Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, 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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 38
Found at i:6385498 original size:23 final size:22
Alignment explanation
Indices: 6385470--6385529 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
6385460 AAAAATAATA
6385470 AAAATAAAAACAAGAACAAAAC
1 AAAATAAAAACAAGAACAAAAC
* *
6385492 AAGAATAAAAACACAG-AGAAGAC
1 AA-AATAAAAACA-AGAACAAAAC
6385515 AAAATAAAAA-AAGAA
1 AAAATAAAAACAAGAA
6385530 GAATAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 10 0.30
23 17 0.52
24 2 0.06
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.05
Consensus pattern (22 bp):
AAAATAAAAACAAGAACAAAAC
Found at i:6385675 original size:2 final size:2
Alignment explanation
Indices: 6385668--6385698 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6385658 AACTATAGTA
6385668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6385699 ATAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6385721 original size:40 final size:41
Alignment explanation
Indices: 6385674--6385774 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 41
6385664 AGTAATATAT
*
6385674 ATATATATATATATATATATATATAATAAAATA-A-AAGATAAA
1 ATATATATATATA-ATA-ATATATAAAAAAATAGACAA-ATAAA
* * *
6385716 ATATATATAAATAATAATTTGTAAAAAAATAGACAAATAAA
1 ATATATATATATAATAATATATAAAAAAATAGACAAATAAA
*
6385757 AT-TATATATATAAAAATA
1 ATATATATATATAATAATA
6385775 ATATTAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
40 25 0.50
41 11 0.22
42 14 0.28
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (41 bp):
ATATATATATATAATAATATATAAAAAAATAGACAAATAAA
Found at i:6387911 original size:110 final size:110
Alignment explanation
Indices: 6387706--6388033 Score: 479
Period size: 110 Copynumber: 3.0 Consensus size: 110
6387696 TCCAAGTAAA
* * * * * *
6387706 TTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTCAAAATTGACTCTG---G-AACTGGGA
1 TTGTATTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACT-GAA
*
6387767 AA-TTGTTTGTTGACAGTCAG-CTGCCCCTTCGCTGTGAAGTTGATC
65 AAGTTGTTTGTTGACAGTCAGTC-GCCCCTTCGCTGTGAAGTTGAGC
* * *
6387812 TTGTGTTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGAAA
1 TTGTATTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAA
6387877 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
*
6387922 TTGTATTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAATTGAAA
1 TTGTATTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAA
* *
6387987 AGTTATTTGTTAACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
6388032 TT
1 TT
6388034 CAAATGGCAC
Statistics
Matches: 200, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
106 44 0.22
109 5 0.03
110 150 0.75
111 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (110 bp):
TTGTATTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:6389138 original size:14 final size:14
Alignment explanation
Indices: 6389119--6389170 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 14
6389109 ACCCACCTTA
6389119 TTTTTCTTTTCTCT
1 TTTTTCTTTTCTCT
*
6389133 TTTTTCTTTTGCTAT
1 TTTTTCTTTT-CTCT
* *
6389148 TTTTTATTTT-TCC
1 TTTTTCTTTTCTCT
6389161 TTTTT-TTTTC
1 TTTTTCTTTTC
6389171 AATTTAGGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 4 0.12
13 6 0.19
14 10 0.31
15 12 0.38
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTCTCT
Found at i:6389236 original size:25 final size:25
Alignment explanation
Indices: 6389208--6389257 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6389198 CCCTAAACGT
*
6389208 TTTTTCTCTTTT-TTGTTCTTTTTTC
1 TTTTTCT-TTTTATTCTTCTTTTTTC
*
6389233 TTTTTCTTTTTATTCTTTTTTTTTC
1 TTTTTCTTTTTATTCTTCTTTTTTC
6389258 CTTCTCCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (25 bp):
TTTTTCTTTTTATTCTTCTTTTTTC
Found at i:6398433 original size:20 final size:22
Alignment explanation
Indices: 6398408--6398449 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
6398398 AAAAAGTTAG
6398408 TAAAATAAA-AAATGAT-AAAA
1 TAAAATAAATAAATGATGAAAA
6398428 TAAAATAAATAAATGATGAAAA
1 TAAAATAAATAAATGATGAAAA
6398450 AAAGACAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 7 0.35
22 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (22 bp):
TAAAATAAATAAATGATGAAAA
Found at i:6398463 original size:22 final size:21
Alignment explanation
Indices: 6398408--6398463 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
6398398 AAAAAGTTAG
*
6398408 TAAAATAAA-AAATGATAAAA
1 TAAAACAAACAAATGATAAAA
* *
6398428 TAAAATAAATAAATGATGAAAA
1 TAAAACAAACAAATGAT-AAAA
6398450 -AAAGACAAACAAAT
1 TAAA-ACAAACAAAT
6398464 AGCAAGGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.29
21 10 0.32
22 12 0.39
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (21 bp):
TAAAACAAACAAATGATAAAA
Found at i:6399701 original size:49 final size:46
Alignment explanation
Indices: 6399604--6399711 Score: 126
Period size: 49 Copynumber: 2.3 Consensus size: 46
6399594 TGATATATAT
* *
6399604 ATATACATATATAAATATTAGAAAAAAACAAATAAAAATAATAATA
1 ATATATATATATAAATAGTAGAAAAAAACAAATAAAAATAATAATA
* * * **
6399650 ATATATATGTATAAATGAGTAGAATAAAAAGAAGATAATAATAATGGTA
1 ATATATATATATAAAT-AGTAGAA-AAAAACAA-ATAAAAATAATAATA
6399699 ATATATATATATA
1 ATATATATATATA
6399712 TATATATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 14 0.27
47 6 0.12
48 7 0.14
49 24 0.47
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (46 bp):
ATATATATATATAAATAGTAGAAAAAAACAAATAAAAATAATAATA
Found at i:6399706 original size:2 final size:2
Alignment explanation
Indices: 6399699--6399779 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
6399689 AATAATGGTA
6399699 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6399741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6399780 AATAAATAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6399875 original size:3 final size:3
Alignment explanation
Indices: 6399867--6399910 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
6399857 TGATATATAT
*
6399867 ATA ATA ATA ATA ATA ATA ATA ATA TTGA A-A ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA AT
6399911 GGTTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.92
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6399876 original size:92 final size:95
Alignment explanation
Indices: 6399765--6399936 Score: 216
Period size: 92 Copynumber: 1.8 Consensus size: 95
6399755 ATATATATAT
*
6399765 ATATATATATATATAAATAAATAA-AATAA-AAGA-TAAAATATATATAATAATAAT-TTATAAA
1 ATATATATATATATAAAT-AATAATAATAATAAGATTAAAA-ATA-ATAATAATAATGGT-TAAA
6399826 AAAGT-AATA-AAATAAAAATAGACAAATAAAATG
62 AAA-TAAATAGAAATAAAAATAGACAAATAAAATG
* *
6399859 ATATATATATA-AT-AATAATAATAATAATAATATTGAAAATAATAATAATAATGGTTAAAAAAT
1 ATATATATATATATAAATAATAATAATAATAAGATTAAAAATAATAATAATAATGGTTAAAAAAT
6399922 AAATAGAAATAAAAA
66 AAATAGAAATAAAAA
6399937 ATGGTAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
91 6 0.09
92 30 0.43
93 18 0.26
94 15 0.22
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.30
Consensus pattern (95 bp):
ATATATATATATATAAATAATAATAATAATAAGATTAAAAATAATAATAATAATGGTTAAAAAAT
AAATAGAAATAAAAATAGACAAATAAAATG
Found at i:6401549 original size:13 final size:13
Alignment explanation
Indices: 6401531--6401557 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6401521 TAAATTTATT
6401531 ATTAATAATAATA
1 ATTAATAATAATA
6401544 ATTAATAATAATA
1 ATTAATAATAATA
6401557 A
1 A
6401558 ATCCCAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:6402071 original size:16 final size:16
Alignment explanation
Indices: 6402050--6402080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6402040 TGATAAATGA
*
6402050 TTTTAGAAATTGTATT
1 TTTTAGAAAATGTATT
6402066 TTTTAGAAAATGTAT
1 TTTTAGAAAATGTAT
6402081 AAACATAATC
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:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
TTTTAGAAAATGTATT
Found at i:6402412 original size:21 final size:21
Alignment explanation
Indices: 6402386--6402426 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6402376 AAAGAGAAAC
6402386 ATGAATATTAACATTTTCAAT
1 ATGAATATTAACATTTTCAAT
6402407 ATGAATATTAACATTTTCAA
1 ATGAATATTAACATTTTCAA
6402427 GTTACGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
ATGAATATTAACATTTTCAAT
Found at i:6402823 original size:70 final size:74
Alignment explanation
Indices: 6402698--6402849 Score: 222
Period size: 70 Copynumber: 2.1 Consensus size: 74
6402688 GTTTTATCTA
** * *
6402698 AATTAATCTATTATAAATAATTAAAAATAAATAAATAGAACTACATCATAAAAGAAT-A-ATATA
1 AATTAATAGATTATAAATAATT-AAAATAAATAAATACAACTACAGCATAAAAGAATAATATATA
6402761 AACACTAGTG
65 AACACTAGTG
*
6402771 AATTAATAGATTATAAATAATT-AAA-AAATAAATACAATTACAGCATAAAAGAATAATATATAA
1 AATTAATAGATTATAAATAATTAAAATAAATAAATACAACTACAGCATAAAAGAATAATATATAA
6402834 ACACTAGTG
66 ACACTAGTG
6402843 AATTAAT
1 AATTAAT
6402850 TTACCATCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
70 26 0.36
71 4 0.06
72 22 0.31
73 20 0.28
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (74 bp):
AATTAATAGATTATAAATAATTAAAATAAATAAATACAACTACAGCATAAAAGAATAATATATAA
ACACTAGTG
Found at i:6403763 original size:2 final size:2
Alignment explanation
Indices: 6403756--6403780 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6403746 TTATTCAATA
6403756 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 A
6403781 ATTAGGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6404397 original size:12 final size:12
Alignment explanation
Indices: 6404370--6404420 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
6404360 TCCTGTTATT
**
6404370 TTTTTTGTTATT
1 TTTTTTGTTACG
6404382 TTTTTTGTTACG
1 TTTTTTGTTACG
*
6404394 TTTTATT-TTTC-
1 TTTT-TTGTTACG
6404405 TTTTTTGTTACG
1 TTTTTTGTTACG
6404417 TTTT
1 TTTT
6404421 ATTTTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.06
11 7 0.22
12 21 0.66
13 2 0.06
ACGTcount: A:0.08, C:0.06, G:0.10, T:0.76
Consensus pattern (12 bp):
TTTTTTGTTACG
Found at i:6404402 original size:15 final size:12
Alignment explanation
Indices: 6404363--6404391 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6404353 CATGCACTCC
6404363 TGTTATTTTTTT
1 TGTTATTTTTTT
6404375 TGTTATTTTTTT
1 TGTTATTTTTTT
6404387 TGTTA
1 TGTTA
6404392 CGTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (12 bp):
TGTTATTTTTTT
Found at i:6404408 original size:23 final size:23
Alignment explanation
Indices: 6404382--6404431 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
6404372 TTTTGTTATT
6404382 TTTTTTGTTACGTTTTATTTTTC
1 TTTTTTGTTACGTTTTATTTTTC
6404405 TTTTTTGTTACGTTTTATTTTTC
1 TTTTTTGTTACGTTTTATTTTTC
6404428 TTTT
1 TTTT
6404432 GATAGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTTTGTTACGTTTTATTTTTC
Found at i:6405607 original size:16 final size:16
Alignment explanation
Indices: 6405586--6405628 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
6405576 TATGATTAAC
6405586 TAATAATTAATAATAT
1 TAATAATTAATAATAT
6405602 TAATAATTAAT-ATAT
1 TAATAATTAATAATAT
6405617 T-ATAATT-ATAAT
1 TAATAATTAATAAT
6405629 TATAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.08
14 8 0.31
15 5 0.19
16 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATTAATAATAT
Found at i:6405624 original size:6 final size:6
Alignment explanation
Indices: 6405604--6405675 Score: 62
Period size: 6 Copynumber: 12.3 Consensus size: 6
6405594 AATAATATTA
* *
6405604 ATAATT AATATATT ATAATT ATAATT ATAATT ATAATT A-ATTT A-AATA
1 ATAATT -ATA-ATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
* *
6405652 AT-ATT AT-CTT ATAATT TTAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
6405676 GTGATATTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
5 15 0.28
6 30 0.56
7 6 0.11
8 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (6 bp):
ATAATT
Found at i:6405644 original size:16 final size:15
Alignment explanation
Indices: 6405588--6405645 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
6405578 TGATTAACTA
*
6405588 ATAATTAATAATATT
1 ATAATTAATTATATT
6405603 AATAATTAA-TATATT
1 -ATAATTAATTATATT
6405618 ATAATTATAATTATAATT
1 ATAA-T-TAATTAT-ATT
6405636 ATAATTAATT
1 ATAATTAATT
6405646 TAAATAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 4 0.11
15 6 0.16
16 16 0.43
17 4 0.11
18 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATTAATTATATT
Found at i:6406230 original size:20 final size:21
Alignment explanation
Indices: 6406189--6406230 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6406179 AAGGAAGTCT
*
6406189 TTAATTAAAATATATCATTATA
1 TTAATTAAAATAGA-CATTATA
6406211 TTAATTAAAATAGA-ATTATA
1 TTAATTAAAATAGACATTATA
6406231 CAAAGTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TTAATTAAAATAGACATTATA
Found at i:6410070 original size:99 final size:99
Alignment explanation
Indices: 6409899--6410097 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
6409889 CCGGATATTC
6409899 GTGAACGGGAATTCCTCATTCGTCTTTCAGGTCTCGAATAACATAACACCTTATGATACTTGCTC
1 GTGAACGGGAATTCCTCATTCGTCTTTCAGGTCTCGAATAACATAACACCTTATGATACTTGCTC
6409964 TTGCAGAGCACAAATACGAAATTGTGAAGAAATT
66 TTGCAGAGCACAAATACGAAATTGTGAAGAAATT
6409998 GTGAACGGGAATTCCTCATTCGTCTTTCAGGTCTCGAATAACATAACACCTTATGATACTTGCTC
1 GTGAACGGGAATTCCTCATTCGTCTTTCAGGTCTCGAATAACATAACACCTTATGATACTTGCTC
6410063 TTGCAGAGCACAAATACGAAATTGTGAAGAAATT
66 TTGCAGAGCACAAATACGAAATTGTGAAGAAATT
6410097 G
1 G
6410098 CAGGAGAGGA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (99 bp):
GTGAACGGGAATTCCTCATTCGTCTTTCAGGTCTCGAATAACATAACACCTTATGATACTTGCTC
TTGCAGAGCACAAATACGAAATTGTGAAGAAATT
Found at i:6413228 original size:21 final size:20
Alignment explanation
Indices: 6413181--6413330 Score: 167
Period size: 21 Copynumber: 7.3 Consensus size: 20
6413171 GTTTCCAATT
*
6413181 TCGCAACGTGAATAGTATAA
1 TCGCAACGTGAATAGTAAAA
*
6413201 TCGTAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
**
6413222 TCATAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGT-AAAA
*
6413243 TCGCAACATGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAA
6413263 TCGCAACGTGAATAGTCAAAA
1 TCGCAACGTGAATAGT-AAAA
* * * *
6413284 TCACAACGCGAATTGGAAAA
1 TCGCAACGTGAATAGTAAAA
6413304 TCGCAACGTGAATTTAG-AAAA
1 TCGCAACGTGAA--TAGTAAAA
6413325 TCGCAA
1 TCGCAA
6413331 AATCGCGTTA
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
20 48 0.43
21 62 0.55
22 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (20 bp):
TCGCAACGTGAATAGTAAAA
Found at i:6413263 original size:41 final size:41
Alignment explanation
Indices: 6413181--6413330 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
6413171 GTTTCCAATT
* *
6413181 TCGCAACGTGAATAGT-ATAATCGTAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGTAAAAATCGCAACGTGAATAGT-AAAA
** *
6413222 TCATAACGTGAATAGTAAAAATCGCAACATGAATAGTAAAA
1 TCGCAACGTGAATAGTAAAAATCGCAACGTGAATAGTAAAA
* * * * *
6413263 TCGCAACGTGAATAGTCAAAATCACAACGCGAATTGGAAAA
1 TCGCAACGTGAATAGTAAAAATCGCAACGTGAATAGTAAAA
*
6413304 TCGCAACGTGAAT-TTAGAAAATCGCAA
1 TCGCAACGTGAATAGTA-AAAATCGCAA
6413331 AATCGCGTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.01
41 73 0.80
42 17 0.19
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (41 bp):
TCGCAACGTGAATAGTAAAAATCGCAACGTGAATAGTAAAA
Found at i:6413278 original size:62 final size:61
Alignment explanation
Indices: 6413181--6413330 Score: 194
Period size: 62 Copynumber: 2.4 Consensus size: 61
6413171 GTTTCCAATT
* * * *
6413181 TCGCAACGTGAATAGTATAATCGTAACGTGAATAGTAAAAATCATAACGTGAATAGTAAAAA
1 TCGCAACGTGAATAGTAAAATCGCAACGTGAATAGTAAAAATCACAACGCGAATAG-AAAAA
* * * *
6413243 TCGCAACATGAATAGTAAAATCGCAACGTGAATAGTCAAAATCACAACGCGAATTGGAAAA
1 TCGCAACGTGAATAGTAAAATCGCAACGTGAATAGTAAAAATCACAACGCGAATAGAAAAA
6413304 TCGCAACGTGAATTTAG-AAAATCGCAA
1 TCGCAACGTGAA--TAGTAAAATCGCAA
6413331 AATCGCGTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
61 15 0.19
62 59 0.77
63 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (61 bp):
TCGCAACGTGAATAGTAAAATCGCAACGTGAATAGTAAAAATCACAACGCGAATAGAAAAA
Found at i:6413706 original size:20 final size:20
Alignment explanation
Indices: 6413677--6413785 Score: 130
Period size: 20 Copynumber: 5.4 Consensus size: 20
6413667 CATATAGATT
*
6413677 CGTTACGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
*
6413697 CGTTGTGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
* *
6413717 CGTTACGATTTTATTATTCA
1 CGTTGCGATTTTACTATTCA
*
6413737 CATTGCGATTTTTACTATTCA
1 CGTTGCGA-TTTTACTATTCA
* *
6413758 CGTTGCGAATTTGACT-TTCG
1 CGTTGCG-ATTTTACTATTCA
6413778 CGTTGCGA
1 CGTTGCGA
6413786 ATTTGACTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.01
20 51 0.67
21 23 0.30
22 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:6413784 original size:41 final size:40
Alignment explanation
Indices: 6413697--6413818 Score: 104
Period size: 41 Copynumber: 3.0 Consensus size: 40
6413687 TTACTATTCA
* * * * *
6413697 CGTTGTGATTTTACTATTCACGTTACG-ATTTTATTATTCA
1 CGTTGCGATTTTACTATTCACGTTGCGAATTTGACT-TTCG
*
6413737 CATTGCGATTTTTACTATTCACGTTGCGAATTTGACTTTCG
1 CGTTGCGA-TTTTACTATTCACGTTGCGAATTTGACTTTCG
* *** *
6413778 CGTTGCGAATTTGACT-TTTGTGTTGCGAATTTGACTATCG
1 CGTTGCG-ATTTTACTATTCACGTTGCGAATTTGACTTTCG
6413818 C
1 C
6413819 ATTACGAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
40 27 0.40
41 33 0.49
42 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (40 bp):
CGTTGCGATTTTACTATTCACGTTGCGAATTTGACTTTCG
Found at i:6413786 original size:20 final size:20
Alignment explanation
Indices: 6413739--6413834 Score: 111
Period size: 20 Copynumber: 4.8 Consensus size: 20
6413729 ATTATTCACA
* * *
6413739 TTGCGATTTTTACTATTCACG
1 TTGCGAATTTGACT-TTCGCG
6413760 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGCG
* *
6413780 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGCG
* *
6413800 TTGCGAATTTGACTATCGCA
1 TTGCGAATTTGACTTTCGCG
*
6413820 TTACGAATTTGACTT
1 TTGCGAATTTGACTT
6413835 CTGTGTTGCG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
20 52 0.81
21 12 0.19
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGCG
Found at i:6413804 original size:40 final size:40
Alignment explanation
Indices: 6413759--6413866 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
6413749 TACTATTCAC
*
6413759 GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGT
* * *
6413799 GTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGT
*
6413839 GTTGCG-ATTT-ACAGATTCGCGTTGCGAA
1 GTTGCGAATTTGAC--TTTCGCGTTGCGAA
6413867 ATTGGAAACT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.03
39 4 0.07
40 52 0.90
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (40 bp):
GTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGT
Found at i:6414793 original size:71 final size:71
Alignment explanation
Indices: 6414679--6414820 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 71
6414669 GCACATAGGG
**
6414679 TCTTTTTCAAAAGTACAATGACTTCTATGGCTTTTTACCA-TTTTTTTACATTTATGCATGGTAT
1 TCTTTTTCAAAAGT--AATGACTTCTATACCTTTTTACCATTTTTTTTACATTTATGCATGGTAT
6414743 AGTTTGTT
64 AGTTTGTT
*
6414751 TCTTTTTCAAAAGT-ATGACTTTTCTATACCTTTTTACCATTTTTTTTACATTTATGTATGGTAT
1 TCTTTTTCAAAAGTAATGAC--TTCTATACCTTTTTACCATTTTTTTTACATTTATGCATGGTAT
6414815 AGTTTG
64 AGTTTG
6414821 GTGATTGTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
69 5 0.08
71 16 0.25
72 43 0.67
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.52
Consensus pattern (71 bp):
TCTTTTTCAAAAGTAATGACTTCTATACCTTTTTACCATTTTTTTTACATTTATGCATGGTATAG
TTTGTT
Found at i:6421264 original size:25 final size:25
Alignment explanation
Indices: 6421229--6421282 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
6421219 TGAATAAATA
* *
6421229 TATTTATAAAATAAATATT-ATTTT
1 TATTTATAAAATAAAAATTAATTGT
6421253 TATTTAATAAAATAAAAATTAATTGT
1 TATTT-ATAAAATAAAAATTAATTGT
6421279 TATT
1 TATT
6421283 ACAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 13 0.50
26 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TATTTATAAAATAAAAATTAATTGT
Found at i:6423618 original size:20 final size:20
Alignment explanation
Indices: 6423581--6423619 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6423571 AATTTTGGAA
*
6423581 ATGAATATATGTTTTTTTTC
1 ATGAATATATGTTATTTTTC
6423601 ATGAATATAT-TTAATTTTT
1 ATGAATATATGTT-ATTTTT
6423620 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (20 bp):
ATGAATATATGTTATTTTTC
Found at i:6435965 original size:39 final size:39
Alignment explanation
Indices: 6435922--6436040 Score: 104
Period size: 39 Copynumber: 3.1 Consensus size: 39
6435912 TTTTAAAAAT
6435922 AATTTAGAACGTTAATGTGAAATAATTTAAGAAATTATG
1 AATTTAGAACGTTAATGTGAAATAATTTAAGAAATTATG
* **
6435961 AATTTAGAACATT-ATGGTGTCA-AATTTGAAGAAATTATG
1 AATTTAGAACGTTAAT-GTGAAATAATTT-AAGAAATTATG
* * * *
6436000 -ATTTCAAAATGTTAGA-GTGAAATAATTTGAG-GATTATG
1 AATTT-AGAACGTTA-ATGTGAAATAATTTAAGAAATTATG
6436038 AAT
1 AAT
6436041 AAAATTTTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
38 17 0.27
39 40 0.63
40 5 0.08
41 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (39 bp):
AATTTAGAACGTTAATGTGAAATAATTTAAGAAATTATG
Found at i:6436471 original size:31 final size:31
Alignment explanation
Indices: 6436405--6436474 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
6436395 GGGGTAATCA
* * * *
6436405 ATATCTAAATTAAATAAAAACGAAAGTGACC
1 ATATCTTAATTAAATAAAAACAAAAGTCAAC
*
6436436 ATATCTTAATTAAATAAAAACAAAAGTCAAT
1 ATATCTTAATTAAATAAAAACAAAAGTCAAC
6436467 ATATCTTA
1 ATATCTTA
6436475 TGTTTTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (31 bp):
ATATCTTAATTAAATAAAAACAAAAGTCAAC
Found at i:6440793 original size:156 final size:156
Alignment explanation
Indices: 6440521--6440840 Score: 439
Period size: 156 Copynumber: 2.0 Consensus size: 156
6440511 GTAAGAGTGT
*
6440521 CAACAATTAAATCTTAAAAAGTTAGAACTAGCTCAGACATTGCAGACTCATAATCCCAAGTTCTG
1 CAACAATTAAATCTTAAAAAGTTAGAACTAGCTCAGACATCGCAGACTCATAATCCCAAGTTCTG
* * * *
6440586 AATGCCTTTAAAGCCGTGTTTCTTTCTTCTCCTAATCAGCTCTCTTTGAAATTCTTAGTCGCGTT
66 AATGCATATAAA--C--G--TCTTTCTTCTCCTAATCAGCTCTCTTCGAAATTCTTAGTCGCATT
*
6440651 TTAAACAGTAGAGCTGATTTTAGCAGAGGCAG
125 TTAAACAGTAGAGCTAATTTTAGCAGAGGCAG
* **
6440683 CAACGAATTAAATCTTAAAAGAGTTAGAACTAGTTTGGACATCGCAGACTCATAATCCCAAGTTC
1 CAAC-AATTAAATCTTAAAA-AGTTAGAACTAGCTCAGACATCGCAGACTCATAATCCCAAGTTC
6440748 T-AACTGCATATAAA-G-CTTTCTTCTCCTAATCAGCTCTCTTCGAAATTCTTAGTCGCATTTTA
64 TGAA-TGCATATAAACGTCTTTCTTCTCCTAATCAGCTCTCTTCGAAATTCTTAGTCGCATTTTA
* *
6440810 AACAGTAGGGCTAATTTTAGCAGAGGTAG
128 AACAGTAGAGCTAATTTTAGCAGAGGCAG
6440839 CA
1 CA
6440841 TATGCTTACA
Statistics
Matches: 144, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
156 73 0.51
159 1 0.01
162 4 0.03
163 17 0.12
164 49 0.34
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (156 bp):
CAACAATTAAATCTTAAAAAGTTAGAACTAGCTCAGACATCGCAGACTCATAATCCCAAGTTCTG
AATGCATATAAACGTCTTTCTTCTCCTAATCAGCTCTCTTCGAAATTCTTAGTCGCATTTTAAAC
AGTAGAGCTAATTTTAGCAGAGGCAG
Found at i:6441284 original size:10 final size:11
Alignment explanation
Indices: 6441264--6441288 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6441254 CCCAGATTCC
6441264 AAAAATAAAAA
1 AAAAATAAAAA
6441275 AAAAATAAAAA
1 AAAAATAAAAA
6441286 AAA
1 AAA
6441289 TGATTTAAAA
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:6441688 original size:23 final size:23
Alignment explanation
Indices: 6441662--6441709 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6441652 ATAAAGTACA
*
6441662 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
6441685 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
6441708 AT
1 AT
6441710 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:6442459 original size:18 final size:18
Alignment explanation
Indices: 6442436--6442472 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6442426 CGAAATATAT
6442436 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
6442454 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
6442472 A
1 A
6442473 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:6442702 original size:23 final size:23
Alignment explanation
Indices: 6442676--6442740 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
6442666 ATGCGAGATA
6442676 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
6442699 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
6442722 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
6442741 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:6443121 original size:21 final size:20
Alignment explanation
Indices: 6443091--6443144 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
6443081 GATAGACACT
*
6443091 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
6443112 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
6443135 TTACATTATA
1 TTACATTATA
6443145 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:6443132 original size:23 final size:23
Alignment explanation
Indices: 6443106--6443168 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
6443096 ATATAACCAT
6443106 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
6443129 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
6443152 TACCTATTACATCATAT
1 TACCTATTACATTATAT
6443169 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:6443560 original size:23 final size:23
Alignment explanation
Indices: 6443534--6443596 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
6443524 CAATAACCAT
6443534 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
6443557 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
6443580 TACCTATTACATCATAT
1 TACCTATTACATTATAT
6443597 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:6443595 original size:428 final size:428
Alignment explanation
Indices: 6442678--6443694 Score: 1961
Period size: 428 Copynumber: 2.4 Consensus size: 428
6442668 GCGAGATAGA
6442678 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
6442743 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
6442808 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
6442873 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
6442938 AATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
261 AATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
*
6443003 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
326 ATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
6443068 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
6443106 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
6443171 TTACCTATTATA-TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
6443235 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
6443300 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
6443365 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAAT-A-ATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATT
6443430 AATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
323 AATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
6443495 ACACTTTTATAAAAAGGATAGACACTTTAC-A-ATAACCAT
388 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
6443534 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
6443599 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
6443663 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
6443695 ACTGCGAATT
Statistics
Matches: 583, Mismatches: 2, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
427 192 0.33
428 209 0.36
429 52 0.09
430 130 0.22
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (428 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
AATTTAATAATAATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
ATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:6446577 original size:184 final size:184
Alignment explanation
Indices: 6446150--6447370 Score: 2349
Period size: 184 Copynumber: 6.7 Consensus size: 184
6446140 TTTTAAATGG
* *
6446150 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6446215 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6446280 GATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6446333 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446398 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
6446463 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6446517 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446582 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
6446647 GATATGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6446701 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446766 TAAGACCGGTATATTTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
6446830 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6446884 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446949 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6447014 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6447068 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6447133 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6447198 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6447252 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6447317 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT-TATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
6447371 ATGTTGAAAG
Statistics
Matches: 1028, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
183 337 0.33
184 691 0.67
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:6446823 original size:367 final size:368
Alignment explanation
Indices: 6446150--6447370 Score: 2358
Period size: 367 Copynumber: 3.3 Consensus size: 368
6446140 TTTTAAATGG
* *
6446150 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6446215 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6446280 GATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
6446344 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
6446409 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
6446474 TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
6446517 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446582 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
6446647 GATATGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
6446712 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
6446777 TATTTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
6446841 TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
6446884 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446949 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6447014 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
6447079 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
6447144 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
*
6447209 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
6447252 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6447317 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT-TATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
6447371 ATGTTGAAAG
Statistics
Matches: 843, Mismatches: 9, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
367 519 0.62
368 324 0.38
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (368 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:6447191 original size:551 final size:551
Alignment explanation
Indices: 6446150--6447370 Score: 2347
Period size: 551 Copynumber: 2.2 Consensus size: 551
6446140 TTTTAAATGG
* *
6446150 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6446215 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6446280 GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAA
131 GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAA
6446345 GTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
196 GTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
6446410 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAAT
261 ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAAT
*
6446475 GTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACA
326 GTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACA
6446540 ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGG
391 ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGG
6446605 TTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGTCGACACTTT
456 TTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGTCGACACTTT
*
6446670 TTTAAATTGTATCGACACATTTTTCTTCCAA
521 TTTAAATCGTATCGACACATTTTTCTTCCAA
6446701 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6446766 TAAGACCGGTATATTTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
6446830 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
6446895 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
195 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
6446960 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
260 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
6447025 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACAC
325 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACAC
6447090 AATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCG
390 AATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCG
*
6447155 GTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTCGACACTT
455 GTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGTCGACACTT
6447220 TTTTAAATCGTATCGACACATTTTTCTTCCAA
520 TTTTAAATCGTATCGACACATTTTTCTTCCAA
6447252 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6447317 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT-TATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
6447371 ATGTTGAAAG
Statistics
Matches: 660, Mismatches: 8, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
550 52 0.08
551 596 0.90
552 12 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (551 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAA
GTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTAT
ATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAAT
GTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACA
ATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGG
TTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAAATGTCGACACTTT
TTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:6450430 original size:24 final size:23
Alignment explanation
Indices: 6450393--6450444 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
6450383 CCGTTCTATC
6450393 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA--TTA
**
6450417 TATTTTCATCGGATATGTTATTA
1 TATTTTCAGAGGATATGTTATTA
6450440 TATTT
1 TATTT
6450445 AATCGATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.32
24 14 0.56
25 3 0.12
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (23 bp):
TATTTTCAGAGGATATGTTATTA
Found at i:6450634 original size:20 final size:19
Alignment explanation
Indices: 6450588--6450634 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6450578 TCCGGTATCA
*
6450588 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6450607 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6450628 TTTTACC
1 TTTTACC
6450635 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6450782 original size:20 final size:20
Alignment explanation
Indices: 6450755--6450801 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
6450745 ACACTTTTAA
6450755 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
6450774 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
6450795 TTTTACC
1 TTTTACC
6450802 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:6451718 original size:12 final size:11
Alignment explanation
Indices: 6451698--6451728 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
6451688 TAAATCTGGC
6451698 TAATAATTAAT
1 TAATAATTAAT
6451709 TAATTAATTAAT
1 TAA-TAATTAAT
6451721 TAATAATT
1 TAATAATT
6451729 CAGGTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATAATTAAT
Found at i:6451995 original size:29 final size:29
Alignment explanation
Indices: 6451962--6452019 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
6451952 TTTTTTTTTT
6451962 AATAGGTAATTATATATTTGAATAAAGTA
1 AATAGGTAATTATATATTTGAATAAAGTA
*
6451991 AATAGGTAATTATATATTTGAGTAAAGTA
1 AATAGGTAATTATATATTTGAATAAAGTA
6452020 TATAAATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (29 bp):
AATAGGTAATTATATATTTGAATAAAGTA
Found at i:6453789 original size:25 final size:25
Alignment explanation
Indices: 6453761--6453810 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6453751 ATGTTTAATC
* *
6453761 TTTATATTA-TTTAAAATATTTTATG
1 TTTATATAACTTT-AAATAGTTTATG
6453786 TTTATATAACTTTAAATAGTTTATG
1 TTTATATAACTTTAAATAGTTTATG
6453811 ATGTACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTATATAACTTTAAATAGTTTATG
Found at i:6454159 original size:20 final size:20
Alignment explanation
Indices: 6454134--6454172 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6454124 AAATAACCAA
6454134 CAAATTCGCAACACAGTTTC
1 CAAATTCGCAACACAGTTTC
* *
6454154 CAAATTCGTAACTCAGTTT
1 CAAATTCGCAACACAGTTT
6454173 TTTTCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (20 bp):
CAAATTCGCAACACAGTTTC
Found at i:6454278 original size:40 final size:39
Alignment explanation
Indices: 6454228--6454421 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
6454218 AATTTCGCAA
* * *
6454228 CGCAGCTCGATTTCTGAATTCGCAACCCAAATTTCTTTTT
1 CGCAACTCGATTTCT-AATTCGCAACACAAATTTCCTTTT
* * *
6454268 CTCAACTCGATTTTTAAATTCGCAACACAAGTTTCCTTTT
1 CGCAACTCGATTTCT-AATTCGCAACACAAATTTCCTTTT
** * *
6454308 CGCAACAAGATTTTCTAATTCCCAACACAAGTTTCCTTTT
1 CGCAACTCGA-TTTCTAATTCGCAACACAAATTTCCTTTT
** * **
6454348 CGCAACAAGATTTTCTAATTCGCAACACGAATTTTGTTTT
1 CGCAACTCGA-TTTCTAATTCGCAACACAAATTTCCTTTT
* * * *
6454388 CGTAACTCGATTCCCGAATTCGCAACACGAATTT
1 CGCAACTCGATT-TCTAATTCGCAACACAAATTT
6454422 TAATTTCGCA
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 124 0.95
41 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.36
Consensus pattern (39 bp):
CGCAACTCGATTTCTAATTCGCAACACAAATTTCCTTTT
Found at i:6454362 original size:20 final size:20
Alignment explanation
Indices: 6454286--6454354 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
6454276 GATTTTTAAA
6454286 TTCGCAACACAAGTTTCCTT
1 TTCGCAACACAAGTTTCCTT
* *
6454306 TTCGC-A-ACAAGATTTTCTAA
1 TTCGCAACACAAG-TTTCCT-T
*
6454326 TTCCCAACACAAGTTTCCTT
1 TTCGCAACACAAGTTTCCTT
6454346 TTCGCAACA
1 TTCGCAACA
6454355 AGATTTTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 5 0.13
19 6 0.15
20 17 0.44
21 6 0.15
22 5 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (20 bp):
TTCGCAACACAAGTTTCCTT
Found at i:6454369 original size:20 final size:20
Alignment explanation
Indices: 6454306--6454374 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
6454296 AAGTTTCCTT
6454306 TTCGCAACAAGATTTTCTAA
1 TTCGCAACAAGATTTTCTAA
* * *
6454326 TTCCCAACACA-AGTTTCCT-T
1 TTCGCAACA-AGA-TTTTCTAA
6454346 TTCGCAACAAGATTTTCTAA
1 TTCGCAACAAGATTTTCTAA
6454366 TTCGCAACA
1 TTCGCAACA
6454375 CGAATTTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 6 0.15
20 27 0.69
21 6 0.15
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (20 bp):
TTCGCAACAAGATTTTCTAA
Found at i:6454389 original size:20 final size:19
Alignment explanation
Indices: 6454344--6454453 Score: 51
Period size: 20 Copynumber: 5.6 Consensus size: 19
6454334 ACAAGTTTCC
* *
6454344 TTTTCGCAACAAGATTTTC
1 TTTTCGCAACACGATTTTG
*
6454363 TAATTCGCAACACGAATTTTG
1 T-TTTCGCAACACG-ATTTTG
* * **
6454384 TTTTCGTAACTCGATTCCCG
1 TTTTCGCAACACGATT-TTG
** *
6454404 AATTCGCAACACGAATTTTA
1 TTTTCGCAACACG-ATTTTG
* * *
6454424 ATTTCGCAACA-GCTTTTA
1 TTTTCGCAACACGATTTTG
*
6454442 TTTTTGCAACAC
1 TTTTCGCAACAC
6454454 AAATGTTTTG
Statistics
Matches: 67, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
18 14 0.21
19 5 0.07
20 39 0.58
21 9 0.13
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (19 bp):
TTTTCGCAACACGATTTTG
Found at i:6455404 original size:24 final size:24
Alignment explanation
Indices: 6455377--6455430 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6455367 GTATTCAAAA
*
6455377 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACACGGAC
* *
6455401 TTTGATCTTGGTTAATACACGGAT
1 TTTGATCTTGGTCAATACACGGAC
6455425 TTTGAT
1 TTTGAT
6455431 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACACGGAC
Found at i:6456564 original size:20 final size:20
Alignment explanation
Indices: 6456541--6456605 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
6456531 CTTGAAACTT
6456541 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
6456561 AAATTTGCAACACG---A--
1 AAATTCGCAACACGAAAATG
*
6456576 AAA-TCGCAACTCGAAAATG
1 AAATTCGCAACACGAAAATG
6456595 AAATTCGCAAC
1 AAATTCGCAAC
6456606 GCGATTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
14 8 0.22
15 3 0.08
17 2 0.06
19 3 0.08
20 20 0.56
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.17
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:6456639 original size:20 final size:20
Alignment explanation
Indices: 6456616--6456653 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6456606 GCGATTTTAG
*
6456616 TTTTCGCGTTGCGAATTTCA
1 TTTTCGCATTGCGAATTTCA
*
6456636 TTTTCGTATTGCGAATTT
1 TTTTCGCATTGCGAATTT
6456654 AAGTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (20 bp):
TTTTCGCATTGCGAATTTCA
Found at i:6457199 original size:21 final size:21
Alignment explanation
Indices: 6457170--6457225 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6457160 AATTCCAAAT
*
6457170 TCGCATTGCGAATTTAAAAAA
1 TCGCGTTGCGAATTTAAAAAA
* * *
6457191 TCGCGTTGCAAATTTCAAAAC
1 TCGCGTTGCGAATTTAAAAAA
*
6457212 T-GAGTTGCGAATTT
1 TCGCGTTGCGAATTT
6457226 GGAAACTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGAATTTAAAAAA
Found at i:6457218 original size:20 final size:20
Alignment explanation
Indices: 6457195--6457245 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6457185 AAAAAATCGC
6457195 GTTGCAAATTTCAAAACTGA
1 GTTGCAAATTTCAAAACTGA
* ** *
6457215 GTTGCGAATTTGGAAACTGT
1 GTTGCAAATTTCAAAACTGA
6457235 GTTGCGAAATT
1 GTTGC-AAATT
6457246 GGAGTTCATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (20 bp):
GTTGCAAATTTCAAAACTGA
Found at i:6457247 original size:20 final size:20
Alignment explanation
Indices: 6457208--6457248 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6457198 GCAAATTTCA
*
6457208 AAACTGAGTTGCGAATTTGG
1 AAACTGAGTTGCGAAATTGG
*
6457228 AAACTGTGTTGCGAAATTGG
1 AAACTGAGTTGCGAAATTGG
6457248 A
1 A
6457249 GTTCATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (20 bp):
AAACTGAGTTGCGAAATTGG
Found at i:6460580 original size:17 final size:18
Alignment explanation
Indices: 6460539--6460583 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
6460529 TGGTTTTTTT
*
6460539 TTTATAAATATAATAATA
1 TTTAAAAATATAATAATA
6460557 TTTAAAAATA-AATAA-A
1 TTTAAAAATATAATAATA
*
6460573 TTTCAAAATAT
1 TTTAAAAATAT
6460584 TAGATTGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 5 0.21
18 9 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTAAAAATATAATAATA
Found at i:6461375 original size:60 final size:60
Alignment explanation
Indices: 6461309--6461460 Score: 162
Period size: 60 Copynumber: 2.5 Consensus size: 60
6461299 TCTCGTCCGT
* * * *
6461309 AAACTTTTAAATATTTTAATTTAATCCCTAAACTACGACTATCATTCTAAATTGGTCCTC
1 AAACTTTTGAATATTTTAATTTCATCCCTAAACTACGACTATCACTCTAAATTGGTCCCC
* ** * * * * *
6461369 AAACTTTTGAACATTTTGGTTTCATCCCCAAACTATGATTTTTACTCTAAATTGGTCCCC
1 AAACTTTTGAATATTTTAATTTCATCCCTAAACTACGACTATCACTCTAAATTGGTCCCC
* *
6461429 AAATTTCTTGAATATTTCAATTTCAT-CCTAAA
1 AAACTT-TTGAATATTTTAATTTCATCCCTAAA
6461461 TTATATGTAT
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
60 58 0.79
61 15 0.21
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (60 bp):
AAACTTTTGAATATTTTAATTTCATCCCTAAACTACGACTATCACTCTAAATTGGTCCCC
Found at i:6461980 original size:30 final size:30
Alignment explanation
Indices: 6461944--6462011 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
6461934 ATCTTGAACT
*
6461944 TGTTTTTATATGTTGGAATGAGCTACTAGC
1 TGTTTTTATATGTTAGAATGAGCTACTAGC
6461974 TGTTTTTATATGTTAGAATGAGCTACTAGC
1 TGTTTTTATATGTTAGAATGAGCTACTAGC
*
6462004 TGGTTTTA
1 TGTTTTTA
6462012 GCCGTTGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (30 bp):
TGTTTTTATATGTTAGAATGAGCTACTAGC
Found at i:6463982 original size:15 final size:14
Alignment explanation
Indices: 6463962--6464000 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
6463952 CTTGACTCGA
6463962 CTGAGTCAACCCGCG
1 CTGAGTCAACCCG-G
*
6463977 CTGAGTCAACTCGG
1 CTGAGTCAACCCGG
*
6463991 CTGAGCCAAC
1 CTGAGTCAAC
6464001 TCACTGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (14 bp):
CTGAGTCAACCCGG
Found at i:6463995 original size:14 final size:14
Alignment explanation
Indices: 6463956--6464016 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
6463946 GACCTGCTTG
6463956 ACTCGACTGAGTCA
1 ACTCGACTGAGTCA
* *
6463970 ACCCGCGCTGAGTCA
1 ACTCG-ACTGAGTCA
* *
6463985 ACTCGGCTGAGCCA
1 ACTCGACTGAGTCA
*
6463999 ACTC-ACTGGGTCA
1 ACTCGACTGAGTCA
6464012 ACTCG
1 ACTCG
6464017 TTGACTTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 10 0.26
14 16 0.42
15 12 0.32
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (14 bp):
ACTCGACTGAGTCA
Found at i:6466139 original size:24 final size:24
Alignment explanation
Indices: 6466112--6466175 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
6466102 ATTTGAATTA
* *
6466112 TGTTATGATACCTGATCTGGATTC
1 TGTTATGATACCTGACCTAGATTC
* * *
6466136 TGTTCTAATACCTGACCTAGATTT
1 TGTTATGATACCTGACCTAGATTC
*
6466160 TGTTATGATATCTGAC
1 TGTTATGATACCTGAC
6466176 ATGAATTATG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (24 bp):
TGTTATGATACCTGACCTAGATTC
Found at i:6466187 original size:24 final size:23
Alignment explanation
Indices: 6466105--6466192 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
6466095 ATTTCCTATT
6466105 TGAATTATGTTATGATACCTGATC
1 TGAATTATGTTATGATACCTGA-C
* * * *
6466129 TGGATTCTGTTCTAATACCTGACC
1 TGAATTATGTTATGATACCTGA-C
* *
6466153 T-AGATTTTGTTATGATATCTGAC
1 TGA-ATTATGTTATGATACCTGAC
*
6466176 ATGAATTATGTTTTGAT
1 -TGAATTATGTTATGAT
6466193 TTTTTTATAT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
23 1 0.02
24 47 0.96
25 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.44
Consensus pattern (23 bp):
TGAATTATGTTATGATACCTGAC
Found at i:6468308 original size:13 final size:14
Alignment explanation
Indices: 6468280--6468308 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6468270 CCGAGTCAAC
6468280 CCGTTGACTGTTGA
1 CCGTTGACTGTTGA
6468294 CCGTTGACT-TTGA
1 CCGTTGACTGTTGA
6468307 CC
1 CC
6468309 AAGTCAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.14, C:0.28, G:0.24, T:0.34
Consensus pattern (14 bp):
CCGTTGACTGTTGA
Found at i:6468314 original size:37 final size:37
Alignment explanation
Indices: 6468258--6468331 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
6468248 TGAGTCAACT
* *
6468258 CGTTGAATTTGGCCGAGTCAACCCGTTGA-CTGTTGAC
1 CGTTGAATTTGACCAAGTCAACCCGTTGATC-GTTGAC
*
6468295 CGTTGACTTTGACCAAGTCAACCCGTTGATCGTTGAC
1 CGTTGAATTTGACCAAGTCAACCCGTTGATCGTTGAC
6468332 TTTGACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (37 bp):
CGTTGAATTTGACCAAGTCAACCCGTTGATCGTTGAC
Found at i:6470477 original size:24 final size:24
Alignment explanation
Indices: 6470421--6470481 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
6470411 TTCGATTTGA
* *
6470421 ATTATGTTATAATACCTGACCTGG
1 ATTATGTTCTGATACCTGACCTGG
*
6470445 ATTATGTTCTGATACCTGACTTGG
1 ATTATGTTCTGATACCTGACCTGG
*
6470469 ATTCTGTTCTGAT
1 ATTATGTTCTGAT
6470482 TTTTTATATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (24 bp):
ATTATGTTCTGATACCTGACCTGG
Found at i:6470694 original size:15 final size:13
Alignment explanation
Indices: 6470666--6470690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6470656 AGTTTTTAAA
6470666 TTTTAAAAATATG
1 TTTTAAAAATATG
6470679 TTTTAAAAATAT
1 TTTTAAAAATAT
6470691 ATGTATATTT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TTTTAAAAATATG
Found at i:6473754 original size:89 final size:91
Alignment explanation
Indices: 6473587--6473754 Score: 209
Period size: 89 Copynumber: 1.9 Consensus size: 91
6473577 ACCTTTTTTT
* * * *
6473587 CCTATAATGAAACGTTGGGGCCATAATGCTCCAAGAGAAAAGAATAAGAGTCAAAGTTACTATTT
1 CCTAAAATAAAACGTTGGGGCCAAAATGCTCCAAGAGAAAAGAATAAGAGTCAAAGTGACTATTT
* **
6473652 AGTCAAATGTTAGGACCTTTTACCCC
66 AATCAAACATTAGGACCTTTTACCCC
*
6473678 CCTAAAATAAAACGTTGGGGGTCAAAATGCTCC-A-A-AAAAGAAT-AGAGGTCAAAGTGACTAT
1 CCTAAAATAAAACGTT-GGGGCCAAAATGCTCCAAGAGAAAAGAATAAGA-GTCAAAGTGACTAT
*
6473739 TTAATCGAACATTAGG
64 TTAATCAAACATTAGG
6473755 GGTATATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
88 3 0.05
89 33 0.50
90 1 0.02
91 15 0.23
92 14 0.21
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (91 bp):
CCTAAAATAAAACGTTGGGGCCAAAATGCTCCAAGAGAAAAGAATAAGAGTCAAAGTGACTATTT
AATCAAACATTAGGACCTTTTACCCC
Found at i:6480972 original size:21 final size:20
Alignment explanation
Indices: 6480927--6480965 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6480917 CGGTCGTCTA
*
6480927 ATTTTTAAACCCCAAATCGG
1 ATTTTTAAACCCCAAACCGG
*
6480947 ATTTTTAAACCCCAGACCG
1 ATTTTTAAACCCCAAACCG
6480966 TGTTTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.28
Consensus pattern (20 bp):
ATTTTTAAACCCCAAACCGG
Found at i:6494956 original size:60 final size:60
Alignment explanation
Indices: 6494890--6495038 Score: 174
Period size: 60 Copynumber: 2.5 Consensus size: 60
6494880 AAATTGTTTT
6494890 TTAAACTTTTGAATATTTTAATTTCATCCCTAAACTATGA-ATCTCATTCAAAAGTAATCC
1 TTAAACTTTTGAATATTTTAATTTCATCCCTAAACTATGACA-CTCATTCAAAAGTAATCC
* * * * * * * *
6494950 TTAAACTTTTAAACATTTTAATTTTATCCCTGAACTATGACACTCTTTCTAAATTGATCC
1 TTAAACTTTTGAATATTTTAATTTCATCCCTAAACTATGACACTCATTCAAAAGTAATCC
** * *
6495010 CCAAATTTTTGAATATTTCAATTTCATCC
1 TTAAACTTTTGAATATTTTAATTTCATCC
6495039 TCAAATTCAT
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 72 0.99
61 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (60 bp):
TTAAACTTTTGAATATTTTAATTTCATCCCTAAACTATGACACTCATTCAAAAGTAATCC
Found at i:6495288 original size:59 final size:60
Alignment explanation
Indices: 6495225--6495340 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
6495215 AGAACGTGTT
* * *
6495225 TCATAG-TTGGGGATGTAATTGAAATC-TTTAAAAGTTT-GAGGATAAATTTAGAATGATAA
1 TCATAGTTTAGGGATGAAATTGAAA-CATTTAAAAGTTTAG-GGATAAATTTAAAATGATAA
* * *
6495284 TCATAGTTTATGGATGAAATTGGAACATTTAAAAGTTTAGGGATTAATTTAAAATGA
1 TCATAGTTTAGGGATGAAATTGAAACATTTAAAAGTTTAGGGATAAATTTAAAATGA
6495341 GGGTCATACT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
59 7 0.15
60 40 0.83
61 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (60 bp):
TCATAGTTTAGGGATGAAATTGAAACATTTAAAAGTTTAGGGATAAATTTAAAATGATAA
Found at i:6495753 original size:2 final size:2
Alignment explanation
Indices: 6495741--6495781 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
6495731 AATAATCTAT
6495741 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6495782 AAAACTTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6497858 original size:60 final size:60
Alignment explanation
Indices: 6497763--6497940 Score: 177
Period size: 59 Copynumber: 3.0 Consensus size: 60
6497753 ATTTGTTCTT
* * * * *
6497763 AAACTATGAC-CTTCATTTTAAATTTA-TCACTAAACTTTTGACTATTCTAATTTTATTCTC
1 AAACTATGACTC-TCATTCTAAA-TTAGTCCCCAAACTTTTAACTATTCTAATTTTATCCTC
* * *
6497823 AAACTATGACTCTTATTCTAAATTAG-CCCACAAACTTTTAAAC-A-TCTAAATTCATCCTC
1 AAACTATGACTCTCATTCTAAATTAGTCCC-CAAACTTTT-AACTATTCTAATTTTATCCTC
* * * *
6497882 AAACTATGAGTCTCATTCTATATTAGTCCCCAAACGTTTAAATATTCTAATTTTATCCT
1 AAACTATGACTCTCATTCTAAATTAGTCCCCAAACTTTTAACTATTCTAATTTTATCCT
6497941 TGAACTTTTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
58 2 0.02
59 49 0.51
60 42 0.44
61 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.40
Consensus pattern (60 bp):
AAACTATGACTCTCATTCTAAATTAGTCCCCAAACTTTTAACTATTCTAATTTTATCCTC
Found at i:6498047 original size:28 final size:30
Alignment explanation
Indices: 6498015--6498123 Score: 75
Period size: 29 Copynumber: 3.7 Consensus size: 30
6498005 TAAGGGTTAT
*
6498015 AATTTAGGGCTGAATTTGAAA-T-GT-TCAA
1 AATTTAGGGCT-AATTTAAAATTAGTGTCAA
* *
6498043 AATTTGAGGACTAATTTAAAATTAGTGTCAT
1 AATTT-AGGGCTAATTTAAAATTAGTGTCAA
* * **
6498074 AATTTAGGGATAAATTTAATA-TAGT-AAAA
1 AATTTAGGGCT-AATTTAAAATTAGTGTCAA
*
6498103 AATTTAAGGACTAATTTAAAA
1 AATTT-AGGGCTAATTTAAAA
6498124 CAAATGTCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
28 13 0.21
29 20 0.32
30 14 0.22
31 16 0.25
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.36
Consensus pattern (30 bp):
AATTTAGGGCTAATTTAAAATTAGTGTCAA
Found at i:6500716 original size:2 final size:2
Alignment explanation
Indices: 6500709--6500746 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6500699 GTGAAGCATA
6500709 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6500747 GTTCTCTTCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6502517 original size:28 final size:30
Alignment explanation
Indices: 6502486--6502541 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6502476 TTTAGCGAGA
* *
6502486 AAATTAAAA-AAAA-TGATATATATTATTT
1 AAATAAAAATAAAAGTGATAAATATTATTT
6502514 AAATAAAAATAAAAGTGATAAATATTAT
1 AAATAAAAATAAAAGTGATAAATATTAT
6502542 ACATTCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 4 0.17
30 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATAAAAATAAAAGTGATAAATATTATTT
Found at i:6506065 original size:192 final size:192
Alignment explanation
Indices: 6505733--6506119 Score: 693
Period size: 192 Copynumber: 2.0 Consensus size: 192
6505723 ATTAGCGGTA
6505733 TTATGAGTTGAACGTTAACATCCTAATTGTGATATAATAAAATATTATCATAGAATCTCAAACGA
1 TTATGAGTTGAACGTTAACATCCTAATTGTGATATAATAAAATATTATCATAGAATCTCAAACGA
* *
6505798 TTATCATATTTCAGTAATCATTTTAACGTTCATCTTAAAAGATTACTAATTTTTTAGCGAAAATA
66 CTATCATATTTCAGTAATCATTTTAACGTTCATCTTAAAAGATTACTAATTTTTTAACGAAAATA
*
6505863 AACAAGTTTGAAATATATGAATAGTCAGGTGATCACTTTGTAACTTTTAATAGTCGAGAGAC
131 AACAAGTTTGAAATATATGAATAGTCAGGTGACCACTTTGTAACTTTTAATAGTCGAGAGAC
6505925 TTATGAGTTGAACGTTAACATCCTAATTGTGATATAATAAAATATTATCATAGAATCTCAAACGA
1 TTATGAGTTGAACGTTAACATCCTAATTGTGATATAATAAAATATTATCATAGAATCTCAAACGA
* * *
6505990 CTATCATATTTTAGTCATCATTTTAACTTTCATCTTAAAAGATTACTAATTTTTTAACGAAAATA
66 CTATCATATTTCAGTAATCATTTTAACGTTCATCTTAAAAGATTACTAATTTTTTAACGAAAATA
* * *
6506055 GACGAGTTTGAAATATATGAATAGTCAGGTGACCACTTTGTAACTTTTAATAGTCGAGGGAC
131 AACAAGTTTGAAATATATGAATAGTCAGGTGACCACTTTGTAACTTTTAATAGTCGAGAGAC
6506117 TTA
1 TTA
6506120 ACAAAGCAAC
Statistics
Matches: 186, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 186 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (192 bp):
TTATGAGTTGAACGTTAACATCCTAATTGTGATATAATAAAATATTATCATAGAATCTCAAACGA
CTATCATATTTCAGTAATCATTTTAACGTTCATCTTAAAAGATTACTAATTTTTTAACGAAAATA
AACAAGTTTGAAATATATGAATAGTCAGGTGACCACTTTGTAACTTTTAATAGTCGAGAGAC
Found at i:6514718 original size:3 final size:3
Alignment explanation
Indices: 6514710--6514755 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
6514700 CGAGACTATA
* *
6514710 TAT TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6514756 CAAATAATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6518020 original size:46 final size:47
Alignment explanation
Indices: 6517929--6518021 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
6517919 GTATTATTAT
* * * *
6517929 TTTATTTTCCTAATAAATGCATGCGAACTAGAGATCATGCGGTTAGG
1 TTTATTTTCCAAATAAATGCATGCGAACTAGAAAGCATGAGGTTAGG
*
6517976 TTTATTTTTCCAAATAAA-GCATG-GAACTAGAAAGCATGATGTTAGG
1 TTTA-TTTTCCAAATAAATGCATGCGAACTAGAAAGCATGAGGTTAGG
6518022 ATGTATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
46 19 0.47
47 9 0.22
48 12 0.30
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (47 bp):
TTTATTTTCCAAATAAATGCATGCGAACTAGAAAGCATGAGGTTAGG
Found at i:6522318 original size:23 final size:21
Alignment explanation
Indices: 6522284--6522349 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
6522274 CTCATCCATC
6522284 AAAGAAAAAGAAAAAAGAAAA
1 AAAGAAAAAGAAAAAAGAAAA
*
6522305 GAAAGAAAAAAGAAAAAAAGATGAA
1 -AAAG-AAAAAG-AAAAAAGA-AAA
*
6522330 AAAGAAGAAGAAAAAAGAAA
1 AAAGAAAAAGAAAAAAGAAA
6522350 TTGAATCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.03
22 12 0.32
23 11 0.29
24 12 0.32
25 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAAGAAAA
Found at i:6525478 original size:20 final size:20
Alignment explanation
Indices: 6525441--6525483 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6525431 CCCACACATT
* *
6525441 TGTAAAACCTCCGAGTCATA
1 TGTAAAACCTCAGAGTCAGA
*
6525461 TGTAAAACCTCAGGGTCAGA
1 TGTAAAACCTCAGAGTCAGA
6525481 TGT
1 TGT
6525484 TTTCACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TGTAAAACCTCAGAGTCAGA
Found at i:6525570 original size:20 final size:20
Alignment explanation
Indices: 6525560--6525635 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
6525550 CCAGGTGATT
*
6525560 TATAAAACCTCCGAGTCATC
1 TATAAAACCTCCGGGTCATC
** * *
6525580 TATAAATTCTCCGGGTGATT
1 TATAAAACCTCCGGGTCATC
6525600 TATAAAACCTCCGGGTCATC
1 TATAAAACCTCCGGGTCATC
* *
6525620 TGTAAAACCTCAGGGT
1 TATAAAACCTCCGGGT
6525636 AAGATGTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (20 bp):
TATAAAACCTCCGGGTCATC
Found at i:6525608 original size:40 final size:40
Alignment explanation
Indices: 6525548--6525625 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
6525538 AAATTAAAGC
6525548 CTCCAGGTGATTTATAAAACCTCCGAGTCATCTATAAATT
1 CTCCAGGTGATTTATAAAACCTCCGAGTCATCTATAAATT
* * *
6525588 CTCCGGGTGATTTATAAAACCTCCGGGTCATCTGTAAA
1 CTCCAGGTGATTTATAAAACCTCCGAGTCATCTATAAA
6525626 ACCTCAGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (40 bp):
CTCCAGGTGATTTATAAAACCTCCGAGTCATCTATAAATT
Found at i:6525633 original size:159 final size:158
Alignment explanation
Indices: 6525438--6525913 Score: 718
Period size: 159 Copynumber: 3.0 Consensus size: 158
6525428 TTTCCCACAC
* * *
6525438 ATTTGTAAAACCTCCGAGTCATATGTAAAACCTCAGGGTCAGATGTTTTCACATGAAAATGAGAA
1 ATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGT-AGATGTTTTCACATGAAAATGAGAA
* * *
6525503 AGCGATTACCAAAGTTCCTCATTTAATGTTCTAGAAAATTAAAGCCTCCAGGTGATTTATAAAAC
65 AGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCAGGTGATTTGTAAAAC
* *
6525568 CTCCGAGTCATCTATAAATTCTCCGGGTG
130 CTCCGGGTCATCTATAAATCCTCCGGGTG
* *
6525597 ATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAAGATGTTTTCACATAAAAATAAGAA
1 ATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGT-AGATGTTTTCACATGAAAATGAGAA
* *
6525662 AGCGATTACCAAAGTTTCTCATTTAATGTTGTAGAAAATTAAATCCTCCGGGTGATTTGTAAAAC
65 AGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCAGGTGATTTGTAAAAC
*
6525727 CTCCGGGTTATCTATAAATCCTCCGGGTG
130 CTCCGGGTCATCTATAAATCCTCCGGGTG
* *
6525756 ATTTATAAAACCTTCGGGTCATCTGTAAAACCTCAGGGTATGATATTTTCACATGAAAATGAGAA
1 ATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTA-GATGTTTTCACATGAAAATGAGAA
* ** * * *
6525821 AGTGATTATTAAAGTTTCTCATTTAATGTTCAAGTAAATTAAATCCTCCAGGTGATTTGTAAATC
65 AGCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCAGGTGATTTGTAAAAC
* *
6525886 CTCCGGGTCATCTATAAAACCTCAGGGT
130 CTCCGGGTCATCTATAAATCCTCCGGGT
6525914 AGGATGTTTT
Statistics
Matches: 287, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
158 1 0.00
159 286 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (158 bp):
ATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGATGTTTTCACATGAAAATGAGAAA
GCGATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCAGGTGATTTGTAAAACC
TCCGGGTCATCTATAAATCCTCCGGGTG
Found at i:6525729 original size:20 final size:20
Alignment explanation
Indices: 6525701--6525794 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
6525691 TGTAGAAAAT
* * *
6525701 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCCGGGTGATCTA
*
6525721 TAAAACCTCCGGGTTATCTA
1 TAAAACCTCCGGGTGATCTA
* *
6525741 TAAATCCTCCGGGTGATTTA
1 TAAAACCTCCGGGTGATCTA
* * *
6525761 TAAAACCTTCGGGTCATCTG
1 TAAAACCTCCGGGTGATCTA
*
6525781 TAAAACCTCAGGGT
1 TAAAACCTCCGGGT
6525795 ATGATATTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAAACCTCCGGGTGATCTA
Found at i:6525756 original size:40 final size:40
Alignment explanation
Indices: 6525701--6525794 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
6525691 TGTAGAAAAT
* *
6525701 TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGTTATCTA
1 TAAATCCTCCGGGTGATTTATAAAACCTCCGGGTCATCTA
* *
6525741 TAAATCCTCCGGGTGATTTATAAAACCTTCGGGTCATCTG
1 TAAATCCTCCGGGTGATTTATAAAACCTCCGGGTCATCTA
* *
6525781 TAAAACCTCAGGGT
1 TAAATCCTCCGGGT
6525795 ATGATATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
TAAATCCTCCGGGTGATTTATAAAACCTCCGGGTCATCTA
Found at i:6525903 original size:20 final size:20
Alignment explanation
Indices: 6525860--6525913 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
6525850 TCAAGTAAAT
* * * *
6525860 TAAATCCTCCAGGTGATTTG
1 TAAATCCTCCGGGTCATCTA
6525880 TAAATCCTCCGGGTCATCTA
1 TAAATCCTCCGGGTCATCTA
* *
6525900 TAAAACCTCAGGGT
1 TAAATCCTCCGGGT
6525914 AGGATGTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (20 bp):
TAAATCCTCCGGGTCATCTA
Found at i:6525954 original size:119 final size:118
Alignment explanation
Indices: 6525741--6526042 Score: 444
Period size: 119 Copynumber: 2.5 Consensus size: 118
6525731 GGGTTATCTA
* * *
6525741 TAAATCCTCCGGGTGATTTATAAAACCTTCGGGTCATCTGTAAAACCTCAGGGTATGATATTTTC
1 TAAATCCTCC-GGTGATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
** *
6525806 ACATGAAAATGAGAAAGTGATTATTAAAGTTTCTCATTTAATGTTCAAGTAAAT
65 ACATGAAAATGAGAAAACGATTATTAAAGTTTCTCATTTAATGTTCAAGAAAAT
* * *
6525860 TAAATCCTCCAGGTGATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGATGTTTTC
1 TAAATCCTCC-GGTGATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTC
* *
6525925 GCATGAAAATGAGAAAACGATT-TTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
65 ACATGAAAATGAGAAAACGATTATT-AAAGTTTCTCATTTAATGTTCAAGAAAAT
**
6525979 TAAATCCTCCGGTTGATTTATAAAACCTCCGGGTCATCTGTAAAACCTCTTGGTAGGATGTTTT
1 TAAATCCTCCGG-TGATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
6526043 TACTTTAATT
Statistics
Matches: 164, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
118 4 0.02
119 160 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (118 bp):
TAAATCCTCCGGTGATTTATAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCA
CATGAAAATGAGAAAACGATTATTAAAGTTTCTCATTTAATGTTCAAGAAAAT
Found at i:6526221 original size:3 final size:3
Alignment explanation
Indices: 6526215--6526258 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
6526205 GATGATGATG
6526215 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A
6526259 CAAATAATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6527582 original size:64 final size:62
Alignment explanation
Indices: 6527496--6527707 Score: 221
Period size: 64 Copynumber: 3.3 Consensus size: 62
6527486 CACATTCATA
* *
6527496 AGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATAGCT
1 AGTGCATCGATGCA-TCCTTTTAAAAGAA-AACATCGAATGCATTTAATGCATCGATGCATAG-T
* * * * *
6527560 AATGCATCGATGCATCCTTTTAAAATAATAACATCGAATGCAATCAATGCATCGATGCATAAGG
1 AGTGCATCGATGCATCCTTTTAAAAGAA-AACATCGAATGCATTTAATGCATCGATGCAT-AGT
* * * * *
6527624 AGTGCATCGATGCAT-CTCATTAATAAGGAAACATCGAATGCATTTTATGCACCGATGCACAAGT
1 AGTGCATCGATGCATCCT-TTTAA-AAGAAAACATCGAATGCATTTAATGCATCGATGCA-TAGT
6527688 AGTGCATCGATGCATACCTT
1 AGTGCATCGATGCAT-CCTT
6527708 CATTGAAAGA
Statistics
Matches: 122, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
63 5 0.04
64 110 0.90
65 5 0.04
66 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (62 bp):
AGTGCATCGATGCATCCTTTTAAAAGAAAACATCGAATGCATTTAATGCATCGATGCATAGT
Found at i:6528417 original size:30 final size:30
Alignment explanation
Indices: 6528381--6528444 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
6528371 AAGGAACATA
* *
6528381 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* * *
6528411 TGGATAGTTACCGGGGTTCTTTGTAACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
6528441 TGGA
1 TGGA
6528445 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:6529338 original size:20 final size:20
Alignment explanation
Indices: 6529294--6529345 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
6529284 ATAGTAACCA
*
6529294 GAATAGTAATCGGCGACAAT
1 GAATAGTAATCGACGACAAT
* * *
6529314 AAATAGTAATCGACGATAGT
1 GAATAGTAATCGACGACAAT
*
6529334 GAATAGTGATCG
1 GAATAGTAATCG
6529346 GCCTATGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (20 bp):
GAATAGTAATCGACGACAAT
Found at i:6533834 original size:30 final size:31
Alignment explanation
Indices: 6533770--6533836 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
6533760 TTAAGGGATT
* *
6533770 AAATAGCAAAAAACATAAATTTAAAGTACCA
1 AAATAGCAAAAAACAAAAATTTAAAGAACCA
* **
6533801 AAATAGC-ACAAACAAAAATTTAAAGAATTA
1 AAATAGCAAAAAACAAAAATTTAAAGAACCA
6533831 AAATAG
1 AAATAG
6533837 TATTAACAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.19
Consensus pattern (31 bp):
AAATAGCAAAAAACAAAAATTTAAAGAACCA
Found at i:6535876 original size:66 final size:65
Alignment explanation
Indices: 6535793--6536258 Score: 358
Period size: 66 Copynumber: 7.4 Consensus size: 65
6535783 TTGTGGGCAC
* * * *
6535793 GATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCTCT-AATT
6535858 G
65 G
* * ** * * *
6535859 GATATCATTCGTCGTGAAGTTAAAATCCAAGGGTTG--CATT-GT--TG--CTTGTAAG--C--A
1 GATATCCTTCGTCGTGAAGTTGAAAT-CGTGGATGGCCCATTCGTCGTGAAGTTG--AGCTCTAA
*
6535913 --C
63 TTG
* *
6535914 GATATCATTCGTCGTGAAGTTGAAATTGTGGATGGCCCATTCGTCGTGAAGTTGAGCCTCTAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAG-CTCTAATT
6535979 G
65 G
*
6535980 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTCGTGAAGTTGAGCCTCTAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAG-CTCTAATT
6536045 G
65 G
* * * *
6536046 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCTC-GTCGTCATGAAGTTGAGCCTCAAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCC-CATTCGTCGTGAAGTTGAG-CTCTAAT
*
6536110 TA
64 TG
* ** * * * *
6536112 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGG---A-T-GT--TGATGATG-G-AC--A-
1 GATATCCTTCGTCGTGAAGTTGAAAT-C-GTGGATGGCCCATTCGTCGTGAAGTTGAGCTCTAAT
*
6536165 -C
64 TG
* *
6536166 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGGTCCC-TTCGTCGTGAAGTTGAGCCTCGAAT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGG-CCCATTCGTCGTGAAGTTGAG-CTCTAAT
6536230 TG
64 TG
6536232 GATATCCTTCGTCGTGAAGTTGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
6536259 CAATCTAAGG
Statistics
Matches: 320, Mismatches: 44, Indels: 72
0.73 0.10 0.17
Matches are distributed among these distances:
52 4 0.01
53 1 0.00
54 29 0.09
55 25 0.08
56 6 0.02
57 5 0.02
58 1 0.00
59 10 0.03
60 5 0.02
61 9 0.03
62 6 0.02
63 2 0.01
64 5 0.02
65 4 0.01
66 196 0.61
67 8 0.03
68 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (65 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCTCTAATTG
Found at i:6535960 original size:32 final size:32
Alignment explanation
Indices: 6535919--6536034 Score: 128
Period size: 32 Copynumber: 3.6 Consensus size: 32
6535909 AGCACGATAT
*
6535919 CATTCGTCGTGAAGTTGAAATTGTGGATGGCC
1 CATTCGTCGTGAAGTTGAAATTGTGGATGACC
** * *
6535951 CATTCGTCGTGAAGTTGAGCCTCTAATTGGAT-ATC
1 CATTCGTCGTGAAGTTGA-AAT-T--GTGGATGACC
*
6535986 C-TTCGTCGTGAAGTTGAAATCGTGGATGACC
1 CATTCGTCGTGAAGTTGAAATTGTGGATGACC
6536017 CATTCGTCGTGAAGTTGA
1 CATTCGTCGTGAAGTTGA
6536035 GCCTCTAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
30 5 0.07
31 3 0.04
32 34 0.50
33 2 0.03
34 17 0.25
35 2 0.03
36 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (32 bp):
CATTCGTCGTGAAGTTGAAATTGTGGATGACC
Found at i:6535996 original size:34 final size:33
Alignment explanation
Indices: 6535953--6536134 Score: 151
Period size: 34 Copynumber: 5.5 Consensus size: 33
6535943 GGATGGCCCA
6535953 TTCGTCGTGAAGTTGAGCCTCTAATTGGATATCC
1 TTCGTCGTGAAGTTGAGCCTC-AATTGGATATCC
** * *
6535987 TTCGTCGTGAAGTTGA-AATC--GTGGATGACCC
1 TTCGTCGTGAAGTTGAGCCTCAATTGGAT-ATCC
6536018 ATTCGTCGTGAAGTTGAGCCTCTAATTGGATATCC
1 -TTCGTCGTGAAGTTGAGCCTC-AATTGGATATCC
* ** * **
6536053 TTCATCGTGAAGTTGA-AATC--GTGGATGGCC
1 TTCGTCGTGAAGTTGAGCCTCAATTGGATATCC
* *
6536083 TCGTCGTCATGAAGTTGAGCCTCAAATTAGATATCC
1 T--TCGTCGTGAAGTTGAGCCTC-AATTGGATATCC
6536119 TTCGTCGTGAAGTTGA
1 TTCGTCGTGAAGTTGA
6536135 AATCCAATCT
Statistics
Matches: 113, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
30 13 0.12
31 3 0.03
32 29 0.26
33 8 0.07
34 45 0.40
35 3 0.03
36 12 0.11
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (33 bp):
TTCGTCGTGAAGTTGAGCCTCAATTGGATATCC
Found at i:6536171 original size:54 final size:54
Alignment explanation
Indices: 6536112--6536312 Score: 154
Period size: 54 Copynumber: 3.5 Consensus size: 54
6536102 CCTCAAATTA
6536112 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
1 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
* * * ** * * *
6536166 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGGTCCCTTCGTCGTGAAGTTGA-GCCTCGA-A
1 GATATCCTTCGTCGTGAAGTTGAAATC---CA--AT--C-T--AAG-GATGTTGATG-ATGGACA
*
6536229 TTG
54 --C
*
6536232 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGCTGATGGACAC
1 GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
* *
6536286 GATATTCTTCGTCGTGAAGTTAAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
6536313 GTGGATGGCC
Statistics
Matches: 110, Mismatches: 21, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
54 51 0.46
55 9 0.08
56 3 0.03
57 1 0.01
58 1 0.01
59 2 0.02
61 2 0.02
62 1 0.01
63 1 0.01
64 3 0.03
65 10 0.09
66 26 0.24
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (54 bp):
GATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
Found at i:6536235 original size:252 final size:253
Alignment explanation
Indices: 6535793--6536258 Score: 674
Period size: 252 Copynumber: 1.8 Consensus size: 253
6535783 TTGTGGGCAC
* * ** * **
6535793 GATATCCTTCGTCGTGAAGTTGAAATCATGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCATCGTGAAGTTGAAATCATGGATGGCTCAGTCGTCATGAAGTTGAGCCTCAAATT
* * * *
6535858 GGATATCATTCGTCGTGAAGTTAAAATCCAAGGGTTGCATTGTTGCTTGTAAGCACGATATCATT
66 AGATATCATTCGTCGTGAAGTTAAAATCCAAGGCTAGCATTGTTGATTGTAAGCACGATATCATT
* *
6535923 CGTCGTGAAGTTGAAATTGTGGATGGCCCATTCGTCGTGAAGTTGAGCCTCTAATTGGATATCCT
131 CGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCCTCGAATTGGATATCCT
6535988 TCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTCGTGAAGTTGAGCCTCTAATTG
196 TCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTCGTGAAGTTGAGCCTCTAATTG
*
6536046 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCTC-GTCGTCATGAAGTTGAGCCTCAAAT
1 GATATCCTTCATCGTGAAGTTGAAATCATGGATGG-CTCAGTCGTCATGAAGTTGAGCCTCAAAT
* * * * *
6536110 TAGATATCCTTCGTCGTGAAGTTGAAATCCAA-TCTAAGGA-TGTTGA-TG-ATGGACACGATAT
65 TAGATATCATTCGTCGTGAAGTTAAAATCCAAGGCT-AGCATTGTTGATTGTA-AG-CACGATAT
6536171 CATTCGTCGTGAAGTTGAAATCGTGGATGGTCCC-TTCGTCGTGAAGTTGAGCCTCGAATTGGAT
127 CATTCGTCGTGAAGTTGAAATCGTGGATGG-CCCATTCGTCGTGAAGTTGAGCCTCGAATTGGAT
6536235 ATCCTTCGTCGTGAAGTTGAAATC
191 ATCCTTCGTCGTGAAGTTGAAATC
6536259 CAATCTAAGG
Statistics
Matches: 189, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
250 1 0.01
251 3 0.02
252 96 0.51
253 86 0.46
254 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (253 bp):
GATATCCTTCATCGTGAAGTTGAAATCATGGATGGCTCAGTCGTCATGAAGTTGAGCCTCAAATT
AGATATCATTCGTCGTGAAGTTAAAATCCAAGGCTAGCATTGTTGATTGTAAGCACGATATCATT
CGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTCGTGAAGTTGAGCCTCGAATTGGATATCCT
TCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGTCGTGAAGTTGAGCCTCTAATTG
Found at i:6536259 original size:120 final size:118
Alignment explanation
Indices: 6536046--6536377 Score: 529
Period size: 120 Copynumber: 2.8 Consensus size: 118
6536036 CCTCTAATTG
* * * *
6536046 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCTCGTCGTCATGAAGTTGAGCCTCAAATT
1 GATAT-CTTCGTCGTGAAGTTGAAATCGTGGATGGCC-CTTCGTCGTGAAGTTGAGCCTCGAATT
6536111 AGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
64 AGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
6536166 GATATCATTCGTCGTGAAGTTGAAATCGTGGATGGTCCCTTCGTCGTGAAGTTGAGCCTCGAATT
1 GATATC-TTCGTCGTGAAGTTGAAATCGTGGATGG-CCCTTCGTCGTGAAGTTGAGCCTCGAATT
* *
6536231 GGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGCTGATGGACAC
64 AGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
* *
6536286 GATATTCTTCGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGAATT
1 GATA-TCTTCGTCGTGAAGTTGAAATCGTGGATGG-CCCTTCGTCGTGAAGTTGAGCCTCGAATT
*
6536351 AGATATCCTTCGCCGTGAAGTTGAAAT
64 AGATATCCTTCGTCGTGAAGTTGAAAT
6536378 TGGCTCTGAA
Statistics
Matches: 198, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 1 0.01
120 193 0.97
121 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (118 bp):
GATATCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCTTCGTCGTGAAGTTGAGCCTCGAATTAG
ATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGATGATGGACAC
Found at i:6536550 original size:192 final size:196
Alignment explanation
Indices: 6536212--6536569 Score: 512
Period size: 192 Copynumber: 1.8 Consensus size: 196
6536202 CCCTTCGTCG
*
6536212 TGAAGTTGAGCCTCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAGGATGTTGCT
1 TGAAGTTGAGCCTCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT-A-GA-CTTGCT
* *
6536277 GATGGACACGATATTCTTCGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAG
63 GA-GGACACGATATTCTTCGTCATGAAGTTAAAATCGTGGATGGCCCCTTCGTCGCGAAGTTGAG
*
6536342 CCTTGAATTAGATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAACCCCTT
127 CCTTGAATTAGATATCCTTCGCCATGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAACCCCTT
6536407 CTCTA
192 CTCTA
* * *
6536412 TGAAGTTGAGCTTTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATACT-G-CTTG-TGA
1 TGAAGTTGAGCCTCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT-CTAGACTTGCTGA
* * *
6536474 -G-CACGATA-TCATTCGTCATGAAGTTGAAATCGTGGATGGCCTCTTCGTTGCGAAGTTGAGCC
65 GGACACGATATTC-TTCGTCATGAAGTTAAAATCGTGGATGGCCCCTTCGTCGCGAAGTTGAGCC
* *
6536536 TTGAATTGGATATCCTTCGTCATGAAGTTGAAAT
129 TTGAATTAGATATCCTTCGCCATGAAGTTGAAAT
6536570 CCAATCTTGT
Statistics
Matches: 144, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
191 2 0.01
192 84 0.58
193 1 0.01
195 3 0.02
196 3 0.02
198 1 0.01
200 48 0.33
201 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (196 bp):
TGAAGTTGAGCCTCGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGACTTGCTGAG
GACACGATATTCTTCGTCATGAAGTTAAAATCGTGGATGGCCCCTTCGTCGCGAAGTTGAGCCTT
GAATTAGATATCCTTCGCCATGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAACCCCTTCTCT
A
Found at i:6538088 original size:15 final size:15
Alignment explanation
Indices: 6538070--6538110 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6538060 TCTTTGTTTA
*
6538070 TTTTCTTTTTGCTTC
1 TTTTCTTTTTGATTC
*
6538085 TTTTCTTTTTGATTT
1 TTTTCTTTTTGATTC
6538100 TTGTTCTTTTT
1 TT-TTCTTTTT
6538111 TTTTCTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTGATTC
Found at i:6538100 original size:21 final size:20
Alignment explanation
Indices: 6538075--6538114 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6538065 GTTTATTTTC
6538075 TTTTTGCTTCTTTTCTTTTTGA
1 TTTTTG-TTCTTTT-TTTTTGA
6538097 TTTTTGTTCTTTTTTTTT
1 TTTTTGTTCTTTTTTTTT
6538115 CTTTCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.03, C:0.10, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTGTTCTTTTTTTTTGA
Found at i:6540681 original size:19 final size:19
Alignment explanation
Indices: 6540645--6540692 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6540635 TGTCAGTACC
*
6540645 AATCAAAGATAAATAATTAG
1 AATCAAA-ATAAATAATTAA
6540665 AATCAAAAT-AATAAATTAA
1 AATCAAAATAAAT-AATTAA
*
6540684 AATTAAAAT
1 AATCAAAAT
6540693 TTACCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 7 0.28
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (19 bp):
AATCAAAATAAATAATTAA
Found at i:6541321 original size:30 final size:31
Alignment explanation
Indices: 6541257--6541323 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
6541247 TTAAGGGATT
* *
6541257 AAATAGCAAAAAACATAAATTTAAAGTACCA
1 AAATAGCAAAAAACAAAAATTTAAAGAACCA
* **
6541288 AAATAGC-ACAAACAAAAATTTAAAGAATTA
1 AAATAGCAAAAAACAAAAATTTAAAGAACCA
6541318 AAATAG
1 AAATAG
6541324 TATTAACAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.19
Consensus pattern (31 bp):
AAATAGCAAAAAACAAAAATTTAAAGAACCA
Found at i:6557594 original size:23 final size:25
Alignment explanation
Indices: 6557563--6557608 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
6557553 CATTTTTGTA
*
6557563 TAAGGTAAATA-TA-AATAAAATTT
1 TAAGATAAATATTATAATAAAATTT
6557586 TAAGATAAATATTATAATAAAAT
1 TAAGATAAATATTATAATAAAAT
6557609 AATAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 2 0.10
25 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (25 bp):
TAAGATAAATATTATAATAAAATTT
Found at i:6557732 original size:27 final size:26
Alignment explanation
Indices: 6557681--6557734 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6557671 AATCTCTTAC
*
6557681 TAGGAGAATGTACTTATAGATTTTTT
1 TAGGAGAATATACTTATAGATTTTTT
* *
6557707 TAGGATGAATATA-TTATTGATATTTT
1 TAGGA-GAATATACTTATAGATTTTTT
6557733 TA
1 TA
6557735 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (26 bp):
TAGGAGAATATACTTATAGATTTTTT
Found at i:6562305 original size:22 final size:22
Alignment explanation
Indices: 6562280--6562334 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
6562270 AACTTCATAC
6562280 AAATTCATCATATCAATTCAGT
1 AAATTCATCATATCAATTCAGT
6562302 AAATTCATCATATCAATTCAGT
1 AAATTCATCATATCAATTCAGT
6562324 AAATTCATCAT
1 AAATTCATCAT
6562335 GTACGTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (22 bp):
AAATTCATCATATCAATTCAGT
Found at i:6565089 original size:2 final size:2
Alignment explanation
Indices: 6565082--6565134 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
6565072 ATTTTCCCTA
6565082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6565124 AT AT AT AT AT A
1 AT AT AT AT AT A
6565135 GGGATTTGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6566275 original size:13 final size:13
Alignment explanation
Indices: 6566257--6566284 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6566247 TAATATTATT
6566257 TATATTATATATA
1 TATATTATATATA
6566270 TATATTATATATA
1 TATATTATATATA
6566283 TA
1 TA
6566285 ATAACGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATTATATATA
Found at i:6566812 original size:84 final size:83
Alignment explanation
Indices: 6566654--6566912 Score: 308
Period size: 84 Copynumber: 3.1 Consensus size: 83
6566644 CAAACTTGGA
* * * *
6566654 TTTGCTTCCACTACTCTTCCGTGGAGGTTTCATATTTTGCTGAAAAATCTGTTCCACTACTCTTC
1 TTTGCTT-CACTACTCTTCCGTGAAGATTTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTT
*
6566719 CGTGAAGTTCGAATTTTAC-
65 CGTGGAGTTCGAATTTT-CT
* * *
6566738 TTTGCTTCACTACTCTTCCGTGAAGATTTCATAGTTTGCTTAAAAAATATGTTCCACTACTCTTT
1 TTTGCTTCACTACTCTTCCGTGAAGATTTCATACTTTGC-TGAAAAATCTGTTCCACTACTCTTT
6566803 CGTGGAGTTC-AGATTTTCT
65 CGTGGAGTTCGA-ATTTTCT
* * **
6566822 TTTACTTCACTACTTTTCCGTGAAGATTTCATACTTTGCTGAAAAATCCATTCCACTACTC-TTC
1 TTTGCTTCACTACTCTTCCGTGAAGATTTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTC
* * *
6566886 TGTTGAATTCGAATTTTGT
66 -GTGGAGTTCGAATTTTCT
6566905 TCTTGCTT
1 T-TTGCTT
6566913 TTTGCTTTTG
Statistics
Matches: 151, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
82 3 0.02
83 63 0.42
84 85 0.56
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (83 bp):
TTTGCTTCACTACTCTTCCGTGAAGATTTCATACTTTGCTGAAAAATCTGTTCCACTACTCTTTC
GTGGAGTTCGAATTTTCT
Done.