Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 34 of 127
Found at i:7050672 original size:34 final size:34
Alignment explanation
Indices: 7050629--7050695 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
7050619 AAAACTTTTA
* * *
7050629 CAAACCTAAAA-TTATTGCAAATCTGAGGTTCTTG
1 CAAAACTAAAACTT-TTGCAAACCTGAAGTTCTTG
*
7050663 CAAAACTAAAACTTTTGCGAACCTGAAGTTCTT
1 CAAAACTAAAACTTTTGCAAACCTGAAGTTCTT
7050696 ACGAATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (34 bp):
CAAAACTAAAACTTTTGCAAACCTGAAGTTCTTG
Found at i:7050703 original size:51 final size:51
Alignment explanation
Indices: 7050602--7050712 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
7050592 TGCGAATCTT
* *
7050602 TAAA-TTCTTGCAAAATTAAAACTTTTACAAACCTAAAATTATTGCAAATC
1 TAAAGTTCTTGCAAAACTAAAACTTTTACAAACCTAAAATTATTACAAATC
* * * * * * * *
7050652 TGAGGTTCTTGCAAAACTAAAACTTTTGCGAACCTGAAGTTCTTACGAATC
1 TAAAGTTCTTGCAAAACTAAAACTTTTACAAACCTAAAATTATTACAAATC
7050703 TAAAGTTCTT
1 TAAAGTTCTT
7050713 ACGAATTGAA
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
50 2 0.04
51 46 0.96
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (51 bp):
TAAAGTTCTTGCAAAACTAAAACTTTTACAAACCTAAAATTATTACAAATC
Found at i:7050728 original size:17 final size:17
Alignment explanation
Indices: 7050691--7050729 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7050681 GAACCTGAAG
*
7050691 TTCTTACGAATCTAAAG
1 TTCTTACGAATCTAAAA
7050708 TTCTTACGAAT-TGAAAA
1 TTCTTACGAATCT-AAAA
7050725 TTCTT
1 TTCTT
7050730 GGAAACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (17 bp):
TTCTTACGAATCTAAAA
Found at i:7050741 original size:17 final size:17
Alignment explanation
Indices: 7050721--7050778 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
7050711 TTACGAATTG
7050721 AAAATTCTTGGAAACTT
1 AAAATTCTTGGAAACTT
* *
7050738 AAAATTTTTGTAAACTT
1 AAAATTCTTGGAAACTT
*
7050755 AAAATTCTTGCGAATCTT
1 AAAATTCTTG-GAAACTT
*
7050773 TAAATT
1 AAAATT
7050779 TTTGTGAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 24 0.71
18 10 0.29
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (17 bp):
AAAATTCTTGGAAACTT
Found at i:7050783 original size:35 final size:35
Alignment explanation
Indices: 7050721--7050843 Score: 101
Period size: 35 Copynumber: 3.5 Consensus size: 35
7050711 TTACGAATTG
* *
7050721 AAAATTCTTG-GAAACTTAAAATTTTTGTAAACTT
1 AAAATTCTTGCGAATCTTTAAATTTTTGTAAACTT
*
7050755 AAAATTCTTGCGAATCTTTAAATTTTTGTGAA-TAT
1 AAAATTCTTGCGAATCTTTAAATTTTTGTAAACT-T
* * * *
7050790 GAAATTCTTACAAAT-TTTAAAATTTTTGCTAATC-T
1 AAAATTCTTGCGAATCTTT-AAATTTTTG-TAAACTT
** *
7050825 AAAAACCTTGTGAATCTTT
1 AAAATTCTTGCGAATCTTT
7050844 CATTCTTACG
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
34 14 0.20
35 50 0.72
36 5 0.07
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (35 bp):
AAAATTCTTGCGAATCTTTAAATTTTTGTAAACTT
Found at i:7050787 original size:18 final size:18
Alignment explanation
Indices: 7050721--7050787 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 18
7050711 TTACGAATTG
* *
7050721 AAAATTCTTG-GAAACTT
1 AAAATTTTTGTGAATCTT
*
7050738 AAAATTTTTGT-AAACTT
1 AAAATTTTTGTGAATCTT
* *
7050755 AAAATTCTTGCGAATCTT
1 AAAATTTTTGTGAATCTT
*
7050773 TAAATTTTTGTGAAT
1 AAAATTTTTGTGAAT
7050788 ATGAAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 24 0.59
18 17 0.41
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (18 bp):
AAAATTTTTGTGAATCTT
Found at i:7050942 original size:52 final size:52
Alignment explanation
Indices: 7050793--7050967 Score: 185
Period size: 52 Copynumber: 3.4 Consensus size: 52
7050783 TGAATATGAA
* * * *
7050793 ATTCTTACAAATTTTAAAATTTTTGCTAATC-TAAAAACCTTGTGAATCTTTC
1 ATTCTTACAAATATGAAAATTTTTG-TAAACTTAAAAACCTTGTGAATCTTCC
* * * * *
7050845 ATTCTTACGAATATG--AGTTCTTGCAAACTTAAAAACCTTATGAATCTTCC
1 ATTCTTACAAATATGAAAATTTTTGTAAACTTAAAAACCTTGTGAATCTTCC
* * ** *
7050895 ATTCTTACAAATTTGAAAATTTTTGTAAACTTGAAATTCTTGCGAATCTTCC
1 ATTCTTACAAATATGAAAATTTTTGTAAACTTAAAAACCTTGTGAATCTTCC
*
7050947 ATTCTTGCAAATATGAAAATT
1 ATTCTTACAAATATGAAAATT
7050968 CTTACAAATC
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
49 3 0.03
50 38 0.38
52 58 0.59
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.41
Consensus pattern (52 bp):
ATTCTTACAAATATGAAAATTTTTGTAAACTTAAAAACCTTGTGAATCTTCC
Found at i:7050970 original size:18 final size:17
Alignment explanation
Indices: 7050947--7050993 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
7050937 CGAATCTTCC
7050947 ATTCTTGCAAATATGAAA
1 ATTCTTGCAAATATG-AA
* *
7050965 ATTCTTACAAATCTGAA
1 ATTCTTGCAAATATGAA
7050982 ATTCTTTGCAAA
1 ATTC-TTGCAAA
7050994 ACTAAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (17 bp):
ATTCTTGCAAATATGAA
Found at i:7050982 original size:52 final size:52
Alignment explanation
Indices: 7050831--7050987 Score: 149
Period size: 52 Copynumber: 3.1 Consensus size: 52
7050821 ATCTAAAAAC
* * * * * * **
7050831 CTTGTGAATCTTTCATTCTTACGAATATG--AGTTCTTGCAAACTTAAAAAC
1 CTTGCGAATCTTCCATTCTTACAAATATGAAAATTCTTACAAACTTGAAATT
** * * **
7050881 CTTATGAATCTTCCATTCTTACAAATTTGAAAATTTTTGTAAACTTGAAATT
1 CTTGCGAATCTTCCATTCTTACAAATATGAAAATTCTTACAAACTTGAAATT
*
7050933 CTTGCGAATCTTCCATTCTTGCAAATATGAAAATTCTTACAAA-TCTGAAATT
1 CTTGCGAATCTTCCATTCTTACAAATATGAAAATTCTTACAAACT-TGAAATT
7050985 CTT
1 CTT
7050988 TGCAAAACTA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
50 25 0.29
51 1 0.01
52 61 0.70
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (52 bp):
CTTGCGAATCTTCCATTCTTACAAATATGAAAATTCTTACAAACTTGAAATT
Found at i:7050986 original size:35 final size:34
Alignment explanation
Indices: 7050895--7050993 Score: 83
Period size: 35 Copynumber: 2.8 Consensus size: 34
7050885 TGAATCTTCC
* * *
7050895 ATTCTTACAAATTTGAAAATTTTTGTAAACTTGAA
1 ATTCTTACAAATCTG-AAATTCTTGCAAACTTGAA
* * ***
7050930 ATTCTTGCGAATCTTCCATTCTTGCAAA-TATGAAA
1 ATTCTTACAAATCTGAAATTCTTGCAAACT-TG-AA
7050965 ATTCTTACAAATCTGAAATTCTTTGCAAA
1 ATTCTTACAAATCTGAAATTC-TTGCAAA
7050994 ACTAAAACCT
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
33 1 0.02
34 11 0.23
35 29 0.60
36 7 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (34 bp):
ATTCTTACAAATCTGAAATTCTTGCAAACTTGAA
Found at i:7051011 original size:35 final size:34
Alignment explanation
Indices: 7050972--7051098 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 34
7050962 AAAATTCTTA
7050972 CAAATCTGAAATTCTTTGCAAAACTAAAACCTTTG
1 CAAATCTGAAATT-TTTGCAAAACTAAAACCTTTG
* * * **
7051007 CAAATTTGAAACTTTTGCAAAACTTGAAATTTTTG
1 CAAATCTGAAATTTTTGCAAAAC-TAAAACCTTTG
* * * *
7051042 CGAATTTTAAAATTTTTACAAAACTAAAACCTTTG
1 C-AAATCTGAAATTTTTGCAAAACTAAAACCTTTG
* *
7051077 CGAATCTTG-AATTTTTACAAAA
1 CAAATC-TGAAATTTTTGCAAAA
7051099 TTTGAAATCT
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
34 25 0.34
35 30 0.41
36 18 0.25
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (34 bp):
CAAATCTGAAATTTTTGCAAAACTAAAACCTTTG
Found at i:7051035 original size:18 final size:18
Alignment explanation
Indices: 7050986--7051042 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 18
7050976 TCTGAAATTC
* *
7050986 TTTGCAAAAC-TAAAACC
1 TTTGCAAAACTTGAAACT
*
7051003 TTTGC-AAATTTGAAACT
1 TTTGCAAAACTTGAAACT
*
7051020 TTTGCAAAACTTGAAATT
1 TTTGCAAAACTTGAAACT
7051038 TTTGC
1 TTTGC
7051043 GAATTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 3 0.09
17 15 0.45
18 15 0.45
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TTTGCAAAACTTGAAACT
Found at i:7051039 original size:17 final size:17
Alignment explanation
Indices: 7050998--7051042 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
7050988 TGCAAAACTA
* *
7050998 AAACCTTTGCAAATTTG
1 AAACTTTTGCAAACTTG
7051015 AAACTTTTGCAAAACTTG
1 AAACTTTTGC-AAACTTG
*
7051033 AAATTTTTGC
1 AAACTTTTGC
7051043 GAATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (17 bp):
AAACTTTTGCAAACTTG
Found at i:7051098 original size:70 final size:71
Alignment explanation
Indices: 7050980--7051119 Score: 194
Period size: 70 Copynumber: 2.0 Consensus size: 71
7050970 TACAAATCTG
* * *
7050980 AAATTCTTTGCAAAACTAAAACCTTTGCAAATTTGAAACTTTTGCAAAACTTGAAATTTTTGCGA
1 AAATTCTTTACAAAACTAAAACCTTTGCAAATTTGAAACTTTTACAAAACTTGAAATCTTTGCGA
7051045 ATTTTA
66 ATTTTA
* * * *
7051051 AAATT-TTTACAAAACTAAAACCTTTGCGAATCTTG-AATTTTTACAAAATTTGAAATCTTTGTG
1 AAATTCTTTACAAAACTAAAACCTTTGCAAAT-TTGAAACTTTTACAAAACTTGAAATCTTTGCG
7051114 AATTTT
65 AATTTT
7051120 TTTTTTTGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
70 53 0.87
71 8 0.13
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (71 bp):
AAATTCTTTACAAAACTAAAACCTTTGCAAATTTGAAACTTTTACAAAACTTGAAATCTTTGCGA
ATTTTA
Found at i:7051111 original size:35 final size:33
Alignment explanation
Indices: 7051002--7051118 Score: 99
Period size: 35 Copynumber: 3.4 Consensus size: 33
7050992 AAACTAAAAC
* * *
7051002 CTTTGCAAATTTGAAACTTTTGCAAAACTTGAAAT
1 CTTTGCGAATTTG-AATTTTTACAAAA-TTGAAAT
* * * * *
7051037 TTTTGCGAATTTTAAAATTTTTACAAAACTAAAAC
1 CTTTGCGAA-TTT-GAATTTTTACAAAATTGAAAT
7051072 CTTTGCGAATCTTGAATTTTTACAAAATTTGAAAT
1 CTTTGCGAAT-TTGAATTTTTACAAAA-TTGAAAT
*
7051107 CTTTGTGAATTT
1 CTTTGCGAATTT
7051119 TTTTTTTTGT
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
34 16 0.25
35 34 0.53
36 14 0.22
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (33 bp):
CTTTGCGAATTTGAATTTTTACAAAATTGAAAT
Found at i:7051379 original size:41 final size:41
Alignment explanation
Indices: 7051301--7051444 Score: 121
Period size: 43 Copynumber: 3.4 Consensus size: 41
7051291 GATTAAAGTT
* * *
7051301 TTTAAAGTTGTTTAGCCTCTATGTAGGGGAGCCTATTTCCA
1 TTTAAAGTTGTTTAGCCTCTATATAGAGAAGCCTATTTCCA
* * *
7051342 TTTAAGGTTGTTTAGCCTCTATATAGAGAAGCTTATTTCATA
1 TTTAAAGTTGTTTAGCCTCTATATAGAGAAGCCTATTTC-CA
* * * * * *
7051384 TTTTAAAATTGTTTAACCTTTGTGTAGA-AGAGCCTATTTCTTAA
1 -TTTAAAGTTGTTTAGCCTCTATATAGAGA-AGCCTATTTC--CA
7051428 TTTAAAGTTGTTT-GCCT
1 TTTAAAGTTGTTTAGCCT
7051445 GTGTATAAAG
Statistics
Matches: 82, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
41 34 0.41
42 5 0.06
43 42 0.51
44 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (41 bp):
TTTAAAGTTGTTTAGCCTCTATATAGAGAAGCCTATTTCCA
Found at i:7052386 original size:21 final size:21
Alignment explanation
Indices: 7052357--7052397 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7052347 GGATTCAAGT
*
7052357 TTCTGAAAAAGTTATTCTGAAA
1 TTCTGAAAAAATTATT-TGAAA
7052379 TTCT-AAAAAATTATTTGAA
1 TTCTGAAAAAATTATTTGAA
7052398 TTTTTTGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (21 bp):
TTCTGAAAAAATTATTTGAAA
Found at i:7052792 original size:4 final size:4
Alignment explanation
Indices: 7052774--7052823 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
7052764 ATGCTTATCA
* * * *
7052774 TATT TATT TGTTT TATT TATC TATT TATT TATT TATT CATT TACT TATT
1 TATT TATT T-ATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
7052823 T
1 T
7052824 TTTTTAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
4 34 0.92
5 3 0.08
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:7052962 original size:3 final size:3
Alignment explanation
Indices: 7052956--7052996 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7052946 AATTTTTTTC
7052956 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7052997 TTTTGTGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7054425 original size:28 final size:28
Alignment explanation
Indices: 7054361--7054458 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
7054351 AATGGGGTTG
* * *
7054361 ATTAAATTTATTATTTTATTGTGAATTAATT
1 ATTAAATTTATCATTATATT-TTAATT--TT
*
7054392 GTTAAATTTATCATTATATTTTAATTTT
1 ATTAAATTTATCATTATATTTTAATTTT
* *
7054420 ATTAAAATTATCATTATATTTTAAAATTT
1 ATTAAATTTATCATTATATTTT-AATTTT
*
7054449 ATTAATTTTA
1 ATTAAATTTA
7054459 AACAAAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 22 0.39
29 13 0.23
30 5 0.09
31 17 0.30
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (28 bp):
ATTAAATTTATCATTATATTTTAATTTT
Found at i:7054458 original size:16 final size:19
Alignment explanation
Indices: 7054421--7054460 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
7054411 TTTAATTTTA
7054421 TTAAAATTATCATTATATT
1 TTAAAATTATCATTATATT
7054440 TTAAAATT-T-ATTA-ATT
1 TTAAAATTATCATTATATT
7054456 TTAAA
1 TTAAA
7054461 CAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 1 0.05
19 8 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAATTATCATTATATT
Found at i:7054622 original size:8 final size:8
Alignment explanation
Indices: 7054580--7054634 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
7054570 TTATTTATTT
7054580 TAATTTTA
1 TAATTTTA
*
7054588 AAATTTTA
1 TAATTTTA
*
7054596 AAATTTTTA
1 TAA-TTTTA
7054605 TCAATTTTA
1 T-AATTTTA
7054614 TAATTTTA
1 TAATTTTA
7054622 T-A-TTTA
1 TAATTTTA
7054628 -AATTTTA
1 TAATTTTA
7054635 ATATATATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
6 5 0.12
7 5 0.12
8 18 0.44
9 11 0.27
10 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (8 bp):
TAATTTTA
Found at i:7054696 original size:24 final size:23
Alignment explanation
Indices: 7054647--7054699 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
7054637 ATATATCATA
*
7054647 ATAAAATTTTAAAATATTTTAAT
1 ATAAAATTTGAAAATATTTTAAT
* **
7054670 ATAAAATTTGAATATTATTTTTTT
1 ATAAAATTTGAA-AATATTTTAAT
7054694 ATAAAA
1 ATAAAA
7054700 AACCAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAAAATTTGAAAATATTTTAAT
Found at i:7059064 original size:14 final size:14
Alignment explanation
Indices: 7059045--7059073 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7059035 CAGTATTACA
7059045 TAGCTTTTCCTAGG
1 TAGCTTTTCCTAGG
7059059 TAGCTTTTCCTAGG
1 TAGCTTTTCCTAGG
7059073 T
1 T
7059074 TTTCTGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (14 bp):
TAGCTTTTCCTAGG
Found at i:7062115 original size:31 final size:31
Alignment explanation
Indices: 7062058--7062127 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
7062048 ATATTTTATG
*
7062058 TTTTTATATTAATATAAATTATAATATATAA
1 TTTTTATATTAAAATAAATTATAATATATAA
*
7062089 TTTTTAT-TTAAAATATAA-TATGA-ATATAA
1 TTTTTATATTAAAATA-AATTATAATATATAA
7062118 TATTTTATAT
1 T-TTTTATAT
7062128 GATATAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 17 0.50
31 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
TTTTTATATTAAAATAAATTATAATATATAA
Found at i:7062438 original size:28 final size:29
Alignment explanation
Indices: 7062382--7062447 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
7062372 TATTTTATTT
7062382 AAAA-TAAAAATTTATTTGAATACAAATA
1 AAAATTAAAAATTTATTTGAATACAAATA
*
7062410 AAAATTAAAAATTTATTT-AAGTAC-TATA
1 AAAATTAAAAATTTATTTGAA-TACAAATA
7062438 AAAATTAAAA
1 AAAATTAAAA
7062448 GACTTACTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTAAAAATTTATTTGAATACAAATA
Found at i:7068411 original size:23 final size:24
Alignment explanation
Indices: 7068373--7068421 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
7068363 TAAATTTTTA
7068373 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
7068395 TTAAATTAAT-TAGAATTAATATATT
1 TTAAA-TAATATA-AATTAATATATT
7068420 TT
1 TT
7068422 TATTGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 2 0.09
25 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:7070428 original size:20 final size:21
Alignment explanation
Indices: 7070412--7070466 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
7070402 TTAAAAAAAT
7070412 AAATAAATAACATAAA-ATAAA
1 AAATAAATAACA-AAATATAAA
*
7070433 AAATAAATAA-AAACTATAAA
1 AAATAAATAACAAAATATAAA
*
7070453 AAATAAAAAACAAA
1 AAATAAATAACAAA
7070467 TACCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 13 0.43
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (21 bp):
AAATAAATAACAAAATATAAA
Found at i:7070436 original size:21 final size:21
Alignment explanation
Indices: 7070403--7070464 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
7070393 ACAGAATATT
7070403 TAAAA-AAATAAATAAATAACA
1 TAAAATAAA-AAATAAATAACA
7070424 TAAAATAAAAAATAAATAA-A
1 TAAAATAAAAAATAAATAACA
* *
7070444 -AACTATAAAAAATAAAAAACA
1 TAA-AATAAAAAATAAATAACA
7070465 AATACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 15 0.42
21 16 0.44
22 3 0.08
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAAATAAAAAATAAATAACA
Found at i:7070438 original size:25 final size:26
Alignment explanation
Indices: 7070405--7070468 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
7070395 AGAATATTTA
7070405 AAAAAATAAATAAATAAC-AT-AAAAT
1 AAAAAATAAATAAA-AACTATAAAAAT
7070430 AAAAAATAAATAAAAACTATAAAAAAT
1 AAAAAATAAATAAAAACTAT-AAAAAT
*
7070457 AAAAAACAAATA
1 AAAAAATAAATA
7070469 CCAAAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 3 0.09
25 16 0.46
27 16 0.46
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (26 bp):
AAAAAATAAATAAAAACTATAAAAAT
Found at i:7071479 original size:20 final size:20
Alignment explanation
Indices: 7071446--7071491 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
7071436 AGATAACCTA
*
7071446 AAAACTCAAAATAAATTAAT-
1 AAAA-TCAAAATAAATAAATC
7071466 AAAATCAAAGATAAATAAATC
1 AAAATCAAA-ATAAATAAATC
7071487 AAAAT
1 AAAAT
7071492 AATATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATCAAAATAAATAAATC
Found at i:7071487 original size:15 final size:15
Alignment explanation
Indices: 7071462--7071499 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
7071452 CAAAATAAAT
7071462 TAATA-AAATCAAAGA
1 TAATATAAATCAAA-A
7071477 TAA-ATAAATCAAAA
1 TAATATAAATCAAAA
7071491 TAATATAAA
1 TAATATAAA
7071500 ATAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (15 bp):
TAATATAAATCAAAA
Found at i:7071515 original size:10 final size:9
Alignment explanation
Indices: 7071454--7071607 Score: 52
Period size: 10 Copynumber: 16.4 Consensus size: 9
7071444 TAAAAACTCA
7071454 AAAT-AAAT
1 AAATAAAAT
*
7071462 TAATAAAAT
1 AAATAAAAT
*
7071471 CAAAGATAAAT
1 -AAATA-AAAT
7071482 AAATCAAAAT
1 AAAT-AAAAT
7071492 AATATAAAAT
1 AA-ATAAAAT
7071502 -AATAATAAT
1 AAATAA-AAT
7071511 AAATAATAAT
1 AAATAA-AAT
* *
7071521 CAACATTAGAT
1 -AA-ATAAAAT
*
7071532 ATATACAAAT
1 AAATA-AAAT
*
7071542 GAATAAAGAT
1 AAATAAA-AT
**
7071552 AAAATCTAA-
1 -AAATAAAAT
7071561 AAATAAAAT
1 AAATAAAAT
*
7071570 TAA-AAAAT
1 AAATAAAAT
*
7071578 ATA-AAAAT
1 AAATAAAAT
7071586 AAA-AATAA-
1 AAATAA-AAT
7071594 AAATAAAAT
1 AAATAAAAT
7071603 GAAAT
1 -AAAT
7071608 GGGGCTTGGA
Statistics
Matches: 109, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
8 33 0.30
9 18 0.17
10 40 0.37
11 15 0.14
12 3 0.03
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (9 bp):
AAATAAAAT
Found at i:7071567 original size:6 final size:6
Alignment explanation
Indices: 7071543--7071601 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
7071533 TATACAAATG
* * *
7071543 AATAAA GATAAA ATCTAAA AATAAA ATTAAAAA ATATAAA AATAAA AATAAA
1 AATAAA AATAAA A-ATAAA AATAAA A--ATAAA A-ATAAA AATAAA AATAAA
7071595 AATAAA A
1 AATAAA A
7071602 TGAAATGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 28 0.64
7 11 0.25
8 5 0.11
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:7071582 original size:21 final size:21
Alignment explanation
Indices: 7071552--7071596 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
7071542 GAATAAAGAT
* *
7071552 AAAATCTAAAAATAAAATTAA
1 AAAATATAAAAATAAAAATAA
7071573 AAAATATAAAAATAAAAATAA
1 AAAATATAAAAATAAAAATAA
7071594 AAA
1 AAA
7071597 TAAAATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATATAAAAATAAAAATAA
Found at i:7071872 original size:15 final size:15
Alignment explanation
Indices: 7071849--7071893 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
7071839 ATTTGTAGAC
*
7071849 TTTGTGGTTTTATGG
1 TTTGGGGTTTTATGG
*
7071864 TTTGGGGTTTTTAGGG
1 TTTGGGG-TTTTATGG
7071880 TTTGGGGTTTTATG
1 TTTGGGGTTTTATG
7071894 ATTTTAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.56
Consensus pattern (15 bp):
TTTGGGGTTTTATGG
Found at i:7072248 original size:24 final size:23
Alignment explanation
Indices: 7072189--7072270 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 23
7072179 TTTAAAAATA
*
7072189 AAAAAATCTAAAAA-TTATTTTATT
1 AAAAAAT-AAAAAATTTATTTT-TT
*
7072213 -AAAAA-AATAAATTTGATTTTTT
1 AAAAAATAAAAAATTT-ATTTTTT
*
7072235 AAAAAATAAAAAATATTAATTTTT
1 AAAAAATAAAAAAT-TTATTTTTT
*
7072259 AAAAATTAAAAA
1 AAAAAATAAAAA
7072271 TATTGGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.08
22 4 0.08
23 15 0.31
24 23 0.48
25 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (23 bp):
AAAAAATAAAAAATTTATTTTTT
Found at i:7072257 original size:23 final size:23
Alignment explanation
Indices: 7072231--7072274 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7072221 AAATTTGATT
7072231 TTTTAAAAAATAAAAAATATTAA
1 TTTTAAAAAATAAAAAATATTAA
* *
7072254 TTTTTAAAAATTAAAAATATT
1 TTTTAAAAAATAAAAAATATT
7072275 GGAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTTAAAAAATAAAAAATATTAA
Found at i:7072337 original size:41 final size:42
Alignment explanation
Indices: 7072234--7072339 Score: 101
Period size: 39 Copynumber: 2.6 Consensus size: 42
7072224 TTTGATTTTT
** * * * * *
7072234 TAAAAAATAAAAAATATTAATTTTTAAAAATTAAAAATATTG
1 TAAAAAATTTAAAATTTTTATTTTTAAAAATAAAAAAAATTC
* **
7072276 GAAAAAA-TT-AAATTAATATTTTT-AAAATAAAAAAAATTC
1 TAAAAAATTTAAAATTTTTATTTTTAAAAATAAAAAAAATTC
7072315 TAAAAAATTTAAAATTTTTATTTTT
1 TAAAAAATTTAAAATTTTTATTTTT
7072340 TTTAAAAATT
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
39 19 0.39
40 12 0.24
41 12 0.24
42 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (42 bp):
TAAAAAATTTAAAATTTTTATTTTTAAAAATAAAAAAAATTC
Found at i:7075095 original size:2 final size:2
Alignment explanation
Indices: 7075090--7075115 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7075080 TTTGTTTAAA
7075090 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
7075116 CCATTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7076248 original size:14 final size:14
Alignment explanation
Indices: 7076229--7076273 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
7076219 TTAATATATG
7076229 TATATTTAAAAATA
1 TATATTTAAAAATA
7076243 TATATTTATAAAA-A
1 TATATTTA-AAAATA
*
7076257 AATTATTTAAAAATA
1 TA-TATTTAAAAATA
7076272 TA
1 TA
7076274 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TATATTTAAAAATA
Found at i:7076287 original size:29 final size:29
Alignment explanation
Indices: 7076231--7076287 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
7076221 AATATATGTA
** *
7076231 TATTTAAAAATATATATTTATAAAAAAAT
1 TATTTAAAAATATATAAATAAAAAAAAAT
7076260 TATTTAAAAATATA-AAATAAAAATAAAA
1 TATTTAAAAATATATAAATAAAAA-AAAA
7076288 ATTTATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
TATTTAAAAATATATAAATAAAAAAAAAT
Found at i:7080849 original size:2 final size:2
Alignment explanation
Indices: 7080844--7080874 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7080834 TGGAGGTGTG
7080844 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7080875 TGCCAGAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7085760 original size:21 final size:20
Alignment explanation
Indices: 7085735--7085806 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
7085725 TAATATCCAT
7085735 TTTTTATTTTTCTTGATTTGA
1 TTTTT-TTTTTCTTGATTTGA
* *
7085756 TTTTTTTCATTCTT--TTT-T
1 TTTTTTT-TTTCTTGATTTGA
7085774 TTTTTGTTTTTCTTGATTTGA
1 TTTTT-TTTTTCTTGATTTGA
*
7085795 TTTTTTTATTCT
1 TTTTTTTTTTCT
7085807 ATTATTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.24
19 5 0.12
20 11 0.27
21 15 0.37
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTTCTTGATTTGA
Found at i:7085761 original size:22 final size:21
Alignment explanation
Indices: 7085733--7085801 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 21
7085723 AATAATATCC
7085733 ATTTTTTATTTTTCTTGATTTG
1 ATTTTTT-TTTTTCTTGATTTG
**
7085755 ATTTTTTTCATTCTT--TTT-
1 ATTTTTTTTTTTCTTGATTTG
7085773 -TTTTTTGTTTTTCTTGATTTG
1 ATTTTTT-TTTTTCTTGATTTG
7085794 ATTTTTTT
1 ATTTTTTT
7085802 ATTCTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
17 6 0.16
18 6 0.16
19 3 0.08
20 3 0.08
21 7 0.18
22 13 0.34
ACGTcount: A:0.10, C:0.06, G:0.07, T:0.77
Consensus pattern (21 bp):
ATTTTTTTTTTTCTTGATTTG
Found at i:7085799 original size:38 final size:39
Alignment explanation
Indices: 7085733--7085817 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
7085723 AATAATATCC
* *
7085733 ATTTTTTATTTTTCTTGATTTGATTTTTTTCATTCTTTT
1 ATTTTTTGTTTTTCTTGATTTGATTTTTTTCATTCTATT
*
7085772 TTTTTTTGTTTTTCTTGATTTGATTTTTTT-ATTCTATT
1 ATTTTTTGTTTTTCTTGATTTGATTTTTTTCATTCTATT
7085810 ATTTTTTG
1 ATTTTTTG
7085818 ATTAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 14 0.33
39 28 0.67
ACGTcount: A:0.12, C:0.06, G:0.07, T:0.75
Consensus pattern (39 bp):
ATTTTTTGTTTTTCTTGATTTGATTTTTTTCATTCTATT
Found at i:7086008 original size:22 final size:22
Alignment explanation
Indices: 7085983--7086085 Score: 111
Period size: 22 Copynumber: 4.7 Consensus size: 22
7085973 GCCCAGAAGA
*
7085983 CTTAAAGATTATGCTCGGAGGT
1 CTTAAAGATTATGCTCGAAGGT
* * *
7086005 CTTAAA-ATTTATACTTGAAGAT
1 CTTAAAGA-TTATGCTCGAAGGT
*
7086027 CTTAAAGTTTATGCTCGAAGGT
1 CTTAAAGATTATGCTCGAAGGT
* *
7086049 CTTAGAA-ATTATACTTGAAGGT
1 CTTA-AAGATTATGCTCGAAGGT
7086071 CTTAAAGATTATGCT
1 CTTAAAGATTATGCT
7086086 TAGAAGTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
21 3 0.05
22 60 0.92
23 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (22 bp):
CTTAAAGATTATGCTCGAAGGT
Found at i:7086031 original size:44 final size:44
Alignment explanation
Indices: 7085978--7086126 Score: 171
Period size: 44 Copynumber: 3.4 Consensus size: 44
7085968 ATCATGCCCA
*
7085978 GAAGA-CTTAAAGATTATGCTCGGAGGTCTTA-AAATTTATACTT
1 GAAGATCTTAAAGATTATGCTCGAAGGTCTTAGAAA-TTATACTT
*
7086021 GAAGATCTTAAAGTTTATGCTCGAAGGTCTTAGAAATTATACTT
1 GAAGATCTTAAAGATTATGCTCGAAGGTCTTAGAAATTATACTT
* * * *
7086065 GAAGGTCTTAAAGATTATGCTTAGAA-GTTTTAGAGATTATACTT
1 GAAGATCTTAAAGATTATGC-TCGAAGGTCTTAGAAATTATACTT
* *
7086109 -AGAGATTTTGAAGATTAT
1 GA-AGATCTTAAAGATTAT
7086127 ATCATAAGGT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
43 6 0.07
44 79 0.86
45 7 0.08
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (44 bp):
GAAGATCTTAAAGATTATGCTCGAAGGTCTTAGAAATTATACTT
Found at i:7086101 original size:22 final size:23
Alignment explanation
Indices: 7086013--7086111 Score: 89
Period size: 22 Copynumber: 4.5 Consensus size: 23
7086003 GTCTTAAAAT
* * *
7086013 TTATACTT-GAAGATCTTAAAGT
1 TTATACTTAGAAGGTCTTAGAGA
* * *
7086035 TTATGC-TCGAAGGTCTTAGAAA
1 TTATACTTAGAAGGTCTTAGAGA
*
7086057 TTATACTT-GAAGGTCTTAAAGA
1 TTATACTTAGAAGGTCTTAGAGA
* *
7086079 TTATGCTTAGAA-GTTTTAGAGA
1 TTATACTTAGAAGGTCTTAGAGA
7086101 TTATACTTAGA
1 TTATACTTAGA
7086112 GATTTTGAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 1 0.02
22 57 0.92
23 4 0.06
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (23 bp):
TTATACTTAGAAGGTCTTAGAGA
Found at i:7086117 original size:22 final size:22
Alignment explanation
Indices: 7086050--7086127 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
7086040 CTCGAAGGTC
* * *
7086050 TTAGAAATTATACTT-GAAGGTC
1 TTAGAGATTATACTTAG-AGATT
* *
7086072 TTAAAGATTATGCTTAGA-AGTT
1 TTAGAGATTATACTTAGAGA-TT
7086094 TTAGAGATTATACTTAGAGATT
1 TTAGAGATTATACTTAGAGATT
7086116 TT-GAAGATTATA
1 TTAG-AGATTATA
7086128 TCATAAGGTC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
21 1 0.02
22 42 0.93
23 2 0.04
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAGAGATTATACTTAGAGATT
Found at i:7086277 original size:22 final size:22
Alignment explanation
Indices: 7086221--7086331 Score: 91
Period size: 22 Copynumber: 5.0 Consensus size: 22
7086211 TAAAATGCTT
*
7086221 TGCCCGGAGGTCTT-AGAGATTA
1 TGCCCAGAGGTCTTGA-AGATTA
* * * *
7086243 TGTCAATAAGTCTTGAAGATTA
1 TGCCCAGAGGTCTTGAAGATTA
*
7086265 TGCCCAGAGGTCTTGGAGATTA
1 TGCCCAGAGGTCTTGAAGATTA
* * *
7086287 TACTCAGAGATCTT-AGAGATTA
1 TGCCCAGAGGTCTTGA-AGATTA
* *
7086309 TGCCCGGAGGTCTTGAAAATTA
1 TGCCCAGAGGTCTTGAAGATTA
7086331 T
1 T
7086332 CTTGGAGGTT
Statistics
Matches: 67, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
22 65 0.97
23 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (22 bp):
TGCCCAGAGGTCTTGAAGATTA
Found at i:7086538 original size:32 final size:32
Alignment explanation
Indices: 7086502--7086612 Score: 118
Period size: 32 Copynumber: 3.5 Consensus size: 32
7086492 CCAATTAATC
* *
7086502 TGGGCTTTGTTTGGTCTAAGTGCCAGCTAGAT
1 TGGGCTTAGTTTGATCTAAGTGCCAGCTAGAT
* * *
7086534 TGGGCTTAGTTTGATCT-AGTTGACAGCTAAAC
1 TGGGCTTAGTTTGATCTAAG-TGCCAGCTAGAT
** *
7086566 TAAGCTTAGTTTGATCTAGGTGCCAGCTAGAT
1 TGGGCTTAGTTTGATCTAAGTGCCAGCTAGAT
7086598 TGGGCTT-GATTTGAT
1 TGGGCTTAG-TTTGAT
7086613 TCGAATGTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
31 3 0.05
32 59 0.94
33 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (32 bp):
TGGGCTTAGTTTGATCTAAGTGCCAGCTAGAT
Found at i:7086660 original size:31 final size:32
Alignment explanation
Indices: 7086501--7086661 Score: 107
Period size: 32 Copynumber: 5.1 Consensus size: 32
7086491 GCCAATTAAT
* *
7086501 CTGGGCTTTG-TTTGGTCTAAGTGCCAGCTAGA
1 CTGGGC-TTGATTTGATCTAGGTGCCAGCTAGA
* * * *
7086533 TTGGGCTT-AGTTTGATCTAGTTGACAGCTAAA
1 CTGGGCTTGA-TTTGATCTAGGTGCCAGCTAGA
**
7086565 CTAAGCTT-AGTTTGATCTAGGTGCCAGCTAGA
1 CTGGGCTTGA-TTTGATCTAGGTGCCAGCTAGA
* * * *** *
7086597 TTGGGCTTGATTTGAT-TCGAATGTTGGTTAGA
1 CTGGGCTTGATTTGATCTAG-GTGCCAGCTAGA
*
7086629 CT-GGTTTGATTTGATCTAGGTGCCAGCTAGA
1 CTGGGCTTGATTTGATCTAGGTGCCAGCTAGA
7086660 CT
1 CT
7086662 AAGCTTAAAT
Statistics
Matches: 95, Mismatches: 29, Indels: 11
0.70 0.21 0.08
Matches are distributed among these distances:
31 25 0.26
32 69 0.73
33 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (32 bp):
CTGGGCTTGATTTGATCTAGGTGCCAGCTAGA
Found at i:7088621 original size:51 final size:51
Alignment explanation
Indices: 7088566--7088669 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
7088556 CAATGATGCC
7088566 TAAAGAATGTTATGAAACATCAAAACGCCTAAGATAATGAGTTTTCACATG
1 TAAAGAATGTTATGAAACATCAAAACGCCTAAGATAATGAGTTTTCACATG
*
7088617 TAAAGAATGTTATGAAACATCAAAATGCCTAAGATAATGAGTTTTCACATG
1 TAAAGAATGTTATGAAACATCAAAACGCCTAAGATAATGAGTTTTCACATG
7088668 TA
1 TA
7088670 CAAGGCCCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (51 bp):
TAAAGAATGTTATGAAACATCAAAACGCCTAAGATAATGAGTTTTCACATG
Found at i:7091744 original size:9 final size:8
Alignment explanation
Indices: 7091721--7091754 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
7091711 CCATTGGAGC
7091721 TTATTTTT
1 TTATTTTT
* *
7091729 CTCTTTTT
1 TTATTTTT
7091737 TTATTTTT
1 TTATTTTT
7091745 TTATTTTT
1 TTATTTTT
7091753 TT
1 TT
7091755 CCCTTTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (8 bp):
TTATTTTT
Found at i:7093803 original size:4 final size:4
Alignment explanation
Indices: 7093794--7093818 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7093784 TATTGTTATT
7093794 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
7093819 AATAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:7094216 original size:54 final size:54
Alignment explanation
Indices: 7094152--7094260 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
7094142 GGATCTTACA
7094152 TAATTTTAAAATTTAATTGATTAATTATAATATAATTATTATAAGTGATATGAT
1 TAATTTTAAAATTTAATTGATTAATTATAATATAATTATTATAAGTGATATGAT
7094206 TAATTTTAAAATTTAATTGATTAATTATAATATAATTATTATAAGTGATATGAT
1 TAATTTTAAAATTTAATTGATTAATTATAATATAATTATTATAAGTGATATGAT
7094260 T
1 T
7094261 TTATAATAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (54 bp):
TAATTTTAAAATTTAATTGATTAATTATAATATAATTATTATAAGTGATATGAT
Found at i:7094265 original size:26 final size:27
Alignment explanation
Indices: 7094182--7094267 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 27
7094172 TTAATTATAA
7094182 TATAATTATTATAAGTGATATGATTAAT
1 TATAATTATTATAAGTGATATGATT-AT
* * * *
7094210 TTTAA-AATT-TAATTGAT-TAATTAT
1 TATAATTATTATAAGTGATATGATTAT
7094234 AATATAATTATTATAAGTGATATGATT-T
1 --TATAATTATTATAAGTGATATGATTAT
7094262 TATAAT
1 TATAAT
7094268 AAACAAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
24 2 0.04
25 4 0.09
26 17 0.38
27 6 0.13
28 12 0.27
29 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (27 bp):
TATAATTATTATAAGTGATATGATTAT
Found at i:7099789 original size:31 final size:31
Alignment explanation
Indices: 7099728--7099792 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
7099718 AGTTTTTCCT
*
7099728 TTTCTAGCCATACATGAATCCACTAGTTTTG
1 TTTCTAGCCATACATGAATCCACTAATTTTG
*
7099759 TTTCT-GCCTATACATGAAT-GAGCTAATTTTG
1 TTTCTAGCC-ATACATGAATCCA-CTAATTTTG
7099790 TTT
1 TTT
7099793 TGTTTCTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (31 bp):
TTTCTAGCCATACATGAATCCACTAATTTTG
Found at i:7108057 original size:16 final size:16
Alignment explanation
Indices: 7108012--7108062 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
7108002 CAAGCAATAT
7108012 TTATTTTAGGA-AAAA
1 TTATTTTAGGAGAAAA
* *
7108027 TT-TTTT-TG-GATAA
1 TTATTTTAGGAGAAAA
7108040 TTATTTTAGGAGAAAA
1 TTATTTTAGGAGAAAA
7108056 TTATTTT
1 TTATTTT
7108063 TATTAAGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 3 0.11
16 11 0.39
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TTATTTTAGGAGAAAA
Found at i:7114490 original size:2 final size:2
Alignment explanation
Indices: 7114483--7114516 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7114473 AATCGAGACT
7114483 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
7114517 GACATGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7116330 original size:18 final size:20
Alignment explanation
Indices: 7116297--7116376 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
7116287 TATGTAAGTC
*
7116297 TATTTTT-TTTTATATTTTA-
1 TATTTTTATTTTAT-TTTCAT
7116316 TATTTTTATTTTATTTTCAT
1 TATTTTTATTTTATTTTCAT
* *
7116336 TTTTTTTATTATTATTGTTTAT
1 TATTTTTATT-TTATT-TTCAT
*
7116358 ATATTTTTTCTTTTATTTT
1 -TA-TTTTTATTTTATTTT
7116377 TATCTAATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 11 0.22
20 15 0.30
21 5 0.10
22 6 0.12
23 6 0.12
24 7 0.14
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.78
Consensus pattern (20 bp):
TATTTTTATTTTATTTTCAT
Found at i:7116340 original size:26 final size:25
Alignment explanation
Indices: 7116297--7116377 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 25
7116287 TATGTAAGTC
* *
7116297 TATTTTTTTTTATATTTTATATTTT
1 TATTTTTTTTCATATTTTATATTAT
* *
7116322 TATTTTATTTTCATTTTTTTTATTAT
1 TATTTT-TTTTCATATTTTATATTAT
* * * *
7116348 TATTGTTTAT-ATATTTTTTCTT-T
1 TATTTTTTTTCATATTTTATATTAT
7116371 TATTTTT
1 TATTTTT
7116378 ATCTAATGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 7 0.15
24 10 0.22
25 9 0.20
26 20 0.43
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (25 bp):
TATTTTTTTTCATATTTTATATTAT
Found at i:7116483 original size:21 final size:23
Alignment explanation
Indices: 7116459--7116505 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
7116449 TTTTCTGTTA
7116459 ATATTTATA-TGTAT-ATTTATC
1 ATATTTATATTGTATAATTTATC
*
7116480 ATA-TTATATTTTATAATTTATC
1 ATATTTATATTGTATAATTTATC
7116502 -TATT
1 ATATT
7116506 ATCTTATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTATATTGTATAATTTATC
Found at i:7116888 original size:15 final size:16
Alignment explanation
Indices: 7116861--7116893 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7116851 TTTTTAGAGA
7116861 TTTTTCTGCAAAATTT
1 TTTTTCTGCAAAATTT
7116877 TTTTTCTG-AAAATTT
1 TTTTTCTGCAAAATTT
7116892 TT
1 TT
7116894 GAAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTTCTGCAAAATTT
Found at i:7117425 original size:4 final size:4
Alignment explanation
Indices: 7117418--7117452 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
7117408 CCAGTTTTTT
7117418 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTA
7117453 TTATTAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:7117497 original size:5 final size:5
Alignment explanation
Indices: 7117480--7117564 Score: 51
Period size: 5 Copynumber: 17.8 Consensus size: 5
7117470 TTTAATATAT
* *
7117480 TTTTA TCTTTA TTTTA TTTTTG TTTTA CTTTT- CTTTA -TTT- TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
*
7117525 TTTT- TTTT- TTATT- TTTTA TTTTG TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
7117565 CTTTAAATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
3 3 0.05
4 17 0.26
5 32 0.49
6 13 0.20
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:7117522 original size:11 final size:10
Alignment explanation
Indices: 7117479--7117564 Score: 68
Period size: 10 Copynumber: 8.4 Consensus size: 10
7117469 ATTTAATATA
7117479 TTTTTATCTTT
1 TTTTTAT-TTT
*
7117490 ATTTTATTTT
1 TTTTTATTTT
*
7117500 TGTTTTACTTT
1 T-TTTTATTTT
*
7117511 TCTTTATTTT
1 TTTTTATTTT
*
7117521 TTTAT-TTTT
1 TTTTTATTTT
7117530 TTTTTATTTT
1 TTTTTATTTT
*
7117540 TTATTT-TGTT
1 TT-TTTATTTT
*
7117550 TTATTATTTT
1 TTTTTATTTT
7117560 ATTTT
1 -TTTT
7117565 CTTTAAATAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
9 10 0.17
10 27 0.47
11 21 0.36
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:7117529 original size:18 final size:17
Alignment explanation
Indices: 7117487--7117569 Score: 78
Period size: 18 Copynumber: 4.8 Consensus size: 17
7117477 TATTTTTATC
* *
7117487 TTTATTTTATTT-TTGT
1 TTTATTTTTTTTATTTT
*
7117503 TTTACTTTTCTTTATTTT
1 TTTA-TTTTTTTTATTTT
*
7117521 TTTATTTTTTTTTTATTT
1 TTTATTTTTTTTAT-TTT
*
7117539 TTTATTTTGTTTTATTAT
1 TTTATTTT-TTTTATTTT
*
7117557 TTTATTTTCTTTA
1 TTTATTTTTTTTA
7117570 AATAAAATCC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.07
17 19 0.34
18 28 0.50
19 5 0.09
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTATTTTTTTTATTTT
Found at i:7117660 original size:60 final size:58
Alignment explanation
Indices: 7117579--7117798 Score: 244
Period size: 60 Copynumber: 3.7 Consensus size: 58
7117569 AAATAAAATC
* * *
7117579 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAACTTTTCTTAAAAATAAATTTT
1 CAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
* *
7117637 CAAAACAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTTTT
1 C-AAA-AAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA--ATTTT
* * ** * ** *
7117699 TAAGAAATGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAGTTTT
1 CAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTT
* * *
7117758 CAAAAAGATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTT
1 CAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
7117799 TCTACACAAA
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
58 30 0.22
59 12 0.09
60 87 0.64
61 2 0.01
62 4 0.03
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (58 bp):
CAAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
Found at i:7117800 original size:120 final size:119
Alignment explanation
Indices: 7117584--7117797 Score: 308
Period size: 120 Copynumber: 1.8 Consensus size: 119
7117574 AAATCCAAAA
* * *
7117584 AAATATTTTTGGGGAAAAGTTGAAAGTATCAACTTTTCTTAAAAATAAATTTTCAAAACAAAAAA
1 AAATATTTTTGAGGAAAAGTTAAAAGTATCAACTTTTCTCAAAAATAAATTTTCAAAACAAAAAA
7117649 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTTTTTAAG
66 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTTTTTAAG
* * * *
7117703 AAATGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC-AAA-AAGA
1 AAAT-ATTTTTGAGGAAAAGTTAAAAGTATCAACTTTTCTCAAAAATAAA-TTTTCAAAACAAAA
* *
7117766 TA-TTTTGGGGAAAAGTTGAAAGTATCAATTTT
64 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
7117798 TTCTACACAA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
118 29 0.35
119 8 0.10
120 42 0.50
121 5 0.06
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (119 bp):
AAATATTTTTGAGGAAAAGTTAAAAGTATCAACTTTTCTCAAAAATAAATTTTCAAAACAAAAAA
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAATTTTTTTTAAG
Found at i:7119976 original size:60 final size:60
Alignment explanation
Indices: 7119878--7119997 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
7119868 CAATAAAAAA
*
7119878 TTGATTAATAAAATTAAAAATTTAATTTTCTATAAACATGTACAGATCATATGACTTTTG
1 TTGATTAAAAAAATTAAAAATTTAATTTTCTATAAACATGTACAGATCATATGACTTTTG
*
7119938 TTGATTAAAAAAATTAAAAATTT-ATCTTTCTATCAACATGTACAGATCATATGACTTTTG
1 TTGATTAAAAAAATTAAAAATTTAAT-TTTCTATAAACATGTACAGATCATATGACTTTTG
7119998 ACAATTACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
59 2 0.04
60 55 0.96
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (60 bp):
TTGATTAAAAAAATTAAAAATTTAATTTTCTATAAACATGTACAGATCATATGACTTTTG
Found at i:7122475 original size:2 final size:2
Alignment explanation
Indices: 7122463--7122503 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
7122453 TTAGGTTTAG
*
7122463 AT AT CT AT AT AT AT AT AT AT -T AT AT AT AT AT -T AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
7122504 CCATACATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7122488 original size:11 final size:11
Alignment explanation
Indices: 7122463--7122503 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
7122453 TTAGGTTTAG
*
7122463 ATATCTATA-T
1 ATATATATATT
7122473 ATATATATATT
1 ATATATATATT
7122484 ATATATATATT
1 ATATATATATT
7122495 ATATCATAT
1 ATAT-ATAT
7122504 CCATACATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 8 0.29
11 16 0.57
12 4 0.14
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (11 bp):
ATATATATATT
Found at i:7126947 original size:15 final size:17
Alignment explanation
Indices: 7126927--7126963 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
7126917 TCTTTTTTTA
7126927 TGTTTT-TATT-AATTT
1 TGTTTTATATTCAATTT
7126942 TGTTTTATATTCAATTT
1 TGTTTTATATTCAATTT
7126959 T-TTTT
1 TGTTTT
7126964 CTTACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 6 0.30
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (17 bp):
TGTTTTATATTCAATTT
Found at i:7130546 original size:2 final size:2
Alignment explanation
Indices: 7130541--7130575 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7130531 CATGTGTGAT
* *
7130541 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7130576 GTGTACATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:7130580 original size:14 final size:14
Alignment explanation
Indices: 7130541--7130580 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7130531 CATGTGTGAT
*
7130541 TATATATATATATA
1 TATATATATGTATA
7130555 TATATATATGTATA
1 TATATATATGTATA
* *
7130569 TTTATATGTGTA
1 TATATATATGTA
7130581 CATGTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
TATATATATGTATA
Found at i:7131231 original size:255 final size:255
Alignment explanation
Indices: 7130780--7131292 Score: 972
Period size: 255 Copynumber: 2.0 Consensus size: 255
7130770 ATAGACTTAA
7130780 AAGAATCATATAAAAAGACTATATAAGAAAATAATCGTTTGCCTTAGACTTTCATGAGGAGCAAT
1 AAGAATCATATAAAAAGACTATATAAGAAAATAATCGTTTGCCTTAGACTTTCATGAGGAGCAAT
7130845 AGATTGCCAACAGCATGGAGTTGACTATTTTGGCAAACAAAAGCTAAACTTAGATTCTATATAAA
66 AGATTGCCAACAGCATGGAGTTGACTATTTTGGCAAACAAAAGCTAAACTTAGATTCTATATAAA
* *
7130910 TAGCAGTCGACTGTCAGCTTAAAGCAATCAATTGCTATATCTAAAAAGTGAGCGAAACTGATTTT
131 TAGCAGTCGACTATCAGCTTAAAGCAATCAATTGCTATATATAAAAAGTGAGCGAAACTGATTTT
7130975 GAACCCTAATGGAATTGACTTTCATTGGATGATATTTTTCTAGGAATTGATCTATGCTAT
196 GAACCCTAATGGAATTGACTTTCATTGGATGATATTTTTCTAGGAATTGATCTATGCTAT
*
7131035 AAGAATCATATAAAAAGACTATATAAGAAAATAATTGTTTGCCTTAGACTTTCATGAGGAGCAAT
1 AAGAATCATATAAAAAGACTATATAAGAAAATAATCGTTTGCCTTAGACTTTCATGAGGAGCAAT
* *
7131100 AGATTGCCAACAGTATGGAGTTGACTATTTTGGCAAACAAAAGCTAAACTTAGATTTTATATAAA
66 AGATTGCCAACAGCATGGAGTTGACTATTTTGGCAAACAAAAGCTAAACTTAGATTCTATATAAA
7131165 TAGCAGTCGACTATCAGCTTAAAGCAATCAATTGCTATATATAAAAAGTGAGCGAAACTGATTTT
131 TAGCAGTCGACTATCAGCTTAAAGCAATCAATTGCTATATATAAAAAGTGAGCGAAACTGATTTT
*
7131230 GAACCCTAATGGAATTGACTTTCGTTGGATGATATTTTTCTAGGAATTGATCTATGCTAT
196 GAACCCTAATGGAATTGACTTTCATTGGATGATATTTTTCTAGGAATTGATCTATGCTAT
7131290 AAG
1 AAG
7131293 TAGTCAACTG
Statistics
Matches: 252, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 252 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (255 bp):
AAGAATCATATAAAAAGACTATATAAGAAAATAATCGTTTGCCTTAGACTTTCATGAGGAGCAAT
AGATTGCCAACAGCATGGAGTTGACTATTTTGGCAAACAAAAGCTAAACTTAGATTCTATATAAA
TAGCAGTCGACTATCAGCTTAAAGCAATCAATTGCTATATATAAAAAGTGAGCGAAACTGATTTT
GAACCCTAATGGAATTGACTTTCATTGGATGATATTTTTCTAGGAATTGATCTATGCTAT
Found at i:7137908 original size:76 final size:76
Alignment explanation
Indices: 7137808--7137957 Score: 255
Period size: 76 Copynumber: 2.0 Consensus size: 76
7137798 TTAATGGTTT
* * *
7137808 CTTATGTTAGTGTAAAGTATAAACAAACAAGACTTCATTGTATCTTGAAAGCGTTTTAATTCACC
1 CTTATATTAGTGTAAAATATAAACAAACAAGACTTCATTATATCTTGAAAGCGTTTTAATTCACC
7137873 TTTTTTACAAA
66 TTTTTTACAAA
* *
7137884 CTTATATTAGTGTAAAATATAAACAAACAAGACTTCATTATATCTTGGAGGCGTTTTAATTCACC
1 CTTATATTAGTGTAAAATATAAACAAACAAGACTTCATTATATCTTGAAAGCGTTTTAATTCACC
7137949 TTTTTTACA
66 TTTTTTACA
7137958 TACTATAACT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (76 bp):
CTTATATTAGTGTAAAATATAAACAAACAAGACTTCATTATATCTTGAAAGCGTTTTAATTCACC
TTTTTTACAAA
Found at i:7138642 original size:23 final size:25
Alignment explanation
Indices: 7138608--7138665 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 25
7138598 TAATATTTAA
7138608 AATT-AAAA-TTAAT-G-AATTTTT
1 AATTAAAAATTTAATAGCAATTTTT
7138629 AATTAAAAATTTAATAGCAATTTTT
1 AATTAAAAATTTAATAGCAATTTTT
*
7138654 --TTAATAATTTAA
1 AATTAAAAATTTAA
7138666 ACCTAAGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 16 0.50
24 1 0.03
25 7 0.22
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (25 bp):
AATTAAAAATTTAATAGCAATTTTT
Found at i:7138714 original size:16 final size:16
Alignment explanation
Indices: 7138688--7138734 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
7138678 TCCAAACTCT
*
7138688 AAATGATTTG-ACTTG
1 AAATAATTTGAACTTG
*
7138703 AACATAATTTGAATTTG
1 AA-ATAATTTGAACTTG
*
7138720 AAATAATTTAAACTT
1 AAATAATTTGAACTT
7138735 ACAAAAAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (16 bp):
AAATAATTTGAACTTG
Found at i:7139060 original size:20 final size:20
Alignment explanation
Indices: 7139031--7139086 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
7139021 ATTGACTTTC
7139031 ATAT-AATATTTTTTGTAAA
1 ATATAAATATTTTTTGTAAA
*
7139050 ATATAAATATTTTTT-AAAA
1 ATATAAATATTTTTTGTAAA
* *
7139069 AAAGTAAATTTTTTTTGT
1 ATA-TAAATATTTTTTGT
7139087 TATTTGGATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
ATATAAATATTTTTTGTAAA
Found at i:7139219 original size:19 final size:19
Alignment explanation
Indices: 7139195--7139253 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 19
7139185 AATTATGTAC
7139195 TATTAAATT-ATATTAAAA
1 TATTAAATTAATATTAAAA
7139213 TTATTAATATTTAATATTAAAA
1 -TATTAA-A-TTAATATTAAAA
*
7139235 TATTATATTAATATTAAAA
1 TATTAAATTAATATTAAAA
7139254 ACACTTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 18 0.50
20 2 0.06
21 7 0.19
22 9 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTAAATTAATATTAAAA
Found at i:7139517 original size:8 final size:8
Alignment explanation
Indices: 7139504--7139558 Score: 53
Period size: 7 Copynumber: 7.1 Consensus size: 8
7139494 CATTAGTCAA
7139504 TAAAATAT
1 TAAAATAT
*
7139512 TAAAATAA
1 TAAAATAT
7139520 TAAAATA-
1 TAAAATAT
*
7139527 TAAATTA-
1 TAAAATAT
*
7139534 AAAAATAT
1 TAAAATAT
7139542 TAAAAATAT
1 T-AAAATAT
7139551 T-AAATAT
1 TAAAATAT
7139558 T
1 T
7139559 CATATTATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
7 18 0.45
8 14 0.35
9 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAAATAT
Found at i:7139521 original size:16 final size:16
Alignment explanation
Indices: 7139502--7139546 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
7139492 TACATTAGTC
7139502 AATAAAATATTAAAAT
1 AATAAAATATTAAAAT
*
7139518 AATAAAATA-TAAATT
1 AATAAAATATTAAAAT
7139533 AA-AAAATATTAAAA
1 AATAAAATATTAAAA
7139547 ATATTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.23
15 11 0.42
16 9 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAATATTAAAAT
Found at i:7139714 original size:25 final size:25
Alignment explanation
Indices: 7139686--7139741 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
7139676 ATTATTTATG
*
7139686 TTTAATAATATAAAAAAT-AGAAAAT
1 TTTAATAAT-TAAAAAATAAAAAAAT
*
7139711 TTTAA-AATTAAAATATCAAAAAAAT
1 TTTAATAATTAAAAAAT-AAAAAAAT
7139736 TTTAAT
1 TTTAAT
7139742 GATAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.27
24 3 0.12
25 16 0.62
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
TTTAATAATTAAAAAATAAAAAAAT
Found at i:7139919 original size:24 final size:24
Alignment explanation
Indices: 7139866--7139927 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
7139856 AGAAAAACTA
7139866 TAAAAATATTTAAAATTAAAATATT
1 TAAAAAT-TTTAAAATTAAAATATT
* *
7139891 AAAAAATTTTAAAAGTT--ATTATT
1 TAAAAATTTTAAAA-TTAAAATATT
*
7139914 TTAAAATTTTAAAA
1 TAAAAATTTTAAAA
7139928 AAATTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 17 0.53
24 7 0.22
25 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAAATTTTAAAATTAAAATATT
Found at i:7139941 original size:23 final size:23
Alignment explanation
Indices: 7139868--7139947 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
7139858 AAAAACTATA
* * *
7139868 AAAATATTTAAAATTAAAATATTAA
1 AAAAT-TTTAAAA-GAAATTATTAT
** *
7139893 AAAATTTTAAAAGTTATTATTTT
1 AAAATTTTAAAAGAAATTATTAT
7139916 AAAATTTTAAAA-AAATTAATTAT
1 AAAATTTTAAAAGAAATT-ATTAT
7139939 AAATATTTT
1 AAA-ATTTT
7139948 TATTAATATA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
22 3 0.07
23 24 0.55
24 12 0.27
25 5 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
AAAATTTTAAAAGAAATTATTAT
Found at i:7140620 original size:26 final size:28
Alignment explanation
Indices: 7140587--7140644 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
7140577 AATTTTTCTA
* *
7140587 TTATTTTAATTT-CAT-AATTTTATTTT
1 TTATTTTAATTTAAATAAATTTAATTTT
7140613 TTATTTTAATTTAAATAAATTTAATTTT
1 TTATTTTAATTTAAATAAATTTAATTTT
7140641 TTAT
1 TTAT
7140645 ATTTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.43
27 2 0.07
28 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (28 bp):
TTATTTTAATTTAAATAAATTTAATTTT
Found at i:7140651 original size:31 final size:29
Alignment explanation
Indices: 7140574--7140651 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 29
7140564 AAAGTTTGAC
*
7140574 TTTAATTTTTCTAT-TATTTTAATTTCATAA
1 TTTAATTTTT-TATAT-TTTTAATTTAATAA
*
7140604 TTTTA-TTTTT-TA-TTTTAATTTAAATAAA
1 TTTAATTTTTTATATTTTTAATTT-AAT-AA
7140632 TTTAATTTTTTATATTTTTA
1 TTTAATTTTTTATATTTTTA
7140652 TTAGAAATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
26 9 0.23
27 3 0.08
28 7 0.18
29 9 0.23
30 6 0.15
31 5 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTAATTTTTTATATTTTTAATTTAATAA
Found at i:7142536 original size:10 final size:10
Alignment explanation
Indices: 7142521--7142550 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7142511 ATTAAACTTT
7142521 TATATTTTAA
1 TATATTTTAA
7142531 TATATTTTAA
1 TATATTTTAA
7142541 T-TATTTTAA
1 TATATTTTAA
7142550 T
1 T
7142551 TGATTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:7142559 original size:9 final size:9
Alignment explanation
Indices: 7142523--7142556 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
7142513 TAAACTTTTA
7142523 TATTTTAAT
1 TATTTTAAT
7142532 ATATTTTAAT
1 -TATTTTAAT
7142542 TATTTTAAT
1 TATTTTAAT
7142551 TGATTT
1 T-ATTT
7142557 AATATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 10 0.43
10 13 0.57
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TATTTTAAT
Found at i:7144970 original size:13 final size:13
Alignment explanation
Indices: 7144952--7144976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7144942 TTGGTATTTT
7144952 TTATTTTATTTAG
1 TTATTTTATTTAG
7144965 TTATTTTATTTA
1 TTATTTTATTTA
7144977 TTTTTAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTTATTTAG
Found at i:7145665 original size:47 final size:47
Alignment explanation
Indices: 7145597--7145698 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 47
7145587 AAACAAAAAC
*
7145597 AAAA-AAAAGAAGAATTTCTAAATAGACCCAAAAGGTGAAAATTTTA
1 AAAATAAAAGAAGAATTTCTAAATAGACCCAAAAGGTGAAAAATTTA
* * *
7145643 AAAATCAAAAGAA-AATTTCTAAATTGGCCCAAATGGTGAAAAATTTA
1 AAAAT-AAAAGAAGAATTTCTAAATAGACCCAAAAGGTGAAAAATTTA
*
7145690 GAAATAAAA
1 AAAATAAAA
7145699 CTTGTAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 8 0.16
47 34 0.69
48 7 0.14
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.23
Consensus pattern (47 bp):
AAAATAAAAGAAGAATTTCTAAATAGACCCAAAAGGTGAAAAATTTA
Found at i:7152061 original size:8 final size:8
Alignment explanation
Indices: 7151981--7152081 Score: 95
Period size: 8 Copynumber: 13.0 Consensus size: 8
7151971 TCAATAATGG
7151981 ATGAAAAA
1 ATGAAAAA
7151989 GATG-AAAA
1 -ATGAAAAA
7151997 A--AAAAA
1 ATGAAAAA
7152003 AT-AAAAA
1 ATGAAAAA
7152010 ATGAAAAAA
1 ATG-AAAAA
7152019 ATGAAAAA
1 ATGAAAAA
*
7152027 GTGAAAAA
1 ATGAAAAA
*
7152035 ATAAAAAA
1 ATGAAAAA
*
7152043 ATG-AGAA
1 ATGAAAAA
*
7152050 ATGAAAAG
1 ATGAAAAA
7152058 ATGAAAAA
1 ATGAAAAA
**
7152066 GCGAAAAA
1 ATGAAAAA
7152074 ATGAAAAA
1 ATGAAAAA
7152082 TAACAAATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
6 5 0.07
7 14 0.19
8 45 0.60
9 11 0.15
ACGTcount: A:0.73, C:0.01, G:0.15, T:0.11
Consensus pattern (8 bp):
ATGAAAAA
Found at i:7153444 original size:43 final size:42
Alignment explanation
Indices: 7153378--7153475 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
7153368 GATTGTTGAA
* *
7153378 GAGCTTTATTTATTTTTCAAAGTCGTTGAA-CCTCTGTTTAGAT
1 GAGCCTTATTTATTTTTCAAAGTCG-T-AAGCCTCTGTTTAGAG
*
7153421 GAGCCTTATTTATTTTTCAAAGTCGTAAGCCTTTGTTTAGAG
1 GAGCCTTATTTATTTTTCAAAGTCGTAAGCCTCTGTTTAGAG
*
7153463 GAGCCATATTTAT
1 GAGCCTTATTTAT
7153476 GGCATATGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.04
42 24 0.48
43 24 0.48
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.44
Consensus pattern (42 bp):
GAGCCTTATTTATTTTTCAAAGTCGTAAGCCTCTGTTTAGAG
Found at i:7155097 original size:17 final size:19
Alignment explanation
Indices: 7155077--7155120 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7155067 TTACTTTAAA
*
7155077 AATAAAAT-TTAAAAT-AT
1 AATAAAATGATAAAATAAT
7155094 AATAAAATGATAAAATAAT
1 AATAAAATGATAAAATAAT
*
7155113 TATAAAAT
1 AATAAAAT
7155121 AATAGTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 6 0.26
19 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATAAAATGATAAAATAAT
Found at i:7155831 original size:17 final size:17
Alignment explanation
Indices: 7155805--7155841 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7155795 CATGTATACA
7155805 TGGAAATTTTTTACAAG
1 TGGAAATTTTTTACAAG
* *
7155822 TGGAATTTTTTTACACG
1 TGGAAATTTTTTACAAG
7155839 TGG
1 TGG
7155842 CATACCAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (17 bp):
TGGAAATTTTTTACAAG
Found at i:7157232 original size:16 final size:16
Alignment explanation
Indices: 7157207--7157244 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7157197 TATTATTAAA
*
7157207 CTAATCAAATTAAATT
1 CTAATTAAATTAAATT
*
7157223 CTAATTAAATTATATT
1 CTAATTAAATTAAATT
7157239 CTAATT
1 CTAATT
7157245 CAAGCGCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (16 bp):
CTAATTAAATTAAATT
Found at i:7157961 original size:193 final size:193
Alignment explanation
Indices: 7157624--7158005 Score: 538
Period size: 193 Copynumber: 2.0 Consensus size: 193
7157614 AAATAATATA
* * * * *
7157624 ATACATTTGTCTCAAAGTTAATAAATTGTCTTTGAAACACATTTTATCTCTTGAAAAAGTTATAA
1 ATACATTTGTCTCAAAGTTAATAAACTATATTTGAAACACATCTTATCTCTTGAAAAAGTAATAA
* * * * *
7157689 TGTGGGACCCCATTAATCAAATTAATATTTCTTCAAATTTTACTTTAAATATTTAAAATACCTTT
66 TATAGGACCCCATTAATCAAATTAATATTTCTTCAAATCTTACTTTAAATATTAAAAATACATTT
** *
7157754 TTTTTTTCTTTTTTGTCCTGTTTTTATTTTT-AATCAATTTTTATCA-CTATTTTTTAAATAG
131 TTTTTTTCTTTTTTGTCCTAATTTTATTTTTAAATCAATTTTCATCAGCTATTTTTTAAATAG
7157815 ATACATTTGTCTCAAAGTTAA-AATACTATATTTGAAACACATCTTATCTTTCTTGAAAAAGTAA
1 ATACATTTGTCTCAAAGTTAATAA-ACTATATTTGAAACACATCTTATC--TCTTGAAAAAGTAA
****
7157879 TAATATAGGATTTGATTAATCAAATTAATATTTCTTCAAATCTTACTTTAAATATTAAAAATACA
63 TAATATAGGACCCCATTAATCAAATTAATATTTCTTCAAATCTTACTTTAAATATTAAAAATACA
*
7157944 TTTTTTTCTTT-TTTTTTGTCCTAATTTTATTTTTAAATCAATTTTCATCAGTTATTTTTTAA
128 TTTTTTT-TTTCTTTTTTGTCCTAATTTTATTTTTAAATCAATTTTCATCAGCTATTTTTTAA
7158006 TAGTTATAAT
Statistics
Matches: 167, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
190 2 0.01
191 41 0.25
193 97 0.58
194 17 0.10
195 10 0.06
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.49
Consensus pattern (193 bp):
ATACATTTGTCTCAAAGTTAATAAACTATATTTGAAACACATCTTATCTCTTGAAAAAGTAATAA
TATAGGACCCCATTAATCAAATTAATATTTCTTCAAATCTTACTTTAAATATTAAAAATACATTT
TTTTTTTCTTTTTTGTCCTAATTTTATTTTTAAATCAATTTTCATCAGCTATTTTTTAAATAG
Found at i:7159076 original size:24 final size:23
Alignment explanation
Indices: 7159030--7159095 Score: 100
Period size: 24 Copynumber: 2.9 Consensus size: 23
7159020 TTCTTTGTTG
*
7159030 CTAAAACAAACGATGGA-G-GAC
1 CTAAAACAAACCATGGAGGAGAC
7159051 CTAAAACAAACCATGGAGGAGAAC
1 CTAAAACAAACCATGGAGGAG-AC
7159075 CTAAAACAAACCATGGAGGAG
1 CTAAAACAAACCATGGAGGAG
7159096 TTTTCACAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 16 0.39
22 1 0.02
23 1 0.02
24 23 0.56
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.09
Consensus pattern (23 bp):
CTAAAACAAACCATGGAGGAGAC
Found at i:7162082 original size:11 final size:11
Alignment explanation
Indices: 7162066--7162097 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7162056 AGTCATTCTC
7162066 TTTTTTTCTTT
1 TTTTTTTCTTT
7162077 TTTTTTTCTTT
1 TTTTTTTCTTT
*
7162088 TTTTGTTCTT
1 TTTTTTTCTT
7162098 ACAACTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:7162221 original size:23 final size:22
Alignment explanation
Indices: 7162195--7162237 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7162185 TATTCGGTTA
7162195 ATATAATAAATAAATATATAATT
1 ATATAATAAATAAATA-ATAATT
* *
7162218 ATATGATAGATAAATAATAA
1 ATATAATAAATAAATAATAA
7162238 ATAACAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
ATATAATAAATAAATAATAATT
Found at i:7163064 original size:13 final size:13
Alignment explanation
Indices: 7163046--7163081 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
7163036 TTTGTTACTG
*
7163046 AAAGCTAATTCTA
1 AAAGCTAATTCCA
7163059 AAAGCTAATTCCA
1 AAAGCTAATTCCA
7163072 AAAGCATAAT
1 AAAGC-TAAT
7163082 ATTTGTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (13 bp):
AAAGCTAATTCCA
Found at i:7167464 original size:2 final size:2
Alignment explanation
Indices: 7167459--7167485 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7167449 TATATGTATA
7167459 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
7167486 CTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7167513 original size:6 final size:6
Alignment explanation
Indices: 7167499--7167562 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
7167489 TATATATAAA
* *
7167499 ACACACC ACACCC ACACCC ACACCC ACACCC ACACCC ACACAC ACACAC
1 ACAC-CC ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC
* *
7167548 ACACAC ACACAC ACA
1 ACACCC ACACCC ACA
7167563 TATATATATT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
6 52 0.93
7 4 0.07
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (6 bp):
ACACCC
Found at i:7167527 original size:18 final size:18
Alignment explanation
Indices: 7167499--7167562 Score: 92
Period size: 18 Copynumber: 3.5 Consensus size: 18
7167489 TATATATAAA
7167499 ACACACCACACCCACACCC
1 ACACA-CACACCCACACCC
*
7167518 ACACCCACACCCACACCC
1 ACACACACACCCACACCC
* *
7167536 ACACACACACACACACAC
1 ACACACACACCCACACCC
7167554 ACACACACA
1 ACACACACA
7167563 TATATATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
18 37 0.90
19 4 0.10
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (18 bp):
ACACACACACCCACACCC
Found at i:7170063 original size:27 final size:28
Alignment explanation
Indices: 7170033--7170089 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
7170023 TTTTAAAATT
7170033 AAAT-AAATAT-AATTAAATTTATATAAA
1 AAATAAAATATCAATTAAA-TTATATAAA
*
7170060 AAATAAAAATATCAATTAAATTATTTAAA
1 AAAT-AAAATATCAATTAAATTATATAAA
7170089 A
1 A
7170090 GCAATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.15
29 15 0.58
30 7 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
AAATAAAATATCAATTAAATTATATAAA
Found at i:7171137 original size:8 final size:8
Alignment explanation
Indices: 7171126--7171154 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
7171116 TTATTACATT
7171126 AATTAATA
1 AATTAATA
7171134 AATTAATA
1 AATTAATA
7171142 AATTAAT-
1 AATTAATA
7171149 AATTAA
1 AATTAA
7171155 AATATCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATTAATA
Found at i:7172911 original size:6 final size:6
Alignment explanation
Indices: 7172893--7172968 Score: 107
Period size: 6 Copynumber: 12.7 Consensus size: 6
7172883 GATTCTGCTA
* * ** *
7172893 CTTCGT CTTCAT CTGCAT CCGCAT CTGCAT CTTCAT CTTCAT CTTCAT
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT
7172941 CTTCAT CTTCAT CTTCAT CTTCAT CTTC
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTC
7172969 CCCTGGTAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.14, C:0.36, G:0.05, T:0.45
Consensus pattern (6 bp):
CTTCAT
Found at i:7173591 original size:14 final size:14
Alignment explanation
Indices: 7173572--7173599 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7173562 AACTAAAATG
7173572 AAAATGAAAAGAAA
1 AAAATGAAAAGAAA
7173586 AAAATGAAAAGAAA
1 AAAATGAAAAGAAA
7173600 GCAACTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAATGAAAAGAAA
Found at i:7178816 original size:3 final size:3
Alignment explanation
Indices: 7178808--7178845 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7178798 GAATTAGAAT
7178808 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7178846 TTGAAAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7179065 original size:22 final size:22
Alignment explanation
Indices: 7179040--7179083 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7179030 ATTTTTTGTC
*
7179040 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
7179062 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
7179084 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:7179112 original size:14 final size:15
Alignment explanation
Indices: 7179071--7179112 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7179061 ACTTAATTCT
*
7179071 AGATATACAAATATA
1 AGATATACAATTATA
7179086 A-ATATACAGATTATA
1 AGATATACA-ATTATA
7179101 AGAT-TACAATTA
1 AGATATACAATTA
7179113 GCTGTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 11 0.46
15 11 0.46
16 2 0.08
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
AGATATACAATTATA
Found at i:7182636 original size:25 final size:25
Alignment explanation
Indices: 7182597--7182659 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
7182587 TAAAATGGCT
*
7182597 ATGAAGGCCTT-AACAGGGTTCGACA
1 ATGAAGG-CTTAAACAAGGTTCGACA
*
7182622 ATGAAGGCTTAAACAAGGTTCGGCA
1 ATGAAGGCTTAAACAAGGTTCGACA
*
7182647 ATGAAGGCCTAAA
1 ATGAAGGCTTAAA
7182660 ATAGAAGTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (25 bp):
ATGAAGGCTTAAACAAGGTTCGACA
Found at i:7182762 original size:25 final size:26
Alignment explanation
Indices: 7182724--7182774 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
7182714 TCTGATACCA
7182724 TGTGAAAAAACTAAGA-AATAAAACTG
1 TGTGAAAAAACTAAGAGAA-AAAACTG
7182750 TGTG-AAAAACTAAGAGAAAAAACTG
1 TGTGAAAAAACTAAGAGAAAAAACTG
7182775 AATGTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.57, C:0.08, G:0.18, T:0.18
Consensus pattern (26 bp):
TGTGAAAAAACTAAGAGAAAAAACTG
Found at i:7182945 original size:22 final size:22
Alignment explanation
Indices: 7182917--7182960 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7182907 ATTTTTTGTC
* *
7182917 CTTAATTCCAGGGATACAAATA
1 CTTAATTACAGAGATACAAATA
*
7182939 CTTAATTATAGAGATACAAATA
1 CTTAATTACAGAGATACAAATA
7182961 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (22 bp):
CTTAATTACAGAGATACAAATA
Found at i:7183022 original size:3 final size:3
Alignment explanation
Indices: 7183014--7183054 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
7183004 TTTTCCCACA
*
7183014 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7183055 ATTTCAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7184447 original size:18 final size:18
Alignment explanation
Indices: 7184424--7184459 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7184414 TTTTATTTCC
* *
7184424 AAAATTAAGAAAATAAAG
1 AAAATTAAAAAAAAAAAG
7184442 AAAATTAAAAAAAAAAAG
1 AAAATTAAAAAAAAAAAG
7184460 GAAGAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
AAAATTAAAAAAAAAAAG
Found at i:7184912 original size:50 final size:50
Alignment explanation
Indices: 7184831--7184936 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 50
7184821 CTTTTCGTAC
**
7184831 AAATCCATTATATAACTATAATTCAGGTATAAAATGTGTAATTAACCTAA
1 AAATCCATTATATAACTATAATTCAAATATAAAATGTGTAATTAACCTAA
* *
7184881 AAATCCATTATATGACTATAATTCAAATATAAAATGTGTAATTAATCTAA
1 AAATCCATTATATAACTATAATTCAAATATAAAATGTGTAATTAACCTAA
7184931 AAATCC
1 AAATCC
7184937 TTCATGAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (50 bp):
AAATCCATTATATAACTATAATTCAAATATAAAATGTGTAATTAACCTAA
Done.