TGTTGAAACTATATTTTT-AAAATTTTAAAATTTTAACAAAAACTA-TTTTTAAGAT-AAAAATA
* * * * *
10581857 TAGTGAAAGTTGAAACTTTATTTTTAAGATTATGAAATTTTGATAAAAACTACATTTTAAATATT
63 TAGTGGATGTCGAAACTTTATTTTTAAGATTATGAAATTTTAACAAAAACTACATTTTAAATATT
10581922 AAAAATGTAGTGAA
128 AAAAATGTAGTGAA
* * ** * * *
10581936 TGTTGAAACTATATCTTCAAGGTTCTAAAATTTTAATAAATACTATGTTTTAAAGATAAAAATAT
1 TGTTGAAACTATATTTTTAAAATTTTAAAATTTTAACAAAAACTAT-TTTT-AAGATAAAAATAT
* * ***
10582001 AGTGGATGTCGAAA-TTATATTTTTTAA-ATTTTGAAATTTTAACAAAGA-TCACATTTTTTTTA
64 AGTGGATGTCGAAACTT-TA-TTTTTAAGATTATGAAATTTTAACAAAAACT-ACATTTTAAATA
10582063 TATAAAAATGTAGTGAA
126 T-TAAAAATGTAGTGAA
*
10582080 TGTTGAAACTATATTTTTAAAATTTTAAAATTTTAACAAAAACTATAATTTTAAGATAAAAACAT
1 TGTTGAAACTATATTTTTAAAATTTTAAAATTTTAACAAAAACTAT--TTTTAAGATAAAAATAT
10582145 AGTGGATGTCGAAA
64 AGTGGATGTCGAAA
10582159 AAAAATACGT
Statistics
Matches: 185, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
142 6 0.03
143 83 0.45
144 92 0.50
145 4 0.02
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.40
Consensus pattern (141 bp):
TGTTGAAACTATATTTTTAAAATTTTAAAATTTTAACAAAAACTATTTTTAAGATAAAAATATAG
TGGATGTCGAAACTTTATTTTTAAGATTATGAAATTTTAACAAAAACTACATTTTAAATATTAAA
AATGTAGTGAA
Found at i:10582329 original size:113 final size:112
Alignment explanation
Indices: 10582066--10582368 Score: 337
Period size: 114 Copynumber: 2.7 Consensus size: 112
10582056 TTTTTTATAT
* * *
10582066 AAAAATGTAGTGAATGTTGAAACTATATTTTTAAAATTTTAAAATTTTAACAAAAACTATAATTT
1 AAAAATATAGTGGATGTTGAAACTATA-TTTTAAAATTTTAAAATTTTAACAAAAACCATAATTT
* * *
10582131 TAAGATAAAAACATAGTGGATGTCGAAAAAAAATACGTTTTTAGATTAA
65 TAAAATAAAAACATAGTGAATGTCGAAAAAAAATACGTTTTAAGATT-A
* *
10582180 AAAAATATAGTGGATGTTGAAACTATATTTTCAAAATTTTAAAATTTTAACAAAGACCA-CATTT
1 AAAAATATAGTGGATGTTGAAACTATATTTT-AAAATTTTAAAATTTTAACAAAAACCATAATTT
* * *
10582244 TAAAATAAAACACATGGTGAATGTTGAAAAAAGACTGCAC-TTTTAAGA-T-
65 TAAAATAAAA-ACATAGTGAATGTCGAAAAAA-AAT--ACGTTTTAAGATTA
* * * * *
10582293 AAAAGTATAGTTGATGTTGAAACTATGCTTTTAAAATTCTGAAATTTTAACAAAAACC-TGAATT
1 AAAAATATAGTGGATGTTGAAACTAT-ATTTTAAAATTTTAAAATTTTAACAAAAACCAT-AATT
*
10582357 TTAAAAGAAAAA
64 TTAAAATAAAAA
10582369 TGTGTAGTTG
Statistics
Matches: 162, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
113 65 0.40
114 85 0.52
115 3 0.02
116 7 0.04
117 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (112 bp):
AAAAATATAGTGGATGTTGAAACTATATTTTAAAATTTTAAAATTTTAACAAAAACCATAATTTT
AAAATAAAAACATAGTGAATGTCGAAAAAAAATACGTTTTAAGATTA
Found at i:10582400 original size:70 final size:71
Alignment explanation
Indices: 10582326--10582482 Score: 183
Period size: 70 Copynumber: 2.2 Consensus size: 71
10582316 TATGCTTTTA
* * * * * *
10582326 AAATTCTGAAATTTTAACAAAAA-CCTGAATTTTAAAAGAAAAATGT-GTAGTTGTTGAAACCTT
1 AAATTCTGAAATTTTAACAAAAATCATG-ATTTTAAAACAAAAAAGTAATAGATGTTAAAACCTT
10582389 ATTTTCG
65 ATTTTCG
* * * **
10582396 AAATTCTAAAATTGTAACAAAAATCATGTTTTTAAAACAAAAAAGTAATAGATGTTAAAATTTTA
1 AAATTCTGAAATTTTAACAAAAATCATGATTTTAAAACAAAAAAGTAATAGATGTTAAAACCTTA
10582461 TTTTCG
66 TTTTCG
*
10582467 AAATTATGAAATTTTA
1 AAATTCTGAAATTTTA
10582483 GTAAAGATTA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
70 36 0.51
71 35 0.49
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (71 bp):
AAATTCTGAAATTTTAACAAAAATCATGATTTTAAAACAAAAAAGTAATAGATGTTAAAACCTTA
TTTTCG
Found at i:10582479 original size:71 final size:71
Alignment explanation
Indices: 10582326--10582515 Score: 186
Period size: 71 Copynumber: 2.7 Consensus size: 71
10582316 TATGCTTTTA
* * * * * * *
10582326 AAATTCTGAAATTTTAACAAAAA-CCTGAATTTTAAAAGAAAAATGT-GTAGTTGTTGAAACCTT
1 AAATTCTGAAATTTTAACAAAAATCATG-TTTTTAAAACAAAAAAGTAATAGATGTTAAAACCTT
10582389 ATTTTCG
65 ATTTTCG
* * **
10582396 AAATTCTAAAATTGTAACAAAAATCATGTTTTTAAAACAAAAAAGTAATAGATGTTAAAATTTTA
1 AAATTCTGAAATTTTAACAAAAATCATGTTTTTAAAACAAAAAAGTAATAGATGTTAAAACCTTA
10582461 TTTTCG
66 TTTTCG
* ** * * * * *
10582467 AAATTATGAAATTTTAGTAAAGATTATGTTTTTAAGATAAAAACGTAAT
1 AAATTCTGAAATTTTAACAAAAATCATGTTTTTAAAACAAAAAAGTAAT
10582516 TCTTGTTGCT
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
70 36 0.37
71 61 0.63
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (71 bp):
AAATTCTGAAATTTTAACAAAAATCATGTTTTTAAAACAAAAAAGTAATAGATGTTAAAACCTTA
TTTTCG
Found at i:10582914 original size:17 final size:18
Alignment explanation
Indices: 10582874--10582915 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10582864 GAATCATATA
*
10582874 TTCCCTTTCAATATCCCT
1 TTCCCTTTCAATATCACT
*
10582892 TT-CCTTTGAA-ATCACT
1 TTCCCTTTCAATATCACT
10582908 TTCCCTTT
1 TTCCCTTT
10582916 TGAAGTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 12 0.57
18 2 0.10
ACGTcount: A:0.17, C:0.33, G:0.02, T:0.48
Consensus pattern (18 bp):
TTCCCTTTCAATATCACT
Found at i:10584279 original size:38 final size:38
Alignment explanation
Indices: 10584237--10584311 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
10584227 TAATAAATCA
*
10584237 AAATTTATAATTTACACAAAATTGTTTATGTTAGAAAT
1 AAATTTATAATTTAAACAAAATTGTTTATGTTAGAAAT
*
10584275 AAATTTATAATTTAAACAAAGTTGTTTATGTTAGAAA
1 AAATTTATAATTTAAACAAAATTGTTTATGTTAGAAA
10584312 CATAGTCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (38 bp):
AAATTTATAATTTAAACAAAATTGTTTATGTTAGAAAT
Found at i:10584312 original size:21 final size:20
Alignment explanation
Indices: 10584255--10584313 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
10584245 AATTTACACA
*
10584255 AAATTGTTTATGTTAGAAAT
1 AAATTGTTTATGTTAGAAAC
*
10584275 AAATT-TATAAT-TT--AAAC
1 AAATTGT-TTATGTTAGAAAC
10584292 AAAGTTGTTTATGTTAGAAAC
1 AAA-TTGTTTATGTTAGAAAC
10584313 A
1 A
10584314 TAGTCATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 11
0.68 0.07 0.25
Matches are distributed among these distances:
17 6 0.20
18 5 0.17
19 6 0.20
20 8 0.27
21 5 0.17
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (20 bp):
AAATTGTTTATGTTAGAAAC
Found at i:10585613 original size:56 final size:56
Alignment explanation
Indices: 10585535--10585642 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
10585525 AATATATCAT
* ** * *
10585535 ATGTGTTTTTACTATTTGTTATTTGTTTGATTTGGCTTAAATCTTAATCTACTCAA
1 ATGTGTTTTTACTATTTATTATTCATTGGATGTGGCTTAAATCTTAATCTACTCAA
* *
10585591 ATGT-TTTTTAGCTATTTATTATTCATTGGATGTGGCTTAGATCTTGATCTAC
1 ATGTGTTTTTA-CTATTTATTATTCATTGGATGTGGCTTAAATCTTAATCTAC
10585643 AAAATGGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 6 0.14
56 38 0.86
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (56 bp):
ATGTGTTTTTACTATTTATTATTCATTGGATGTGGCTTAAATCTTAATCTACTCAA
Found at i:10585731 original size:221 final size:221
Alignment explanation
Indices: 10585302--10585742 Score: 695
Period size: 222 Copynumber: 2.0 Consensus size: 221
10585292 TTAAACGTTA
*
10585302 TTAATATATCATATGTGTTTTTACTATTTGTTATTTATTAGATTTGGCTTAATCTTAATCTACTT
1 TTAATATATCATATGTGTTTTTACTATTTGTTATTTATTAGATTTGGCTTAATCTTAATCTACTC
* * * * *
10585367 AAATATTTTCTAGCTATTTGTTATTCGTTGGATGTGGTTTAGATCTTGATCTTCTAAATGGACAT
66 AAATATTTTCTAGCTATTTATTATTCATTGGATGTGGCTTAGATCTTGATCTACAAAATGGACAT
* *
10585432 TGGTGTTTTCGATATATGTTTTCAACATTAATAAGAATCATTCTTATAAATAGTTATGACTCATT
131 TGGTGTTTTCGATATATGTTTTCAACATTAATAAAAATCATTCTTATAAACAGTTATGACTCATT
*
10585497 TATTAATAAGAAAGAAGATGCAGTTT
196 TATCAATAAGAAAGAAGATGCAGTTT
* *
10585523 TTAATATATCATATGTGTTTTTACTATTTGTTATTTGTTTGATTTGGCTTAAATCTTAATCTACT
1 TTAATATATCATATGTGTTTTTACTATTTGTTATTTATTAGATTTGGCTT-AATCTTAATCTACT
* *
10585588 CAAATGTTTTTTAGCTATTTATTATTCATTGGATGTGGCTTAGATCTTGATCTACAAAATGGACA
65 CAAATATTTTCTAGCTATTTATTATTCATTGGATGTGGCTTAGATCTTGATCTACAAAATGGACA
* * * *
10585653 TTGGTGTTTTTGATATATGTTTTCAACATTAATAAAAAT-ATTCTTGTAAACAGTTATGATTCGT
130 TTGGTGTTTTCGATATATGTTTTCAACATTAATAAAAATCATTCTTATAAACAGTTATGACTCAT
* *
10585717 TTGTCAATAAGAAAGAAGATGTAGTT
195 TTATCAATAAGAAAGAAGATGCAGTT
10585743 AGCAACTATG
Statistics
Matches: 200, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
221 92 0.46
222 108 0.54
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (221 bp):
TTAATATATCATATGTGTTTTTACTATTTGTTATTTATTAGATTTGGCTTAATCTTAATCTACTC
AAATATTTTCTAGCTATTTATTATTCATTGGATGTGGCTTAGATCTTGATCTACAAAATGGACAT
TGGTGTTTTCGATATATGTTTTCAACATTAATAAAAATCATTCTTATAAACAGTTATGACTCATT
TATCAATAAGAAAGAAGATGCAGTTT
Found at i:10590148 original size:21 final size:21
Alignment explanation
Indices: 10590088--10590170 Score: 87
Period size: 21 Copynumber: 3.9 Consensus size: 21
10590078 TGTTGAATGG
* *
10590088 TATAATTACCTTTGTTTCATTTA
1 TATAATTA--TTTTTTTAATTTA
*
10590111 TATAATTA-TTTTATAATTTA
1 TATAATTATTTTTTTAATTTA
*
10590131 GATAATTATTTTTTTAATTTA
1 TATAATTATTTTTTTAATTTA
* *
10590152 TATAATTGTATTTTTAATT
1 TATAATTATTTTTTTAATT
10590171 ACATTTTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 16 0.31
21 27 0.53
23 8 0.16
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TATAATTATTTTTTTAATTTA
Found at i:10590486 original size:2 final size:2
Alignment explanation
Indices: 10590479--10590505 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10590469 TCTTATAAAA
10590479 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10590506 CTTAAATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10591289 original size:26 final size:26
Alignment explanation
Indices: 10591232--10591289 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
10591222 ACGGACATTG
* * *
10591232 TAATTTTTTTTGATGTTGAAATGTTT
1 TAATTTTTTTTAATGTTGAAATGATA
10591258 TAAATTTTTTTCTAATGTTG-AATGATA
1 T-AATTTTTTT-TAATGTTGAAATGATA
10591285 TAATT
1 TAATT
10591290 ACCTTTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.19
27 15 0.56
28 7 0.26
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (26 bp):
TAATTTTTTTTAATGTTGAAATGATA
Found at i:10591325 original size:21 final size:21
Alignment explanation
Indices: 10591282--10591353 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
10591272 ATGTTGAATG
* *
10591282 ATATAATTACCTTTGTTTCATTT
1 ATATAATTA--TTTTTTTAATTT
10591305 ATATAATTATTTTTTTAATTT
1 ATATAATTATTTTTTTAATTT
* *
10591326 AGATAATTATTTTTTAAATTT
1 ATATAATTATTTTTTTAATTT
10591347 ATATAAT
1 ATATAAT
10591354 AACATTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 35 0.80
23 9 0.20
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (21 bp):
ATATAATTATTTTTTTAATTT
Found at i:10591966 original size:131 final size:130
Alignment explanation
Indices: 10591714--10591998 Score: 305
Period size: 131 Copynumber: 2.2 Consensus size: 130
10591704 TTGTCAAACA
* * * * *
10591714 AAAAATTA-ATTTTTTAACAAAAATTA-TT-ATCTTTGTCAAGTTAATATAAAATTTGAGAAAGT
1 AAAAATAACATTTTTTAACAAAAA-AACTTCGTCTTTATCAAGTTAATATAAAATTTGACAAAGT
** * * * *
10591776 TTAATTTTAAATCTAATAACTTGACCAAAATTATGTTTTTACCTTTAAAACATCGTCTTTGTTGA
65 TTAATTTTAAATCTAATAACTTGACCAAAATTACATTTTTACCATCAAAACATCATCTTTGTTAA
10591841 C
130 C
* *
10591842 AAAAACT-TCATTTTTTTAACAAAAAAACTTCGTCTTTATCAAGTTAGTATAAAATTTGACATAA
1 AAAAA-TAACA-TTTTTTAACAAAAAAACTTCGTCTTTATCAAGTTAATATAAAATTTGACA-AA
* * **
10591906 -TTTAATTTTAAATCTGATAAAC-TGA-CAAAGATTGCATTTTTACCATCAAAATGTCATCTTTG
63 GTTTAATTTTAAATCTAAT-AACTTGACCAAA-ATTACATTTTTACCATCAAAACATCATCTTTG
10591968 TTAAC
126 TTAAC
*
10591973 AAAGATAACATTTTTTAACAAAAAAA
1 AAAAATAACATTTTTTAACAAAAAAA
10591999 AATGTCATTT
Statistics
Matches: 130, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
128 5 0.04
129 3 0.02
130 37 0.28
131 80 0.62
132 5 0.04
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (130 bp):
AAAAATAACATTTTTTAACAAAAAAACTTCGTCTTTATCAAGTTAATATAAAATTTGACAAAGTT
TAATTTTAAATCTAATAACTTGACCAAAATTACATTTTTACCATCAAAACATCATCTTTGTTAAC
Found at i:10592036 original size:23 final size:23
Alignment explanation
Indices: 10591981--10592033 Score: 99
Period size: 22 Copynumber: 2.3 Consensus size: 23
10591971 ACAAAGATAA
10591981 CATTTTTTAACAAAAAAAAATGT
1 CATTTTTTAACAAAAAAAAATGT
10592004 CATTTTTTAAC-AAAAAAAATGT
1 CATTTTTTAACAAAAAAAAATGT
10592026 CATTTTTT
1 CATTTTTT
10592034 TAAATCAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (23 bp):
CATTTTTTAACAAAAAAAAATGT
Found at i:10592291 original size:18 final size:18
Alignment explanation
Indices: 10592268--10592304 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10592258 TTATATGTTG
*
10592268 AATTTACATCAATATAAA
1 AATTTACATCAACATAAA
10592286 AATTTACATCAACATAAA
1 AATTTACATCAACATAAA
10592304 A
1 A
10592305 GGGAAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTTACATCAACATAAA
Found at i:10594616 original size:36 final size:35
Alignment explanation
Indices: 10594566--10594645 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
10594556 TGATTTGTCG
10594566 TTTAGTCCTCATTGTACTTTATATCCTGACTTATAA
1 TTTAGT-CTCATTGTACTTTATATCCTGACTTATAA
* * * *
10594602 TTTAGTCTCGATTGTCCTTTATTTCCTGACTTGTGA
1 TTTAGTCTC-ATTGTACTTTATATCCTGACTTATAA
10594638 TTTAGTCT
1 TTTAGTCT
10594646 TAGTTATCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 3 0.08
36 36 0.92
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (35 bp):
TTTAGTCTCATTGTACTTTATATCCTGACTTATAA
Found at i:10594790 original size:19 final size:19
Alignment explanation
Indices: 10594766--10594812 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
10594756 CTTAGATACC
*
10594766 AAAAAAAAACAAAAAAAGA
1 AAAAAAAAACAAAAAAACA
* **
10594785 AAAAAACAACAAACTAACA
1 AAAAAAAAACAAAAAAACA
10594804 AAAAAAAAA
1 AAAAAAAAA
10594813 ACTTTTCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAACA
Found at i:10595176 original size:13 final size:14
Alignment explanation
Indices: 10595154--10595184 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
10595144 CCATTTAACA
10595154 AAAAATATAATAAT
1 AAAAATATAATAAT
10595168 AAAAA-ATAATAAT
1 AAAAATATAATAAT
10595181 AAAA
1 AAAA
10595185 TAAAAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAATATAATAAT
Found at i:10595181 original size:21 final size:20
Alignment explanation
Indices: 10595157--10595196 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10595147 TTTAACAAAA
*
10595157 AATATAATAATAAAAAATAAT
1 AATAAAATAA-AAAAAATAAT
*
10595178 AATAAAATAAAAGAAATAA
1 AATAAAATAAAAAAAATAA
10595197 AAAGTTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAAAAAATAAT
Found at i:10595189 original size:16 final size:15
Alignment explanation
Indices: 10595153--10595182 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
10595143 ACCATTTAAC
10595153 AAAAAATATAATAAT
1 AAAAAATATAATAAT
10595168 AAAAAATAATAATAA
1 AAAAAAT-ATAATAA
10595183 AATAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAATATAATAAT
Found at i:10596907 original size:16 final size:16
Alignment explanation
Indices: 10596881--10596945 Score: 80
Period size: 16 Copynumber: 4.1 Consensus size: 16
10596871 AATTTTTTTT
10596881 AAATAAAAA-ATAAAAA
1 AAATAAAAATAT-AAAA
10596897 AGAATAAAAATAT-AAA
1 A-AATAAAAATATAAAA
* *
10596913 AAATATAAATATAATA
1 AAATAAAAATATAAAA
10596929 AAATAAAAATATAAAA
1 AAATAAAAATATAAAA
10596945 A
1 A
10596946 TCCTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
15 10 0.24
16 22 0.52
17 8 0.19
18 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAAAAATATAAAA
Found at i:10596946 original size:8 final size:8
Alignment explanation
Indices: 10596881--10596946 Score: 68
Period size: 8 Copynumber: 8.5 Consensus size: 8
10596871 AATTTTTTTT
10596881 AAATA-AA
1 AAATATAA
10596888 AAATA-AA
1 AAATATAA
*
10596895 AAAGAATAA
1 AAA-TATAA
10596904 AAATATAA
1 AAATATAA
*
10596912 AAA-ATAT
1 AAATATAA
10596919 AAATATAA
1 AAATATAA
10596927 TAAA-ATAA
1 -AAATATAA
10596935 AAATATAA
1 AAATATAA
10596943 AAAT
1 AAAT
10596947 CCTACCTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
7 19 0.38
8 23 0.46
9 8 0.16
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (8 bp):
AAATATAA
Found at i:10597634 original size:43 final size:42
Alignment explanation
Indices: 10597551--10597635 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 42
10597541 GTGTTGTGTC
*
10597551 ATGTTTGTGTTTAAGTTATTTGTGTCATTTAAGTATTCATGTT
1 ATGTTTGTGTTTAAGTTATTTGTGTCATTTAAG-AATCATGTT
10597594 ATGTTTGTG-TTAAGATTATTTGTGTCATGTCTAA-AATCATGT
1 ATGTTTGTGTTTAAG-TTATTTGTGTCAT-T-TAAGAATCATGT
10597636 CTGACACGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 5 0.13
43 29 0.76
44 1 0.03
45 3 0.08
ACGTcount: A:0.24, C:0.06, G:0.19, T:0.52
Consensus pattern (42 bp):
ATGTTTGTGTTTAAGTTATTTGTGTCATTTAAGAATCATGTT
Found at i:10598096 original size:17 final size:20
Alignment explanation
Indices: 10598060--10598097 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
10598050 CTTAATCTAA
10598060 AATAATAAAATTAAATAAAG
1 AATAATAAAATTAAATAAAG
10598080 AATAA-AAAA-TAAA-AAAG
1 AATAATAAAATTAAATAAAG
10598097 A
1 A
10598098 GATTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 4 0.22
20 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AATAATAAAATTAAATAAAG
Found at i:10601609 original size:3 final size:3
Alignment explanation
Indices: 10601595--10601666 Score: 119
Period size: 3 Copynumber: 24.3 Consensus size: 3
10601585 ACATATAAAT
10601595 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
10601642 TAA TAA TAA TAA TGA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
10601667 GATATTATAC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10603679 original size:11 final size:11
Alignment explanation
Indices: 10603663--10603707 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
10603653 GAAATGCCTT
10603663 AAAAAAAAAGA
1 AAAAAAAAAGA
10603674 AAAAAAAAAG-
1 AAAAAAAAAGA
*
10603684 --AAAAAGAGA
1 AAAAAAAAAGA
10603693 AAAAAAAAAGA
1 AAAAAAAAAGA
10603704 AAAA
1 AAAA
10603708 GGAAAGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 7 0.24
11 22 0.76
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:10603708 original size:19 final size:19
Alignment explanation
Indices: 10603665--10603712 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
10603655 AATGCCTTAA
*
10603665 AAAAAAAGAAAAAAAAAAG
1 AAAAAGAGAAAAAAAAAAG
10603684 AAAAAGAGAAAAAAAAAAG
1 AAAAAGAGAAAAAAAAAAG
10603703 AAAAAG-GAAA
1 AAAAAGAGAAA
10603713 GTTTTTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAGAGAAAAAAAAAAG
Found at i:10604401 original size:11 final size:11
Alignment explanation
Indices: 10604385--10604414 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10604375 GCATGTTAAA
10604385 AAAAAAAAAAC
1 AAAAAAAAAAC
*
10604396 AAAAAAAATAC
1 AAAAAAAAAAC
10604407 AAAAAAAA
1 AAAAAAAA
10604415 GGGAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:10605020 original size:25 final size:22
Alignment explanation
Indices: 10604964--10605020 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
10604954 ATGTCAAGAA
*
10604964 AAAAATGAAAGAAAGAAGAAAG
1 AAAAATGAAAGAAAAAAGAAAG
10604986 AAAGAA--AAAGAATAAAAGAATAAG
1 AAA-AATGAAAGAA-AAAAG-A-AAG
10605010 AAAAATGAAAG
1 AAAAATGAAAG
10605021 GAATGAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
21 6 0.21
22 7 0.25
23 5 0.18
24 6 0.21
25 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAAATGAAAGAAAAAAGAAAG
Found at i:10605989 original size:33 final size:33
Alignment explanation
Indices: 10605949--10606063 Score: 92
Period size: 33 Copynumber: 3.5 Consensus size: 33
10605939 GCACTTAAGT
*
10605949 TTTAAGCCTAGTTTAGCTGGCATCTAAGAAAAA
1 TTTAAGCCTAGTTTAGCTGGCACCTAAGAAAAA
* * * *
10605982 TTTAAGCCCAGCTTAGTTGGCACCT--GTCAAAA
1 TTTAAGCCTAGTTTAGCTGGCACCTAAG-AAAAA
* ** * *
10606014 TTTAGGTCC-AGTTTTTCTAGCACCCAAGAAAGAA
1 TTTAAG-CCTAGTTTAGCTGGCACCTAAGAAA-AA
10606048 TTTAAGCCTAGTTTAG
1 TTTAAGCCTAGTTTAG
10606064 TTGGTACCCA
Statistics
Matches: 60, Mismatches: 16, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
31 1 0.02
32 19 0.32
33 27 0.45
34 13 0.22
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (33 bp):
TTTAAGCCTAGTTTAGCTGGCACCTAAGAAAAA
Found at i:10606192 original size:62 final size:62
Alignment explanation
Indices: 10606030--10606198 Score: 209
Period size: 61 Copynumber: 2.7 Consensus size: 62
10606020 TCCAGTTTTT
* * * * *
10606030 CTAGCACCCAA-GAAAGAATTTAAGCCTAGTTTAGTTGGTACCCAAGTTTTAAGCTCAATTTAG
1 CTAGCACCCAATG-AA-AATTTAAGCCTAGTTTATTTGGCACCTAAGTTTAAAGCCCAATTTAG
** *
10606093 CTAGCATGC-ATGAAAATTTAAGTCTAGATTT-TTTGGCACCTAAGTTTAAAGCCCAATTTAG
1 CTAGCACCCAATGAAAATTTAAGCCTAG-TTTATTTGGCACCTAAGTTTAAAGCCCAATTTAG
*
10606154 CTAGCACCCAATGAAAATTTAAGCCTAGTTTATTTGGCACATAAG
1 CTAGCACCCAATGAAAATTTAAGCCTAGTTTATTTGGCACCTAAG
10606199 CCTAGATTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
61 47 0.52
62 35 0.39
63 8 0.09
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (62 bp):
CTAGCACCCAATGAAAATTTAAGCCTAGTTTATTTGGCACCTAAGTTTAAAGCCCAATTTAG
Found at i:10606198 original size:22 final size:22
Alignment explanation
Indices: 10606173--10606215 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10606163 AATGAAAATT
* *
10606173 TAAGCCTAGTTTATTTGGCACA
1 TAAGCCTAGATTAGTTGGCACA
10606195 TAAGCCTAGATTAGTTGGCAC
1 TAAGCCTAGATTAGTTGGCAC
10606216 CTATAAAAGT
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:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (22 bp):
TAAGCCTAGATTAGTTGGCACA
Found at i:10606525 original size:32 final size:32
Alignment explanation
Indices: 10606467--10606588 Score: 106
Period size: 32 Copynumber: 3.8 Consensus size: 32
10606457 TTTTTAGCAT
* *
10606467 TTATGAAGATTTTAAGCCTAGA-TTAGTTGGCAC
1 TTATGAA-AATTTAAGCCCA-ATTTAGTTGGCAC
*
10606500 TTATGAAAATTTAAACCCAATTTAGTTGGCA-
1 TTATGAAAATTTAAGCCCAATTTAGTTGGCAC
* ** * * *
10606531 TCAATGTCAATTTAAGCCAAAATTATTTGGCAC
1 T-TATGAAAATTTAAGCCCAATTTAGTTGGCAC
10606564 TTAT-AAAATTTTAAGCCCAATTTAG
1 TTATGAAAA-TTTAAGCCCAATTTAG
10606589 CTAGCACGCA
Statistics
Matches: 69, Mismatches: 16, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
31 4 0.06
32 57 0.83
33 8 0.12
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (32 bp):
TTATGAAAATTTAAGCCCAATTTAGTTGGCAC
Found at i:10606704 original size:35 final size:35
Alignment explanation
Indices: 10606614--10606704 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
10606604 AAATTAGTAG
* *
10606614 TCATCTTTTATTTCTTGACTTGCAATTTTGTCTTGA
1 TCAT-TTTTATTTCTTGACTTGCAATTTAGTCTTAA
* *
10606650 TCATTTTTGCTTT-TTGACTTGCAGTTTAGT-TTCAA
1 TCATTTTT-ATTTCTTGACTTGCAATTTAGTCTT-AA
*
10606685 TCATTTTTATTTCTCGACTT
1 TCATTTTTATTTCTTGACTT
10606705 ATAACTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
34 5 0.11
35 34 0.74
36 7 0.15
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.56
Consensus pattern (35 bp):
TCATTTTTATTTCTTGACTTGCAATTTAGTCTTAA
Found at i:10606746 original size:35 final size:35
Alignment explanation
Indices: 10606684--10606752 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
10606674 TTTAGTTTCA
* * *
10606684 ATCATTTTTATTTCTCGACTTATAACTTAATCCTG
1 ATCATCTTTATTTCTCAACTTACAACTTAATCCTG
* * *
10606719 ATCATCTTTATTTTTCAACTTGCAACTTAGTCCT
1 ATCATCTTTATTTCTCAACTTACAACTTAATCCT
10606753 AGCTATTCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.48
Consensus pattern (35 bp):
ATCATCTTTATTTCTCAACTTACAACTTAATCCTG
Found at i:10607825 original size:29 final size:28
Alignment explanation
Indices: 10607778--10607835 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
10607768 TGCTAGGTCT
10607778 ACCATAAAAAAAAAAAAAGA-AACAACAA
1 ACCATAAAAAAAAAAAAAGATAA-AACAA
10607806 ACCA-AAAATAAAAACAAAAGATAAAACAA
1 ACCATAAAA-AAAAA-AAAAGATAAAACAA
10607835 A
1 A
10607836 AAATTCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 4 0.15
28 9 0.33
29 12 0.44
30 2 0.07
ACGTcount: A:0.78, C:0.14, G:0.03, T:0.05
Consensus pattern (28 bp):
ACCATAAAAAAAAAAAAAGATAAAACAA
Found at i:10608111 original size:3 final size:3
Alignment explanation
Indices: 10608103--10608137 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10608093 TGAATACCAA
10608103 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10608138 CCTAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10608210 original size:22 final size:21
Alignment explanation
Indices: 10608177--10608220 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10608167 AAAGGCCTAT
*
10608177 AAAATAAAAAAAGATGAGCCCA
1 AAAAAAAAAAAAGA-GAGCCCA
10608199 AAAAAAAGAAAAAGAGAGCCCA
1 AAAAAAA-AAAAAGAGAGCCCA
10608221 TAACTAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.66, C:0.14, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAAAAAAAAAAGAGAGCCCA
Found at i:10610642 original size:3 final size:3
Alignment explanation
Indices: 10610636--10610670 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10610626 AGAATTATTA
10610636 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10610671 ATTTTCAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10610850 original size:19 final size:19
Alignment explanation
Indices: 10610828--10610948 Score: 81
Period size: 19 Copynumber: 6.4 Consensus size: 19
10610818 AAATTTTAAG
10610828 TGAAACCTTAAACCTTAGA
1 TGAAACCTTAAACCTTAGA
* *
10610847 TGAAA-CTCTAAACCCTAGT
1 TGAAACCT-TAAACCTTAGA
*
10610866 TGAAACC-TAAAGCTCTA-A
1 TGAAACCTTAAACCT-TAGA
* *
10610884 GTGAAACCCTAAACCTTAGG
1 -TGAAACCTTAAACCTTAGA
*
10610904 TGAAA-CTTGAAACCTTAAA
1 TGAAACCTT-AAACCTTAGA
* * *
10610923 T-AAAACTCTAAACCCTAGG
1 TGAAACCT-TAAACCTTAGA
10610942 TGAAACC
1 TGAAACC
10610949 CAAAATCCTA
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
18 12 0.15
19 54 0.69
20 12 0.15
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (19 bp):
TGAAACCTTAAACCTTAGA
Found at i:10610870 original size:38 final size:37
Alignment explanation
Indices: 10610827--10610948 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 37
10610817 TAAATTTTAA
10610827 GTGAAACCTTAAACCTTAGATGAAACTCTAAACCCTAG
1 GTGAAACCTTAAACCTTA-ATGAAACTCTAAACCCTAG
* * * *
10610865 TTGAAACC-TAAAGCTCTAAGTGAAACCCTAAACCTTAG
1 GTGAAACCTTAAACCT-TAA-TGAAACTCTAAACCCTAG
*
10610903 GTGAAA-CTTGAAACCTTAAATAAAACTCTAAACCCTAG
1 GTGAAACCTT-AAACCTT-AATGAAACTCTAAACCCTAG
10610941 GTGAAACC
1 GTGAAACC
10610949 CAAAATCCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
37 8 0.12
38 53 0.77
39 8 0.12
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (37 bp):
GTGAAACCTTAAACCTTAATGAAACTCTAAACCCTAG
Found at i:10610945 original size:57 final size:57
Alignment explanation
Indices: 10610824--10610949 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 57
10610814 CCCTAAATTT
* ** * *
10610824 TAAGTGAAACCTTAAACCTTAGATGAAACTCTAAACCCTAGTTGAAACCTAAAGCTC
1 TAAGTGAAACCCTAAACCTTAGATGAAACTCTAAACCCTAAATAAAACCTAAAGCCC
* *
10610881 TAAGTGAAACCCTAAACCTTAGGTGAAACT-TGAAACCTTAAATAAAACTCTAAA-CCC
1 TAAGTGAAACCCTAAACCTTAGATGAAACTCT-AAACCCTAAATAAAAC-CTAAAGCCC
*
10610938 TAGGTGAAACCC
1 TAAGTGAAACCC
10610950 AAAATCCTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.02
57 53 0.90
58 5 0.08
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (57 bp):
TAAGTGAAACCCTAAACCTTAGATGAAACTCTAAACCCTAAATAAAACCTAAAGCCC
Found at i:10614594 original size:29 final size:29
Alignment explanation
Indices: 10614552--10614618 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
10614542 TTTAAGGAAA
10614552 ACATGTATATAAAGATTATCAAAATCATT
1 ACATGTATATAAAGATTATCAAAATCATT
10614581 ACATGTATATAAAGATTATCAAAATCATT
1 ACATGTATATAAAGATTATCAAAATCATT
*
10614610 ACATTTATA
1 ACATGTATA
10614619 ATAACAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (29 bp):
ACATGTATATAAAGATTATCAAAATCATT
Found at i:10614909 original size:63 final size:64
Alignment explanation
Indices: 10614671--10614923 Score: 249
Period size: 66 Copynumber: 3.9 Consensus size: 64
10614661 AAAAAGGTCA
* * * * * * *
10614671 TTGTTAAATAAATTTTTTTTTATGATTTGTCAAACATTGCATTTCTATTAGCCAAAGCA-TAGTT
1 TTGTTAAATAAA-TATTTTTTATGATTTATCAAACACTGCATTTATAATAGCCAAAACATTA-TG
10614735 C
64 C
* ** * * ** *
10614736 TTGTTAAATAAATTTTTTTTATGATTTATCAAACACTATATTTATAACAGCTAATGCATCATGC
1 TTGTTAAATAAATATTTTTTATGATTTATCAAACACTGCATTTATAATAGCCAAAACATTATGC
* * * ** *
10614800 TTATTACATAAAAGTTTTTTTTATGATTTATCAAACACTGTGTTTATAATGGCCAAAACATTATG
1 TTGTTAAAT-AAA-TATTTTTTATGATTTATCAAACACTGCATTTATAATAGCCAAAACATTATG
10614865 C
64 C
* *
10614866 TTGTTAAATAAA-ATTTTTTATGATTTATCAAACATTGCATTTATAATGGCCAAAACAT
1 TTGTTAAATAAATATTTTTTATGATTTATCAAACACTGCATTTATAATAGCCAAAACAT
10614924 AATGATTATT
Statistics
Matches: 158, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
63 42 0.27
64 46 0.29
65 19 0.12
66 51 0.32
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (64 bp):
TTGTTAAATAAATATTTTTTATGATTTATCAAACACTGCATTTATAATAGCCAAAACATTATGC
Found at i:10615131 original size:104 final size:105
Alignment explanation
Indices: 10614932--10615131 Score: 224
Period size: 104 Copynumber: 1.9 Consensus size: 105
10614922 ATAATGATTA
* * * * *
10614932 TTTATAAAACCAAAATATCATGCTTGTTAAATATAATGCTTTGATTATTTGTCAAATGCTGCATT
1 TTTATAAAACAAAAACATCATACTTGTTAAATATAATGCTTTGATGATTTGTCAAATACTGCATT
* ** *
10614997 TATAATGGCAAAAATGGTCATTATTGTTTAATACTACGTG
66 TATAATGACAAAAATCATCATGATTGTTTAATACTACGTG
* ** * * *
10615037 TTTATAAAACAAAAACATCGTACTTGTTAAA-ATAATTTTTTTATGATTTGTTAAATATTGCATT
1 TTTATAAAACAAAAACATCATACTTGTTAAATATAATGCTTTGATGATTTGTCAAATACTGCATT
* *
10615101 TATAATGACTAAAA-CATCATGCTTGATTTAA
66 TATAATGACAAAAATCATCATGATTG-TTTAA
10615132 GAAATATTCA
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
103 7 0.09
104 43 0.56
105 27 0.35
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (105 bp):
TTTATAAAACAAAAACATCATACTTGTTAAATATAATGCTTTGATGATTTGTCAAATACTGCATT
TATAATGACAAAAATCATCATGATTGTTTAATACTACGTG
Found at i:10615981 original size:72 final size:72
Alignment explanation
Indices: 10615864--10616008 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 72
10615854 GACAATCAAT
*
10615864 TGCTTTGTCATCCCGAAAGGTGCTCAACGTCTTGAAACATTTTCTAAGAGAAAATTCAAAGAAGC
1 TGCTTTGTCATCCCGAAAGGTGCTCAACGTCTTGAAACATTTTCTAAAAGAAAATTCAAAGAAGC
*
10615929 ATTCGAC
66 AATCGAC
* * * * *
10615936 TGCTTTGTCGTCTCGAATGGTGCTTAACGTCTT-AGAACATTTTCTAAAAGAAAATTCAAGGAAG
1 TGCTTTGTCATCCCGAAAGGTGCTCAACGTCTTGA-AACATTTTCTAAAAGAAAATTCAAAGAAG
10616000 CAATCGAC
65 CAATCGAC
10616008 T
1 T
10616009 ACTCCATAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 1 0.02
72 64 0.98
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (72 bp):
TGCTTTGTCATCCCGAAAGGTGCTCAACGTCTTGAAACATTTTCTAAAAGAAAATTCAAAGAAGC
AATCGAC
Found at i:10618454 original size:24 final size:24
Alignment explanation
Indices: 10618427--10618480 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
10618417 TTTTTCTTAT
*
10618427 TTTTAATTTTTTAGAAGAAT-C-ATA
1 TTTTAATATTTTA-AA-AATCCAATA
*
10618451 TTTTTATATTTTAAAAATCCAATA
1 TTTTAATATTTTAAAAATCCAATA
10618475 TTTTAA
1 TTTTAA
10618481 AAATTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 3 0.12
23 3 0.12
24 19 0.76
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTAATATTTTAAAAATCCAATA
Found at i:10618598 original size:24 final size:26
Alignment explanation
Indices: 10618529--10618600 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 26
10618519 TTAATATATA
10618529 TTTTTT-AAAAATCA-TATATTTGACT
1 TTTTTTAAAAAATCAGTAT-TTTGACT
* **
10618554 TTTTTTAAAAAGGTTTG-ATTTT-A-T
1 TTTTTTAAAAA-ATCAGTATTTTGACT
10618578 TTTTTTAAAAAATCAGTATTTTG
1 TTTTTTAAAAAATCAGTATTTTG
10618601 CTATTTCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
23 2 0.06
24 17 0.47
25 7 0.19
26 7 0.19
27 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (26 bp):
TTTTTTAAAAAATCAGTATTTTGACT
Found at i:10618706 original size:9 final size:10
Alignment explanation
Indices: 10618673--10618706 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10618663 AAGTTTGAGT
10618673 TTTTTTAA-A
1 TTTTTTAATA
10618682 TTTTTTAAATA
1 TTTTTT-AATA
10618693 TTTTTTAATA
1 TTTTTTAATA
10618703 TTTT
1 TTTT
10618707 CTACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 10 0.43
11 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:10619393 original size:21 final size:21
Alignment explanation
Indices: 10619369--10619411 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10619359 CTCGAAATTA
10619369 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
10619390 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
10619411 A
1 A
10619412 CAAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:10619434 original size:16 final size:16
Alignment explanation
Indices: 10619413--10619446 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10619403 TTTAAAATAC
* *
10619413 AAATAAATAATTATAT
1 AAATAAAAAATTAAAT
10619429 AAATAAAAAATTAAAT
1 AAATAAAAAATTAAAT
10619445 AA
1 AA
10619447 TTAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAAAATTAAAT
Found at i:10620097 original size:29 final size:29
Alignment explanation
Indices: 10620025--10620097 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
10620015 ACGAATAGTT
*
10620025 TTTAAATTATAGTGAAATATTTAATATAATA
1 TTTAAATTATA--AAAATATTTAATATAATA
* * * **
10620056 TTTAATTTTTAAAAATTTTTAATATTGTA
1 TTTAAATTATAAAAATATTTAATATAATA
10620085 TTTAAATTATAAA
1 TTTAAATTATAAA
10620098 TCTGTTAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 25 0.74
31 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTAAATTATAAAAATATTTAATATAATA
Found at i:10622838 original size:15 final size:15
Alignment explanation
Indices: 10622818--10622847 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10622808 AATTGATTTT
*
10622818 GACCATTTTGCTTAA
1 GACCATTTTGATTAA
10622833 GACCATTTTGATTAA
1 GACCATTTTGATTAA
10622848 TATTTTTATA
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:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
GACCATTTTGATTAA
Found at i:10625220 original size:21 final size:20
Alignment explanation
Indices: 10625182--10625220 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10625172 GCTTTTTCTC
*
10625182 TATTTACTTTTGAGCACTTT
1 TATTTACTTTTAAGCACTTT
10625202 TATTTACTTTTCAAGCACT
1 TATTTACTTTT-AAGCACT
10625221 CTCAATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (20 bp):
TATTTACTTTTAAGCACTTT
Found at i:10628606 original size:9 final size:8
Alignment explanation
Indices: 10628591--10628615 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10628581 GGATAAGTAC
10628591 ATTTTTTT
1 ATTTTTTT
10628599 ATTTTTTT
1 ATTTTTTT
10628607 ATTTTTTT
1 ATTTTTTT
10628615 A
1 A
10628616 AGAATAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:10630909 original size:26 final size:26
Alignment explanation
Indices: 10630880--10630930 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
10630870 AGATTAGTTT
10630880 TTAAAAGTCATTAC-AAATTATGCTTC
1 TTAAAAGTCATT-CTAAATTATGCTTC
10630906 TTAAAAGTCATTCTAAATTATGCTT
1 TTAAAAGTCATTCTAAATTATGCTT
10630931 AGACTAAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (26 bp):
TTAAAAGTCATTCTAAATTATGCTTC
Found at i:10632994 original size:12 final size:12
Alignment explanation
Indices: 10632973--10633003 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10632963 TTGGAATTTG
10632973 AAAAAAAAAATC
1 AAAAAAAAAATC
*
10632985 AAAAACAAAATC
1 AAAAAAAAAATC
10632997 AAAAAAA
1 AAAAAAA
10633004 TCAAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.84, C:0.10, G:0.00, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAATC
Found at i:10633036 original size:21 final size:23
Alignment explanation
Indices: 10632992--10633053 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
10632982 ATCAAAAACA
*
10632992 AAATCAAAAAAATCAAAA-AGAAAG
1 AAAT-AAAGAAAT-AAAAGAGAAAG
*
10633016 AAA-AAGGAAA-AAAAGAGAAAG
1 AAATAAAGAAATAAAAGAGAAAG
10633037 AAATAAAGAAATAAAAG
1 AAATAAAGAAATAAAAG
10633054 TATTCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.12
21 9 0.28
22 11 0.34
23 5 0.16
24 3 0.09
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (23 bp):
AAATAAAGAAATAAAAGAGAAAG
Found at i:10634967 original size:16 final size:17
Alignment explanation
Indices: 10634940--10634972 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10634930 TTTGTGTGCT
*
10634940 TATTTACTTGCATTTTA
1 TATTTACTTGCAGTTTA
10634957 TATTT-CTTGCAGTTTA
1 TATTTACTTGCAGTTTA
10634973 GTTTTTCTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTTACTTGCAGTTTA
Found at i:10635858 original size:16 final size:16
Alignment explanation
Indices: 10635807--10635851 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
10635797 TGTTTAAATT
*
10635807 TTTTATTTTTAGAAAA
1 TTTTATTTTTAGAAAG
* *
10635823 TTTGTATTTTTAGCATG
1 TTT-TATTTTTAGAAAG
10635840 TTTTATTTTTAG
1 TTTTATTTTTAG
10635852 TAGGTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.62
Consensus pattern (16 bp):
TTTTATTTTTAGAAAG
Found at i:10637679 original size:14 final size:15
Alignment explanation
Indices: 10637655--10637684 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10637645 TTGTCTTATA
10637655 AATGAAAATATATTT
1 AATGAAAATATATTT
10637670 AATG-AAATATATTT
1 AATGAAAATATATTT
10637684 A
1 A
10637685 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
AATGAAAATATATTT
Found at i:10643269 original size:25 final size:25
Alignment explanation
Indices: 10643235--10643297 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
10643225 GATTGTAGAA
* *
10643235 ATCTAATTCTCCTACATTAGTGCAG
1 ATCTGATTCTCCTAAATTAGTGCAG
*
10643260 ATCTGATTCTCTTAAATTAGTGCAG
1 ATCTGATTCTCCTAAATTAGTGCAG
*
10643285 CT-TGATT-TCCTAA
1 ATCTGATTCTCCTAA
10643298 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 5 0.15
24 5 0.15
25 23 0.70
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (25 bp):
ATCTGATTCTCCTAAATTAGTGCAG
Found at i:10647101 original size:25 final size:25
Alignment explanation
Indices: 10647073--10647121 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10647063 GAGTGTAGAA
*
10647073 ATTTGATTCTCCTACATTAGTGCAT
1 ATTTGATTATCCTACATTAGTGCAT
*
10647098 ATTTGATTATCTTACATTAGTGCA
1 ATTTGATTATCCTACATTAGTGCA
10647122 GCTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTTGATTATCCTACATTAGTGCAT
Found at i:10650167 original size:2 final size:2
Alignment explanation
Indices: 10650160--10650192 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10650150 CTCTTGTAAG
*
10650160 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10650193 TTTACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10656117 original size:480 final size:476
Alignment explanation
Indices: 10654877--10656789 Score: 3441
Period size: 480 Copynumber: 4.0 Consensus size: 476
10654867 GACATAAAAC
*
10654877 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAATTGATTCCAAAAA
1 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAAAAA
* *
10654942 AACTTGAAACCAACATAAGTAATACTCTTACTGAATCTGATTCAATTGAATCTTTTGATGATCTT
66 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAATTCAATCTTTTGATGATCTT
*
10655007 GATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCTAATTCATAATGTGGT
131 GATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCCAATTCATAATGTGGT
10655072 TTCTTAGGAAAGTTGATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTAGATT
196 TTCTTAGGAAAGTTGATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTAGATT
* *
10655137 CCTAATAATATTCATGAAGCACTTATGCAACCAAAATGGAAGATGGTTGATTTGGAAGAAATCAA
261 CCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGCTGATTTGGAAGAAATCAA
* *
10655202 GGCATTAGGAAAGAACAAAACATGGGAGATTTCATAATTACCCATAGGGAAAAATCTAGTTGGGT
326 GGCCTTAGGAAAGAACAAAACATGGGAGATTTCATAATTACCCAAAGGGAAAAATCTAGTTGGGT
10655267 GCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGAAGTATTAATAGATTTAAAGCTCGCCTT
391 GCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGAAGTATTAATAGATTTAAAGCTCGCCTT
10655332 GTTGCAAAAGAATTTACTCAA
456 GTTGCAAAAGAATTTACTCAA
*
10655353 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGC-AAGTCAAGAATCTAAACTGATTCCAGAAA
1 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAAAAA
10655417 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAATTTACTCAATCTTTTGATGA
66 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAA--T--TCAATCTTTTGATGA
* * *
10655482 TCTTGATCAACCGATTGCTCTAAGGGTAGGTGTGAAGTCATATACTCAACACCCAATTCGTAATG
127 TCTTGATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCCAATTCATAATG
* * *
10655547 TGGTTTCTTAGGAAAGTTTATCACCCAGTTTGACGGGCTTTTGTTACAACATGAAACAATATGTA
192 TGGTTTCTTAGGAAAGTTGATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTA
*
10655612 GATTCCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGTTGATTTGGAAGAAA
257 GATTCCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGCTGATTTGGAAGAAA
* *
10655677 TCAAGGCCTTAGGAAAGAGCAAAACATGGGAGATTTCATAATTACCTAAAGGGAAAAATCTAGTT
322 TCAAGGCCTTAGGAAAGAACAAAACATGGGAGATTTCATAATTACCCAAAGGGAAAAATCTAGTT
*
10655742 GGGTGCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGGAGTATTAATAGATTTAAAGCTCG
387 GGGTGCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGAAGTATTAATAGATTTAAAGCTCG
10655807 CCTTGTTGCAAAAGAATTTACTCAA
452 CCTTGTTGCAAAAGAATTTACTCAA
*
10655832 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAGAAA
1 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAAAAA
*
10655897 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAATTTACTCAATCTTTTGATGC
66 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAA--T--TCAATCTTTTGATGA
* *
10655962 TCTTGATCAACCGATTGCTCTAAGGATAGGTGTGAAGTCATATACTCAACACCCAATTCGTAATG
127 TCTTGATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCCAATTCATAATG
*
10656027 TGGTTTCTTAGGAAAGTTTATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTA
192 TGGTTTCTTAGGAAAGTTGATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTA
10656092 GATTCCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGCTGATTTGGAAGAAA
257 GATTCCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGCTGATTTGGAAGAAA
*
10656157 TCAAGGCCTTAGGAAAGAACAAAACATGAGAGATTTCATAATTACCCAAAGGGAAAAATCTAGTT
322 TCAAGGCCTTAGGAAAGAACAAAACATGGGAGATTTCATAATTACCCAAAGGGAAAAATCTAGTT
*
10656222 GGGTGCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGGAGTATTAATAGATTTAAAGCTCG
387 GGGTGCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGAAGTATTAATAGATTTAAAGCTCG
10656287 CCTTGTTGCAAAAGAATTTACTCAA
452 CCTTGTTGCAAAAGAATTTACTCAA
10656312 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAAAAA
1 TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAAAAA
*
10656377 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAATTGAATCTTTTGATGATCTT
66 AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAATTCAATCTTTTGATGATCTT
*
10656442 GATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCTAATTCATAATGTGGT
131 GATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCCAATTCATAATGTGGT
* *
10656507 TTCTTAGGAAAGTTGATCACCCAATTTGTCGGGCTTTTGTTATCACATGAAACAATATGTAGATT
196 TTCTTAGGAAAGTTGATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTAGATT
*
10656572 CCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGAGGGCTGATTTGGAAGAAATCAA
261 CCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGCTGATTTGGAAGAAATCAA
* *
10656637 GGCCTTAGGAAAGAACAAAACATGGGAGATTTCATAATTACGCAAAGGGAAAAATCTAGTTAGGT
326 GGCCTTAGGAAAGAACAAAACATGGGAGATTTCATAATTACCCAAAGGGAAAAATCTAGTTGGGT
*
10656702 GCAAATGGATCTTTATTGTCAAGCACAATGCAGATAGAAGTATTAATAGATTTAAAGCTCGCCTT
391 GCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGAAGTATTAATAGATTTAAAGCTCGCCTT
10656767 GTTGCAAAAGAATTTACTCAA
456 GTTGCAAAAGAATTTACTCAA
10656788 TC
1 TC
10656790 ATATGGTGTT
Statistics
Matches: 1392, Mismatches: 40, Indels: 10
0.97 0.03 0.01
Matches are distributed among these distances:
475 71 0.05
476 388 0.28
477 1 0.00
478 1 0.00
479 386 0.28
480 545 0.39
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (476 bp):
TCGGAAGGATCTAGGAGAATGTACACCTTCAAAGCAAAGTCAAGAATCTAAACTGATTCCAAAAA
AACTTGAAACCAACACAAGTAATACTCTTACTGAATCTGATTCAATTCAATCTTTTGATGATCTT
GATCAACCGATTGCCCTAAGGATAGGTGTGAAGTCATATACTCAACACCCAATTCATAATGTGGT
TTCTTAGGAAAGTTGATCACCCAGTTTGTCGGGCTTTTGTTACCACATGAAACAATATGTAGATT
CCTAATAATATTCATGAAGCACTCATGCAACCAAAATGGAAGATGGCTGATTTGGAAGAAATCAA
GGCCTTAGGAAAGAACAAAACATGGGAGATTTCATAATTACCCAAAGGGAAAAATCTAGTTGGGT
GCAAATGGATCTTTATTGTCAAGCACAATGCAGATGGAAGTATTAATAGATTTAAAGCTCGCCTT
GTTGCAAAAGAATTTACTCAA
Found at i:10658142 original size:74 final size:75
Alignment explanation
Indices: 10658007--10658176 Score: 263
Period size: 74 Copynumber: 2.3 Consensus size: 75
10657997 CACCTAAGGC
* *
10658007 AAGGGATCAATCCCCTCTT-AAAGGGATCGATCGGTTGCTCAGACAAAATGTTTCCCAAGTTCAA
1 AAGGGATCGATCCCCTCTTAAAAAGGATCGATCGGTTGCTCAGACAAAATGTTTCCCAAGTTCAA
10658071 AAACCCAGAA
66 AAACCCAGAA
* * *
10658081 AAGGGATCGATCCCCTTTTAAAAAGGATCGATCGGTTGCTCAGACAGAATG-TTCCCCAGTTCAA
1 AAGGGATCGATCCCCTCTTAAAAAGGATCGATCGGTTGCTCAGACAAAATGTTTCCCAAGTTCAA
*
10658145 AACCCCAGAA
66 AAACCCAGAA
*
10658155 AAGGGATTGATCCCCTCTTAAA
1 AAGGGATCGATCCCCTCTTAAA
10658177 GGTATCGATC
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 58 0.67
75 29 0.33
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (75 bp):
AAGGGATCGATCCCCTCTTAAAAAGGATCGATCGGTTGCTCAGACAAAATGTTTCCCAAGTTCAA
AAACCCAGAA
Done.