Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 32 of 113
Found at i:10026502 original size:4 final size:4
Alignment explanation
Indices: 10026486--10026527 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
10026476 TCCCCTATTC
10026486 TCTT TCTT T-TT TCTT TCTT TCTCT TC-T TCTT TCTT T-TT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCT-T TCTT TCTT TCTT TCTT TCTT
10026528 CCCACATCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 9 0.26
4 22 0.65
5 3 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:10028033 original size:20 final size:20
Alignment explanation
Indices: 10027987--10028034 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10027977 CTTTCAAAAA
**
10027987 ATATTTTTTGAAAAATATTT
1 ATATTTTTTGAAAAATATAG
10028007 ATATTTTTTGAAAAATTATAG
1 ATATTTTTTGAAAAA-TATAG
10028028 AT-TTTTT
1 ATATTTTT
10028035 ATTATTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
ATATTTTTTGAAAAATATAG
Found at i:10028140 original size:21 final size:20
Alignment explanation
Indices: 10028103--10028142 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10028093 TTTTTCAAAT
*
10028103 AATATTAATATAATTATTAA
1 AATATTAAAATAATTATTAA
*
10028123 AATATTTAAAATATTTATTA
1 AATA-TTAAAATAATTATTA
10028143 TTAAAGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTAAAATAATTATTAA
Found at i:10028147 original size:24 final size:25
Alignment explanation
Indices: 10028115--10028169 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10028105 TATTAATATA
10028115 ATTATTAAAATAT-TTAAAATATTT
1 ATTATTAAAATATATTAAAATATTT
* * *
10028139 ATTATTAAAGTATATTGAATTATTT
1 ATTATTAAAATATATTAAAATATTT
10028164 ATTATT
1 ATTATT
10028170 CTTTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTATTAAAATATATTAAAATATTT
Found at i:10028901 original size:24 final size:25
Alignment explanation
Indices: 10028860--10028907 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
10028850 TTTTGAAAAC
10028860 TTTTATTTGAAAAGATTTTTTTATA
1 TTTTATTTGAAAAGATTTTTTTATA
10028885 TTTTATTT-AAAAGATTTTTTTAT
1 TTTTATTTGAAAAGATTTTTTTAT
10028908 TGAATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
TTTTATTTGAAAAGATTTTTTTATA
Found at i:10028984 original size:6 final size:5
Alignment explanation
Indices: 10028976--10029068 Score: 57
Period size: 5 Copynumber: 17.8 Consensus size: 5
10028966 TTTGTTTTAA
* **
10028976 AAAAT AAAAT CAAAAAT AAAA- ATATAT AAAAAT AAAAT AAGGT AAAAAT
1 AAAAT AAAAT --AAAAT AAAAT A-AAAT -AAAAT AAAAT AAAAT -AAAAT
* *
10029025 AAAAT GAAAT AAAAT AAAAT --CAT AAAAT AAAAAT AAAAT GAAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT -AAAA
10029069 AGGGAAAACC
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
3 2 0.03
4 1 0.01
5 44 0.65
6 15 0.22
7 6 0.09
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10029037 original size:16 final size:15
Alignment explanation
Indices: 10028976--10029061 Score: 70
Period size: 16 Copynumber: 5.5 Consensus size: 15
10028966 TTTGTTTTAA
10028976 AAAATAAAATCAAAAAT
1 AAAAT-AAAT-AAAAAT
*
10028993 AAAAATATATAAAAAT
1 -AAAATAAATAAAAAT
*
10029009 AAAATAAGGTAAAAAT
1 AAAATAA-ATAAAAAT
10029025 AAAATGAAAT-AAAAT
1 AAAAT-AAATAAAAAT
*
10029040 AAAAT-CAT-AAAAT
1 AAAATAAATAAAAAT
10029053 AAAAATAAA
1 -AAAATAAA
10029062 ATGAAAAAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
13 7 0.12
14 5 0.09
15 17 0.29
16 19 0.33
17 5 0.09
18 5 0.09
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:10029923 original size:3 final size:3
Alignment explanation
Indices: 10029897--10029956 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
10029887 GAATGGGAAA
* *
10029897 AAT AAA AAT AA- AA- AAT AA- AAT AAT AAT AAT AAT -AT CAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10029940 -AT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
10029957 GGCATCAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 12 0.25
3 36 0.75
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10030049 original size:3 final size:3
Alignment explanation
Indices: 10029989--10030035 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
10029979 AAGGAAAACA
* * *
10029989 AAT AAT AAT AAT AAT AAT -AT TAT GAT CAT AA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10030035 A
1 A
10030036 GTGACATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:10030424 original size:115 final size:115
Alignment explanation
Indices: 10030210--10030700 Score: 556
Period size: 115 Copynumber: 4.3 Consensus size: 115
10030200 GTCAAATAAA
* * ** * *
10030210 AAATGATCTAGACTAAGCCAAAATCGGGTGACCGAGATAAAATCATA-AGTC-AAATGAAGCAAC
1 AAATGATCTAGACTGAGCCAAGATCAAGTGACCGAAATGAAATCA-AGAGTCAAAATGAAGCAAC
* * * * * * *
10030273 TAGGATCGAGTCGAGGTCAAAAATGATCAAGGCGAAACCATGAATCATAAG
65 CAAGATCGAGTCGAGGTAAAAAATGATCGAGACGAAACCACGAATCATATG
* * * * *
10030324 AAATGATTTGGACTGAGCCAAGATCAAGTGATCGAAATGAAATCACGAGTCAAAATTAAGCAACC
1 AAATGATCTAGACTGAGCCAAGATCAAGTGACCGAAATGAAATCAAGAGTCAAAATGAAGCAACC
* **
10030389 AAGATCGAGTCGAGGTAAAAAACGATCGAGACGAAACCATAAATCATATG
66 AAGATCGAGTCGAGGTAAAAAATGATCGAGACGAAACCACGAATCATATG
* * * * ** **
10030439 AAATAATCTGGACTGAGCCAAGATCAAGTGACCGAGATAAAATCGTGAGTCAAAATGAAGTGACC
1 AAATGATCTAGACTGAGCCAAGATCAAGTGACCGAAATGAAATCAAGAGTCAAAATGAAGCAACC
* * * * * * * *
10030504 AAAATTGAGTTGAGATAAAATATGATCGGGATGAAATCACGAATCATATG
66 AAGATCGAGTCGAGGTAAAAAATGATCGAGACGAAACCACGAATCATATG
* * *
10030554 AAATGATCTAGACTAAGCCAAGATCAAGTGACCGAAATGAAATCAAGAGTCAAAACGAAGTGAA-
1 AAATGATCTAGACTGAGCCAAGATCAAGTGACCGAAATGAAATCAAGAGTCAAAATGAAG-CAAC
* * *
10030618 CAAGATCAAGTCGAGGTCAAAAATGATCGAGACAAAACCACGAATCATATG
65 CAAGATCGAGTCGAGGTAAAAAATGATCGAGACGAAACCACGAATCATATG
10030669 AAATGATCTAGACTGAGCCAAGATCAAGTGAC
1 AAATGATCTAGACTGAGCCAAGATCAAGTGAC
10030701 TGATGTAAGT
Statistics
Matches: 312, Mismatches: 62, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
114 40 0.13
115 271 0.87
116 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.18
Consensus pattern (115 bp):
AAATGATCTAGACTGAGCCAAGATCAAGTGACCGAAATGAAATCAAGAGTCAAAATGAAGCAACC
AAGATCGAGTCGAGGTAAAAAATGATCGAGACGAAACCACGAATCATATG
Found at i:10038292 original size:15 final size:16
Alignment explanation
Indices: 10038272--10038302 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10038262 GGTATCTCAC
10038272 TTTATTTT-TTTTTCT
1 TTTATTTTCTTTTTCT
10038287 TTTATTTTCTTTTTCT
1 TTTATTTTCTTTTTCT
10038303 AGGGCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTATTTTCTTTTTCT
Found at i:10042051 original size:5 final size:5
Alignment explanation
Indices: 10042043--10042087 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
10042033 AAAATATATA
** *
10042043 AAAAT AAAAT AAGGT AAAAAT AAAAT GAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
10042088 ATGAAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 30 0.91
6 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:10042060 original size:16 final size:15
Alignment explanation
Indices: 10042012--10042086 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
10042002 TTTTATTTTA
10042012 AAAAATAAAATCAGAA-
1 AAAAATAAAAT-A-AAT
* *
10042028 AAGAA-AAAATATAT
1 AAAAATAAAATAAAT
*
10042042 AAAAATAAAATAAGGT
1 AAAAATAAAATAA-AT
10042058 AAAAATAAAATGAAAT
1 AAAAATAAAAT-AAAT
10042074 -AAAATAAAATAAA
1 AAAAATAAAATAAA
10042087 AATGAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
13 1 0.02
14 8 0.16
15 21 0.43
16 17 0.35
17 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:10042073 original size:10 final size:10
Alignment explanation
Indices: 10042060--10042093 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10042050 AATAAGGTAA
10042060 AAATAAAATG
1 AAATAAAATG
*
10042070 AAATAAAATA
1 AAATAAAATG
10042080 AAATAAAAATG
1 AAAT-AAAATG
10042091 AAA
1 AAA
10042094 AAACCTGCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (10 bp):
AAATAAAATG
Found at i:10042073 original size:21 final size:21
Alignment explanation
Indices: 10042040--10042093 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
10042030 GAAAAAATAT
* **
10042040 ATAAAAATAAAATAAGGTAAA
1 ATAAAAATGAAATAAAATAAA
10042061 A-ATAAAATGAAATAAAATAAA
1 ATA-AAAATGAAATAAAATAAA
10042082 ATAAAAATGAAA
1 ATAAAAATGAAA
10042094 AAACCTGCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (21 bp):
ATAAAAATGAAATAAAATAAA
Found at i:10042073 original size:26 final size:27
Alignment explanation
Indices: 10042044--10042094 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
10042034 AAATATATAA
**
10042044 AAATAAAATAAGGTAAAAAT-AAAATG
1 AAATAAAATAAAATAAAAATGAAAATG
10042070 AAATAAAATAAAATAAAAATGAAAA
1 AAATAAAATAAAATAAAAATGAAAA
10042095 AACCTGCGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.18
Consensus pattern (27 bp):
AAATAAAATAAAATAAAAATGAAAATG
Found at i:10042089 original size:16 final size:16
Alignment explanation
Indices: 10042013--10042087 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
10042003 TTTATTTTAA
*
10042013 AAAATAAAATCAGAAAAG
1 AAAATAAAAT-A-AAAAT
10042031 AAAA-AATATATAAAAAT
1 AAAATAA-A-ATAAAAAT
**
10042048 AAAATAAGGTAAAAAT
1 AAAATAAAATAAAAAT
*
10042064 AAAATGAAAT-AAAAT
1 AAAATAAAATAAAAAT
10042079 AAAATAAAA
1 AAAATAAAA
10042088 ATGAAAAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 13 0.28
16 14 0.30
17 10 0.21
18 8 0.17
19 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:10042943 original size:3 final size:3
Alignment explanation
Indices: 10042902--10042930 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10042892 GAACGGGAAA
10042902 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10042931 GGCATCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10043006 original size:13 final size:13
Alignment explanation
Indices: 10042990--10043014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10042980 AAGAAAAACA
10042990 AATAATAATAATT
1 AATAATAATAATT
10043003 AATAATAATAAT
1 AATAATAATAAT
10043015 AATGACATTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATAATAATAATT
Found at i:10043403 original size:29 final size:27
Alignment explanation
Indices: 10043337--10043410 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
10043327 TTTAACATTA
*
10043337 ATTATT-AAATAATTAAAATATTATATT
1 ATTATTGAAATAA-TAAAATAATATATT
10043364 ATTA-TGAAAATAATAAAATAATACTATTT
1 ATTATTG-AAATAATAAAATAATA-TA-TT
*
10043393 ATTATTGAAATACTAAAA
1 ATTATTGAAATAATAAAA
10043411 ATATTTATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 1 0.03
27 13 0.32
28 8 0.20
29 16 0.40
30 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (27 bp):
ATTATTGAAATAATAAAATAATATATT
Found at i:10044459 original size:3 final size:3
Alignment explanation
Indices: 10044453--10044478 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10044443 GAAAAAAAAA
10044453 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10044479 AGTAAGAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10061222 original size:29 final size:29
Alignment explanation
Indices: 10061154--10061224 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
10061144 AATTTTATTT
*
10061154 AATTAAAAATGTAATTGAATTGAAATAAA
1 AATTAAAAATTTAATTGAATTGAAATAAA
*
10061183 AATTAAAAATTTAATT-AATTGTAATAAA
1 AATTAAAAATTTAATTGAATTGAAATAAA
10061211 ATATTAAAAATTTA
1 A-ATTAAAAATTTA
10061225 TATAATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 12 0.31
29 27 0.69
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (29 bp):
AATTAAAAATTTAATTGAATTGAAATAAA
Found at i:10068161 original size:14 final size:14
Alignment explanation
Indices: 10068142--10068168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10068132 ATCCGCCATC
10068142 AAAAAATAAAAGAA
1 AAAAAATAAAAGAA
10068156 AAAAAATAAAAGA
1 AAAAAATAAAAGA
10068169 CGAATTCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAATAAAAGAA
Found at i:10071890 original size:11 final size:11
Alignment explanation
Indices: 10071874--10071898 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10071864 GAGATATGCT
10071874 TCAAAAGCCTG
1 TCAAAAGCCTG
10071885 TCAAAAGCCTG
1 TCAAAAGCCTG
10071896 TCA
1 TCA
10071899 GATTACTTAG
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:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (11 bp):
TCAAAAGCCTG
Found at i:10072980 original size:23 final size:23
Alignment explanation
Indices: 10072954--10073001 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10072944 TTATTTGTAG
10072954 ATTGATATGAGTTCT-GAGAGAGA
1 ATTGATATGA-TTCTAGAGAGAGA
* *
10072977 ATTGATTTGATTTTAGAGAGAGA
1 ATTGATATGATTCTAGAGAGAGA
10073000 AT
1 AT
10073002 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (23 bp):
ATTGATATGATTCTAGAGAGAGA
Found at i:10078744 original size:28 final size:28
Alignment explanation
Indices: 10078688--10078761 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
10078678 ATCATGAATG
10078688 AATAT-TAAATTATGATAAAATATTTATAT
1 AATATCTAAATTAT-A-AAAATATTTATAT
*
10078717 AATATCTAAATTTTAAAAAT-TTTAATAT
1 AATATCTAAATTATAAAAATATTT-ATAT
*
10078745 GATATCTAAATTATAAA
1 AATATCTAAATTATAAA
10078762 TTTATTAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
27 3 0.08
28 24 0.60
29 6 0.15
30 7 0.17
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
AATATCTAAATTATAAAAATATTTATAT
Found at i:10093190 original size:31 final size:31
Alignment explanation
Indices: 10093152--10093210 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
10093142 TCTTTGATGC
10093152 ATTACTTAATTTATTGCTTGAATATCAATAT
1 ATTACTTAATTTATTGCTTGAATATCAATAT
10093183 ATTACTTAATTTATTGCTTGAATATCAA
1 ATTACTTAATTTATTGCTTGAATATCAA
10093211 CATTAAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (31 bp):
ATTACTTAATTTATTGCTTGAATATCAATAT
Found at i:10095636 original size:24 final size:24
Alignment explanation
Indices: 10095604--10095651 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10095594 TATCTATTAG
*
10095604 TCAAGTCATAAGAAGGCTGAAGCC
1 TCAAGTCATAAGAAGGCTAAAGCC
10095628 TCAAGTCATAAGAAGGCTAAAGCC
1 TCAAGTCATAAGAAGGCTAAAGCC
10095652 CAATCAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
TCAAGTCATAAGAAGGCTAAAGCC
Found at i:10100177 original size:7 final size:7
Alignment explanation
Indices: 10100162--10100191 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
10100152 TGGCCTTGGT
*
10100162 CCTGGTC
1 CCTGTTC
10100169 CCTGTTC
1 CCTGTTC
10100176 CCTGTTC
1 CCTGTTC
10100183 CCTGTTC
1 CCTGTTC
10100190 CC
1 CC
10100192 ATGCAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.47, G:0.17, T:0.37
Consensus pattern (7 bp):
CCTGTTC
Found at i:10100895 original size:47 final size:47
Alignment explanation
Indices: 10100826--10100919 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
10100816 GACACTCATA
*
10100826 TCAATTGTATGTTCTAACGTTCCGACATTCAAATTAATTGTATGCTT
1 TCAATTGTATGCTCTAACGTTCCGACATTCAAATTAATTGTATGCTT
10100873 TCAATTGTATGCTCTAACGTTCCGACATTCAAATTAATTGTATGCTT
1 TCAATTGTATGCTCTAACGTTCCGACATTCAAATTAATTGTATGCTT
10100920 GAGAAGAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (47 bp):
TCAATTGTATGCTCTAACGTTCCGACATTCAAATTAATTGTATGCTT
Found at i:10101305 original size:20 final size:20
Alignment explanation
Indices: 10101282--10101321 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10101272 ATTAATACGT
10101282 AAATGTGAAATATATTTTTA
1 AAATGTGAAATATATTTTTA
* * *
10101302 AAATTTTAAATTTATTTTTA
1 AAATGTGAAATATATTTTTA
10101322 TTGTTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
AAATGTGAAATATATTTTTA
Found at i:10102592 original size:23 final size:24
Alignment explanation
Indices: 10102566--10102620 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
10102556 TCAAATCATA
10102566 TAATAAAAAATT-ATACAAAAATT
1 TAATAAAAAATTCATACAAAAATT
* * *
10102589 TAATAATAAATTCATATAAAATTT
1 TAATAAAAAATTCATACAAAAATT
10102613 TAATAAAA
1 TAATAAAA
10102621 TTAATACAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
TAATAAAAAATTCATACAAAAATT
Found at i:10102754 original size:22 final size:21
Alignment explanation
Indices: 10102728--10102780 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
10102718 GATTTGAAAA
10102728 TTTAAAATTAAAAATGAGATAT
1 TTTAAAATTAAAAATGA-ATAT
** **
10102750 TTTAATTTTTAAATTTGAATAT
1 TTTAA-AATTAAAAATGAATAT
10102772 TTTAAAATT
1 TTTAAAATT
10102781 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTAAAATTAAAAATGAATAT
Found at i:10102762 original size:23 final size:23
Alignment explanation
Indices: 10102728--10102787 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
10102718 GATTTGAAAA
10102728 TTTAAAA--TTAAAAATGAGATAT
1 TTTAAAATTTTAAAAATGA-ATAT
* **
10102750 TTT-AATTTTTAAATTTGAATAT
1 TTTAAAATTTTAAAAATGAATAT
10102772 TTTAAAATTTTAAAAA
1 TTTAAAATTTTAAAAA
10102788 AATTAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.07
22 10 0.34
23 17 0.59
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
TTTAAAATTTTAAAAATGAATAT
Found at i:10104582 original size:26 final size:27
Alignment explanation
Indices: 10104527--10104583 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
10104517 GTTAGAACTA
*
10104527 AAATTTTTTGAAAATTTATCAACAAGT
1 AAATTTTTTGAAAATTTATCAACAAAT
* *
10104554 AAATTTTATT-AAAA-TTATCTATAAAT
1 AAATTTT-TTGAAAATTTATCAACAAAT
10104580 AAAT
1 AAAT
10104584 GTAACAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 13 0.50
27 11 0.42
28 2 0.08
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATTTTTTGAAAATTTATCAACAAAT
Found at i:10105213 original size:30 final size:30
Alignment explanation
Indices: 10105153--10105214 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
10105143 TATTACATTA
*
10105153 TTTTATAAATATTTTTAATAATATTTCTCT
1 TTTTATAAATATTTTTAAAAATATTTCTCT
*
10105183 TTTTAT-AATTTTTTTATAAAAT-TTTACTCT
1 TTTTATAAATATTTTTA-AAAATATTT-CTCT
10105213 TT
1 TT
10105215 AACTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTATAAATATTTTTAAAAATATTTCTCT
Found at i:10105269 original size:34 final size:34
Alignment explanation
Indices: 10105218--10105296 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
10105208 ACTCTTTAAC
*
10105218 TTTTAAAATTATATTTTCGAGATA-TTTTATGATTT
1 TTTTAAAA-TATATTTTCGAGA-AGTGTTATGATTT
*
10105253 TTTTAAAATATATTTTCGATAAGTGTTATGATTT
1 TTTTAAAATATATTTTCGAGAAGTGTTATGATTT
*
10105287 TTTGAAAATA
1 TTTTAAAATA
10105297 AAATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 31 0.77
35 8 0.20
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (34 bp):
TTTTAAAATATATTTTCGAGAAGTGTTATGATTT
Found at i:10105494 original size:17 final size:17
Alignment explanation
Indices: 10105461--10105512 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
10105451 TTAATACTTA
*
10105461 ATTTTAATTTTTTATTT-
1 ATTTT-ATTTTTAATTTG
*
10105478 ATTTTATATTTTGATTTTG
1 ATTTTAT-TTTT-AATTTG
10105497 ATTTTATTTTTAATTT
1 ATTTTATTTTTAATTT
10105513 TTAATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 2 0.07
17 13 0.45
18 7 0.24
19 7 0.24
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTAATTTG
Found at i:10105534 original size:14 final size:12
Alignment explanation
Indices: 10105461--10105552 Score: 57
Period size: 12 Copynumber: 7.3 Consensus size: 12
10105451 TTAATACTTA
*
10105461 ATTTTAATTTTTT
1 ATTTT-ATTATTT
10105474 A-TTTATT-TTAT
1 ATTTTATTATT-T
*
10105485 ATTTTGATT-TTG
1 ATTTT-ATTATTT
10105497 ATTTTATT-TTT
1 ATTTTATTATTT
10105508 AATTTTTAATTATTT
1 -A-TTTT-ATTATTT
*
10105523 ATTTTATCTTATTG
1 ATTTTA--TTATTT
10105537 ATTTTATTATTT
1 ATTTTATTATTT
10105549 ATTT
1 ATTT
10105553 ATTTGTATTG
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
10 2 0.03
11 10 0.15
12 22 0.33
13 14 0.21
14 15 0.23
15 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (12 bp):
ATTTTATTATTT
Found at i:10105561 original size:14 final size:13
Alignment explanation
Indices: 10105470--10105556 Score: 56
Period size: 13 Copynumber: 6.6 Consensus size: 13
10105460 AATTTTAATT
10105470 TTTTATTTATTTTA
1 TTTTATTTA-TTTA
* *
10105484 TATT-TTGATTTTGA
1 TTTTATTTA-TTT-A
*
10105498 TTTTATTT-TTAA
1 TTTTATTTATTTA
*
10105510 TTTTTAATTATTTA
1 -TTTTATTTATTTA
*
10105524 TTTTATCTTATTGA
1 TTTTAT-TTATTTA
10105538 TTTTA-TTATTTA
1 TTTTATTTATTTA
10105550 -TTTATTT
1 TTTTATTT
10105557 GTATTGAGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
11 4 0.07
12 9 0.16
13 21 0.37
14 21 0.37
15 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:10105563 original size:26 final size:27
Alignment explanation
Indices: 10105461--10105552 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 27
10105451 TTAATACTTA
* *
10105461 ATTTTAATTTTTTA-TTTATTTTA-T-
1 ATTTTAATTATTTATTTTATCTTATTG
* * *
10105485 ATTTTGATT-TTGATTTTAT-TT-TTA
1 ATTTTAATTATTTATTTTATCTTATTG
10105509 ATTTTTAATTATTTATTTTATCTTATTG
1 A-TTTTAATTATTTATTTTATCTTATTG
10105537 ATTTT-ATTATTTATTT
1 ATTTTAATTATTTATTT
10105553 ATTTGTATTG
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
23 6 0.11
24 14 0.25
25 7 0.12
26 20 0.36
27 6 0.11
28 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (27 bp):
ATTTTAATTATTTATTTTATCTTATTG
Found at i:10107520 original size:20 final size:19
Alignment explanation
Indices: 10107487--10107524 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10107477 TTTGATGAAT
*
10107487 TTTGATTTAGGGTTTTAGC
1 TTTGATTTAAGGTTTTAGC
10107506 TTTGAGTTTAAGGTTTTAG
1 TTTGA-TTTAAGGTTTTAG
10107525 AGTTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (19 bp):
TTTGATTTAAGGTTTTAGC
Found at i:10107523 original size:8 final size:8
Alignment explanation
Indices: 10107512--10107662 Score: 52
Period size: 8 Copynumber: 19.2 Consensus size: 8
10107502 TAGCTTTGAG
10107512 TTTAAGGT
1 TTTAAGGT
10107520 TTT-AGAGT
1 TTTAAG-GT
10107528 TTTGAA--T
1 TTT-AAGGT
10107535 TTTAAGGT
1 TTTAAGGT
*
10107543 TTAAAGGT
1 TTTAAGGT
*
10107551 TTTATGG-
1 TTTAAGGT
* *
10107558 TTTGAGAT
1 TTTAAGGT
10107566 ATTTAAGGT
1 -TTTAAGGT
10107575 TTT--GGAT
1 TTTAAGG-T
*
10107582 TTTAGGGT
1 TTTAAGGT
* *
10107590 TTTGAGGA
1 TTTAAGGT
*
10107598 TTT-AGGA
1 TTTAAGGT
10107605 TTTAGAGG-
1 TTTA-AGGT
*
10107613 TTTAGGGT
1 TTTAAGGT
*
10107621 TTATAA-AT
1 TT-TAAGGT
*
10107629 TTTAAGGG
1 TTTAAGGT
*
10107637 TTTAA-AT
1 TTTAAGGT
10107644 TTTAAGGGT
1 TTTAA-GGT
*
10107653 TTTAGGGT
1 TTTAAGGT
10107661 TT
1 TT
10107663 CGATTTTAGG
Statistics
Matches: 106, Mismatches: 20, Indels: 34
0.66 0.12 0.21
Matches are distributed among these distances:
6 4 0.04
7 31 0.29
8 52 0.49
9 18 0.17
10 1 0.01
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.48
Consensus pattern (8 bp):
TTTAAGGT
Found at i:10107618 original size:15 final size:16
Alignment explanation
Indices: 10107582--10107623 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
10107572 GGTTTTGGAT
*
10107582 TTTAGGGTTTTGAGGA
1 TTTAGGGTTTAGAGGA
*
10107598 TTTAGGATTTAGAGG-
1 TTTAGGGTTTAGAGGA
10107613 TTTAGGGTTTA
1 TTTAGGGTTTA
10107624 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (16 bp):
TTTAGGGTTTAGAGGA
Found at i:10107642 original size:15 final size:15
Alignment explanation
Indices: 10107624--10107654 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10107614 TTAGGGTTTA
10107624 TAAATTTTAAGGGTT
1 TAAATTTTAAGGGTT
10107639 TAAATTTTAAGGGTT
1 TAAATTTTAAGGGTT
10107654 T
1 T
10107655 TAGGGTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (15 bp):
TAAATTTTAAGGGTT
Found at i:10108244 original size:21 final size:21
Alignment explanation
Indices: 10108201--10108244 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10108191 TTATTACTTA
*
10108201 TTATTTATTACTTTTTTTGTT
1 TTATTTATTACTTTTTATGTT
*
10108222 TTATTTATTTAGTTTTTAT-TT
1 TTATTTA-TTACTTTTTATGTT
10108243 TT
1 TT
10108245 GTTAATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (21 bp):
TTATTTATTACTTTTTATGTT
Found at i:10108262 original size:104 final size:104
Alignment explanation
Indices: 10108148--10108355 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
10108138 ATTTAATAAG
*
10108148 GTTTGTTTTAAAAATTTTTACAAAATTATCAAAAACCTTAACTTTATTACTTATTATTTATTACT
1 GTTTGTTTTAAAAATTTTTACAAAAATATCAAAAACCTTAACTTTATTACTTATTATTTATTACT
10108213 TTTTTTGTTTTATTTATTTAGTTTTTATTTTTGTTAATT
66 TTTTTTGTTTTATTTATTTAGTTTTTATTTTTGTTAATT
10108252 GTTTGTTTTAAAAATTTTTACAAAAATATCAAAAACCTTAACTTTATTACTTATTATTTATTACT
1 GTTTGTTTTAAAAATTTTTACAAAAATATCAAAAACCTTAACTTTATTACTTATTATTTATTACT
10108317 TTTTTTGTTTTATTTATTTAGTTTTTATTTTTGTTAATT
66 TTTTTTGTTTTATTTATTTAGTTTTTATTTTTGTTAATT
10108356 ATTATTATAA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (104 bp):
GTTTGTTTTAAAAATTTTTACAAAAATATCAAAAACCTTAACTTTATTACTTATTATTTATTACT
TTTTTTGTTTTATTTATTTAGTTTTTATTTTTGTTAATT
Found at i:10108348 original size:21 final size:21
Alignment explanation
Indices: 10108305--10108348 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10108295 TTATTACTTA
*
10108305 TTATTTATTACTTTTTTTGTT
1 TTATTTATTACTTTTTATGTT
*
10108326 TTATTTATTTAGTTTTTAT-TT
1 TTATTTA-TTACTTTTTATGTT
10108347 TT
1 TT
10108349 GTTAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (21 bp):
TTATTTATTACTTTTTATGTT
Found at i:10111159 original size:34 final size:34
Alignment explanation
Indices: 10111121--10111198 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
10111111 TTATTTTTAT
* * *
10111121 AAATATATTTTTAATAAA-TTATAATACTTATCGA
1 AAATATATTTTTAA-AAAGTCATAACACTTATCAA
*
10111155 AAATATACTTTTAAAAAGTCATAACACTTATCAA
1 AAATATATTTTTAAAAAGTCATAACACTTATCAA
10111189 AAATATATTT
1 AAATATATTT
10111199 ATCGAAGTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 3 0.08
34 35 0.92
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (34 bp):
AAATATATTTTTAAAAAGTCATAACACTTATCAA
Found at i:10111949 original size:16 final size:16
Alignment explanation
Indices: 10111913--10111965 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
10111903 TATAGTTTTC
10111913 TTAAAAATA-TAATTT
1 TTAAAAATATTAATTT
** *
10111928 CGAAAAATATTATTTT
1 TTAAAAATATTAATTT
*
10111944 TTAAAAA-ATAAATTT
1 TTAAAAATATTAATTT
10111959 TTAAAAA
1 TTAAAAA
10111966 GTTATAACTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAAAATATTAATTT
Found at i:10129660 original size:5 final size:5
Alignment explanation
Indices: 10129652--10129676 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10129642 TTAATTTAAA
10129652 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
10129677 TAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:10129989 original size:20 final size:20
Alignment explanation
Indices: 10129966--10130009 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10129956 TATTTTTCAT
10129966 AAATAA-AAAAAATTTAGAAA
1 AAATAATAAAAAA-TTAGAAA
*
10129986 AAATAATAAAAAATTAGCAA
1 AAATAATAAAAAATTAGAAA
10130006 AAAT
1 AAAT
10130010 TTTAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (20 bp):
AAATAATAAAAAATTAGAAA
Found at i:10138067 original size:17 final size:18
Alignment explanation
Indices: 10138047--10138080 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10138037 TAGAAAAAAA
10138047 AAAAAAGGAAA-AAAGTG
1 AAAAAAGGAAAGAAAGTG
*
10138064 AAAAATGGAAAGAAAGT
1 AAAAAAGGAAAGAAAGT
10138081 TATTTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.09
Consensus pattern (18 bp):
AAAAAAGGAAAGAAAGTG
Found at i:10139856 original size:20 final size:19
Alignment explanation
Indices: 10139817--10139856 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10139807 CCAAATTTCC
*
10139817 TCTCTCTTTTGGTGCTTCT
1 TCTCTCTTTTGATGCTTCT
*
10139836 TCTCTCTTGTTGATTCTTCT
1 TCTCTCTT-TTGATGCTTCT
10139856 T
1 T
10139857 TAACACCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.03, C:0.25, G:0.12, T:0.60
Consensus pattern (19 bp):
TCTCTCTTTTGATGCTTCT
Found at i:10143535 original size:33 final size:33
Alignment explanation
Indices: 10143498--10143566 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
10143488 TTTATAGCCG
* *
10143498 AAGCTCTTATGCTAATAAAGAAATTTAAAAATT
1 AAGCTCTCATGCTAATAAAGAAATTAAAAAATT
*
10143531 AAGCTCTCATTCTAATAAAGAAATTAAAAAATT
1 AAGCTCTCATGCTAATAAAGAAATTAAAAAATT
10143564 AAG
1 AAG
10143567 ATAATCGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (33 bp):
AAGCTCTCATGCTAATAAAGAAATTAAAAAATT
Found at i:10146952 original size:15 final size:15
Alignment explanation
Indices: 10146934--10146985 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
10146924 ATTAAAAATA
10146934 ATAATTATTATTATT
1 ATAATTATTATTATT
* *
10146949 ATAATTATGATTA-A
1 ATAATTATTATTATT
*
10146963 ATAAATTATTATAATT
1 AT-AATTATTATTATT
10146979 ATAATTA
1 ATAATTA
10146986 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 2 0.07
15 26 0.87
16 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATAATTATTATTATT
Found at i:10146975 original size:24 final size:23
Alignment explanation
Indices: 10146943--10147023 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 23
10146933 AATAATTATT
10146943 ATTATTATAATTATGATTAAATAA
1 ATTATTATAATTAT-ATTAAATAA
10146967 ATTATTATAATTATAATTAAA-AA
1 ATTATTATAATTAT-ATTAAATAA
*
10146990 ATTTAATAATAAATTTATATTAAATAA
1 A-TT-ATTAT-AA-TTATATTAAATAA
10147017 ATT-TTAT
1 ATTATTAT
10147024 TAAAATTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 3 0.06
24 25 0.51
25 4 0.08
26 10 0.20
27 7 0.14
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
ATTATTATAATTATATTAAATAA
Found at i:10147026 original size:14 final size:15
Alignment explanation
Indices: 10146977--10147027 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
10146967 ATTATTATAA
10146977 TTATAATTAAA-AAAT
1 TTAT-ATTAAATAAAT
10146992 TTA-A-T-AATAAAT
1 TTATATTAAATAAAT
10147004 TTATATTAAATAAAT
1 TTATATTAAATAAAT
10147019 TT-TATTAAA
1 TTATATTAAA
10147028 ATTGATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 2 0.06
12 8 0.25
13 2 0.06
14 8 0.25
15 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATTAAATAAAT
Found at i:10147039 original size:27 final size:25
Alignment explanation
Indices: 10146944--10147041 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 25
10146934 ATAATTATTA
*
10146944 TTATTATAATTATGATTAAATAAA--
1 TTATTAAAATTAT-ATTAAATAAATT
*
10146968 TTATTATAATTATAATTAAA-AAATT
1 TTATTAAAATTAT-ATTAAATAAATT
* *
10146993 TAATAATAAATTTATATTAAATAAATT
1 T--TATTAAAATTATATTAAATAAATT
10147020 TTATTAAAATTGATATTTAAAT
1 TTATTAAAATT-ATA-TTAAAT
10147042 TTAATTAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
23 3 0.05
24 19 0.31
25 9 0.15
26 9 0.15
27 21 0.34
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TTATTAAAATTATATTAAATAAATT
Found at i:10147282 original size:21 final size:22
Alignment explanation
Indices: 10147242--10147284 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10147232 TTTAAGTTAA
* *
10147242 TTAAAAAATATTTAATATTGAT
1 TTAAAAAATATTAAAAATTGAT
10147264 TTAAAAAA-ATTAAAAATTGAT
1 TTAAAAAATATTAAAAATTGAT
10147285 CCAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TTAAAAAATATTAAAAATTGAT
Found at i:10150315 original size:4 final size:4
Alignment explanation
Indices: 10150306--10150336 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
10150296 AAATTATATT
10150306 TTTA TTTA TTTA TTTA TTTA TTTA TTATA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT
10150337 CAATAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:10150369 original size:23 final size:23
Alignment explanation
Indices: 10150316--10150373 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
10150306 TTTATTTATT
* *
10150316 TATTTATTTATTTATTATATTCAA
1 TATTTA-TTATTTATAAAATTCAA
*
10150340 TAATTATTATTTATAAAATCTC-A
1 TATTTATTATTTATAAAAT-TCAA
10150363 TATTTA-TATTT
1 TATTTATTATTT
10150374 GTTAAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 5 0.17
23 17 0.59
24 7 0.24
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTATTATTTATAAAATTCAA
Found at i:10151341 original size:3 final size:3
Alignment explanation
Indices: 10151335--10151369 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10151325 TTGTTGTTAA
10151335 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10151370 ATTCTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10151579 original size:35 final size:35
Alignment explanation
Indices: 10151510--10151579 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
10151500 TAATTTTATT
* **
10151510 AAATAAATTTTAGAATTATCCCGATTTTTCAACAA
1 AAATAAATTTTAGAATCATCCAAATTTTTCAACAA
*
10151545 AAATAAATTTTAGGATCATCCAAACTTTTT-AACAA
1 AAATAAATTTTAGAATCATCCAAA-TTTTTCAACAA
10151580 GATCCTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 25 0.83
36 5 0.17
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (35 bp):
AAATAAATTTTAGAATCATCCAAATTTTTCAACAA
Found at i:10158574 original size:29 final size:30
Alignment explanation
Indices: 10158514--10158570 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
10158504 TGCTGAGTTT
* *
10158514 TTTCCCAAACTAAGATTTCTTGTAATCTTA
1 TTTCCCAAACTAAGATTACTTGTAAACTTA
*
10158544 TTTCCCAAACT-AGA-TACTTTTAAACTT
1 TTTCCCAAACTAAGATTACTTGTAAACTT
10158571 TATTCCTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.42
29 3 0.12
30 11 0.46
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTCCCAAACTAAGATTACTTGTAAACTTA
Found at i:10160344 original size:24 final size:27
Alignment explanation
Indices: 10160296--10160348 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 27
10160286 TTTTATTCAA
*
10160296 ATTTTATTTTGAATAAATATAATTATT
1 ATTTTAATTTGAATAAATATAATTATT
10160323 ATTTTAATTT-AA-AAA-ATAATTATT
1 ATTTTAATTTGAATAAATATAATTATT
10160347 AT
1 AT
10160349 CTTCTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 11 0.44
25 3 0.12
26 2 0.08
27 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTAATTTGAATAAATATAATTATT
Found at i:10160526 original size:27 final size:27
Alignment explanation
Indices: 10160496--10160554 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
10160486 TAATTATTTA
10160496 TTAATTTTA-TAAATATCAAATTATAAT
1 TTAATTTTATTAAATAT-AAATTATAAT
* * *
10160523 TTAAATTTATTATATATAAATTTTAAT
1 TTAATTTTATTAAATATAAATTATAAT
10160550 TTAAT
1 TTAAT
10160555 ATCTTTAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATTTTATTAAATATAAATTATAAT
Found at i:10160700 original size:21 final size:20
Alignment explanation
Indices: 10160638--10160700 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
10160628 ATCTCATCAT
* *
10160638 TAATTTTAATCTCATAATTA
1 TAATATTAATCTCATATTTA
* *
10160658 TAATATTAAATTTTAT-TATTA
1 TAATATT-AATCTCATAT-TTA
10160679 TAATAATTAATCTCATATTTA
1 TAAT-ATTAATCTCATATTTA
10160700 T
1 T
10160701 TATTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 6 0.18
21 23 0.70
22 4 0.12
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATATTAATCTCATATTTA
Found at i:10162278 original size:12 final size:11
Alignment explanation
Indices: 10162252--10162283 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
10162242 ATTTTATTTT
10162252 TATATTTT-AA
1 TATATTTTAAA
10162262 TAT-TTTTAAA
1 TATATTTTAAA
10162272 TATATTTTAAA
1 TATATTTTAAA
10162283 T
1 T
10162284 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.20
10 8 0.40
11 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTTTAAA
Found at i:10172564 original size:39 final size:39
Alignment explanation
Indices: 10172510--10172585 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
10172500 TTAGATATCG
10172510 CCATCCACAAGAAGGAACAAACTAAATTGTGAAACTACA
1 CCATCCACAAGAAGGAACAAACTAAATTGTGAAACTACA
*
10172549 CCATCCACAAGAAGGAACAACCTAAATTGTGAAACTA
1 CCATCCACAAGAAGGAACAAACTAAATTGTGAAACTA
10172586 ATCCTAGCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (39 bp):
CCATCCACAAGAAGGAACAAACTAAATTGTGAAACTACA
Found at i:10173734 original size:15 final size:17
Alignment explanation
Indices: 10173714--10173749 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
10173704 TTTAAATTAT
10173714 ATAATTTTGA-AAA-AA
1 ATAATTTTGACAAATAA
10173729 ATAATTTTGACAAATAA
1 ATAATTTTGACAAATAA
10173746 ATAA
1 ATAA
10173750 ATATCTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 3 0.16
17 6 0.32
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
ATAATTTTGACAAATAA
Found at i:10174513 original size:22 final size:21
Alignment explanation
Indices: 10174488--10174528 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10174478 TAAAATATAA
*
10174488 AATAAGTATAATTTAAATTTTT
1 AATAAGTAT-ATATAAATTTTT
*
10174510 AATAATTATATATAAATTT
1 AATAAGTATATATAAATTT
10174529 AATAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATAAGTATATATAAATTTTT
Found at i:10174593 original size:31 final size:31
Alignment explanation
Indices: 10174517--10174653 Score: 99
Period size: 32 Copynumber: 4.4 Consensus size: 31
10174507 TTTAATAATT
10174517 ATATATAAA-TTTA-ATAAAAT-TAA-A-AA
1 ATATATAAATTTTATATAAAATATAATATAA
*
10174543 ATATATTATATATTTT-TATATCAATATAAGTA-ATA
1 ATATA-TA-A-ATTTTATATA-AAATATAA-TATA-A
*
10174578 ATATATAACTTTTATATAAAATATAATATAA
1 ATATATAAATTTTATATAAAATATAATATAA
*** *
10174609 ATATATAAATTTTAATATTTTATATAATATGA
1 ATATATAAATTTT-ATATAAAATATAATATAA
*
10174641 ATATATATATTTT
1 ATATATAAATTTT
10174654 TTATGAATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
26 5 0.06
27 2 0.02
28 1 0.01
29 1 0.01
30 6 0.07
31 18 0.20
32 41 0.46
33 5 0.06
34 4 0.04
35 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
ATATATAAATTTTATATAAAATATAATATAA
Found at i:10176591 original size:2 final size:2
Alignment explanation
Indices: 10176584--10176620 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10176574 ATAGATAGAT
10176584 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10176621 CCTTTTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10179081 original size:14 final size:14
Alignment explanation
Indices: 10179062--10179107 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
10179052 TAGACTCAGT
*
10179062 TTATTTTGCAAAAA
1 TTATTTTGAAAAAA
*
10179076 TTATTTTTAAAAAA
1 TTATTTTGAAAAAA
*
10179090 TT-TTTTTAAAAAA
1 TTATTTTGAAAAAA
10179103 -TATTT
1 TTATTT
10179108 ATTTTTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 1 0.03
13 14 0.48
14 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (14 bp):
TTATTTTGAAAAAA
Found at i:10179095 original size:13 final size:14
Alignment explanation
Indices: 10179071--10179107 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
10179061 TTTATTTTGC
10179071 AAAAATTATTTTTA
1 AAAAATTATTTTTA
10179085 AAAAATT-TTTTTA
1 AAAAATTATTTTTA
10179098 AAAAA-TATTT
1 AAAAATTATTT
10179108 ATTTTTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 14 0.64
14 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAAATTATTTTTA
Found at i:10179229 original size:24 final size:24
Alignment explanation
Indices: 10179216--10179300 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
10179206 GTAATTATTA
*
10179216 TTATTATTAAAATATTAAAAATAT
1 TTATTATTAAAATAGTAAAAATAT
10179240 TTATTATTAAAATA-TATTAAAATTAT
1 TTATTATTAAAATAGTA--AAAA-TAT
* *
10179266 TTATTATTAAATATATTAAAATTAT
1 TTATTATTAAA-ATAGTAAAAATAT
10179291 TTA-TATTAAA
1 TTATTATTAAA
10179301 TTATTAATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
23 2 0.04
24 21 0.38
25 10 0.18
26 17 0.31
27 3 0.05
28 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATTATTAAAATAGTAAAAATAT
Found at i:10179273 original size:16 final size:15
Alignment explanation
Indices: 10179228--10179282 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 15
10179218 ATTATTAAAA
10179228 TATTAAAAATATTTAT
1 TATT-AAAATATTTAT
10179244 TATTAAAATA--TAT
1 TATTAAAATATTTAT
*
10179257 TA--AAATTATTTAT
1 TATTAAAATATTTAT
10179270 TATTAAATATATT
1 TATTAAA-ATATT
10179283 AAAATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
11 5 0.16
13 10 0.31
15 9 0.28
16 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTAAAATATTTAT
Found at i:10179277 original size:25 final size:25
Alignment explanation
Indices: 10179212--10179307 Score: 146
Period size: 25 Copynumber: 4.0 Consensus size: 25
10179202 AATAGTAATT
10179212 ATTA-TTATTATTAAA-ATATTAAA
1 ATTATTTATTATTAAATATATTAAA
*
10179235 AATATTTATTATTAAAATATATTAAA
1 ATTATTTATTATT-AAATATATTAAA
10179261 ATTATTTATTATTAAATATATTAAA
1 ATTATTTATTATTAAATATATTAAA
10179286 ATTATTTA-TATTAAAT-TATTAA
1 ATTATTTATTATTAAATATATTAA
10179308 TATTGAAAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
23 9 0.13
24 16 0.24
25 23 0.34
26 20 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTATTTATTATTAAATATATTAAA
Found at i:10179291 original size:9 final size:9
Alignment explanation
Indices: 10179208--10179291 Score: 63
Period size: 9 Copynumber: 9.8 Consensus size: 9
10179198 AAATAATAGT
*
10179208 AATTATTAT
1 AATTATTAA
*
10179217 TATTATTAA
1 AATTATTAA
10179226 AA-TATTAA
1 AATTATTAA
*
10179234 AAATATT--
1 AATTATTAA
*
10179241 TATTATTAA
1 AATTATTAA
10179250 AATATATTAA
1 AAT-TATTAA
10179260 AATTATT--
1 AATTATTAA
*
10179267 TATTATT-A
1 AATTATTAA
10179275 AATATATTAA
1 AAT-TATTAA
10179285 AATTATT
1 AATTATT
10179292 TATATTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.18
8 10 0.17
9 26 0.43
10 13 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATTATTAA
Found at i:10179439 original size:15 final size:15
Alignment explanation
Indices: 10179417--10179731 Score: 112
Period size: 15 Copynumber: 21.0 Consensus size: 15
10179407 TTTGTCAATA
10179417 TATT-ATATAATATT
1 TATTAATATAATATT
**
10179431 TATTAATATGTTTATT
1 TATTAATAT-AATATT
*
10179447 T-TTATATATATTATT
1 TATTA-ATATAATATT
10179462 TATTAATATATTATATAT
1 TATTAATATA--ATAT-T
** *
10179480 TATTTTTCAATATTATT
1 TATTAAT--ATAATATT
*
10179497 TATTAATATATTATAT
1 TATTAATATAATAT-T
* * *
10179513 TAATAGTATATTATT
1 TATTAATATAATATT
10179528 TATT-ATAATAATA-T
1 TATTAAT-ATAATATT
10179542 TATTAAT-TAATA--
1 TATTAATATAATATT
10179554 TATT-ATA-ATATATT
1 TATTAATATA-ATATT
*
10179568 TACTAATAGTATATTATT
1 TATTAATA-TA-A-TATT
**
10179586 TATTAATATTTTA-T
1 TATTAATATAATATT
* *
10179600 T-TTAATATATTA-A
1 TATTAATATAATATT
10179613 TA-TAATAT--TATT
1 TATTAATATAATATT
10179625 TATTAATATTAATA--
1 TATTAATA-TAATATT
*
10179639 TATTATTATAATA-T
1 TATTAATATAATATT
*
10179653 TATTTACA-ATAATATG
1 TA-TTA-ATATAATATT
* *
10179669 TATTAAAATATTATT
1 TATTAATATAATATT
*
10179684 TATTAATATATTATAT
1 TATTAATATAATAT-T
* *
10179700 AATATAATATTATTTATT
1 TAT-TAATA-TA-ATATT
10179718 TA-TAATATAATATT
1 TATTAATATAATATT
10179732 ATTTATAAGT
Statistics
Matches: 236, Mismatches: 30, Indels: 70
0.70 0.09 0.21
Matches are distributed among these distances:
11 5 0.02
12 9 0.04
13 32 0.14
14 30 0.13
15 74 0.31
16 37 0.16
17 18 0.08
18 24 0.10
19 4 0.02
20 3 0.01
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (15 bp):
TATTAATATAATATT
Found at i:10179446 original size:53 final size:54
Alignment explanation
Indices: 10179388--10179514 Score: 150
Period size: 53 Copynumber: 2.4 Consensus size: 54
10179378 AATAAAACTT
* * * *
10179388 TTTATTATTCTTTATATTATTTGTCAATATATTATATAATATTTATT-AATA-TG
1 TTTATTATTATATATATTATTTATCAATATATTATATAATATTT-TTCAATATTA
* * *
10179441 TTTATTTTTATATATATTATTTATTAATATATTATATATTATTTTTCAATATTA
1 TTTATTATTATATATATTATTTATCAATATATTATATAATATTTTTCAATATTA
*
10179495 TTTATTAATATATTATATTA
1 TTTATTATTATA-TATATTA
10179515 ATAGTATATT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.03
53 42 0.68
54 11 0.18
55 7 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (54 bp):
TTTATTATTATATATATTATTTATCAATATATTATATAATATTTTTCAATATTA
Found at i:10179531 original size:18 final size:17
Alignment explanation
Indices: 10179420--10179737 Score: 162
Period size: 18 Copynumber: 18.8 Consensus size: 17
10179410 GTCAATATAT
*
10179420 TATATAATATTTATTAA
1 TATATATTATTTATTAA
*
10179437 TATGT-TTATTT-TT-A
1 TATATATTATTTATTAA
10179451 TATATATTATTTATTAA
1 TATATATTATTTATTAA
**
10179468 TATAT-TATATATTATTTT
1 TATATAT-TAT-TTATTAA
10179486 TCA-ATATTATTTATT-A
1 T-ATATATTATTTATTAA
10179502 -ATATATTA--TATTAA
1 TATATATTATTTATTAA
10179516 TAGTATATTATTTATT-A
1 TA-TATATTATTTATTAA
*
10179533 TAATAATATTATTAATTAATA
1 T-AT-ATATTATTTATT-A-A
*
10179554 TATTATAATATATTTACTAA
1 TA-TAT-AT-TATTTATTAA
10179574 TAGTATATTATTTATTAA
1 TA-TATATTATTTATTAA
* *
10179592 TATTTTATTTTAATATATTAA
1 TA---TATATT-ATTTATTAA
10179613 TATAATATTATTTATTAA
1 TAT-ATATTATTTATTAA
*
10179631 TAT-TAATATATTATT-A
1 TATATATTAT-TTATTAA
*
10179647 TA-ATATTATTTA--CA
1 TATATATTATTTATTAA
*
10179661 -ATA-A-TATGTATTAA
1 TATATATTATTTATTAA
10179675 -A-ATATTATTTATT-A
1 TATATATTATTTATTAA
*
10179689 -ATATATTATATAATATAA
1 TATATATTAT-TTAT-TAA
10179707 TAT-TATTTATTTA-TAA
1 TATATA-TTATTTATTAA
10179723 TATAATATTATTTAT
1 TAT-ATATTATTTAT
10179738 AAGTAAAATT
Statistics
Matches: 236, Mismatches: 23, Indels: 83
0.69 0.07 0.24
Matches are distributed among these distances:
12 5 0.02
13 7 0.03
14 14 0.06
15 32 0.14
16 37 0.16
17 34 0.14
18 57 0.24
19 14 0.06
20 14 0.06
21 16 0.07
22 6 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TATATATTATTTATTAA
Found at i:10179717 original size:89 final size:85
Alignment explanation
Indices: 10179554--10179713 Score: 143
Period size: 85 Copynumber: 1.9 Consensus size: 85
10179544 TTAATTAATA
* *
10179554 TATTATAATATATT-TACTAATAGTATATTATTTATTAATAT-TT-TATTTTAATATATTAATAT
1 TATTATAATATATTAT-CTAATA--ATATTATTTATTAATATATTATATATTAATATATTTATAT
*
10179616 AATATTAT-TTATTAATATTAATA
63 AATATAATATTATTAATA-TAATA
* * * * * * *
10179639 TATTATTATAATATTAT-TTACAATAATATGTATTAAAATATTATTTATTAATATA-TTATATAA
1 TATTATAAT-ATATTATCTAATAATATTATTTATTAATATATTATATATTAATATATTTATATAA
10179702 TATAATATTATT
65 TATAATATTATT
10179714 TATTTATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
83 14 0.23
84 14 0.23
85 26 0.43
86 5 0.08
87 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (85 bp):
TATTATAATATATTATCTAATAATATTATTTATTAATATATTATATATTAATATATTTATATAAT
ATAATATTATTAATATAATA
Found at i:10179723 original size:21 final size:22
Alignment explanation
Indices: 10179488--10179737 Score: 93
Period size: 21 Copynumber: 11.5 Consensus size: 22
10179478 ATTATTTTTC
10179488 AATATTATTTATTAATATATTATATT
1 AATATTATTTATT-ATATA--ATA-T
* *
10179514 AATAGTATATTATT-TATTATAAT
1 AATATTAT-TTATTATATAAT-AT
* *
10179537 AATATTATTAATTAATATATTAT
1 AATATTATTTATT-ATATAATAT
* *
10179560 AATA-TATTTACTA-AT-A-GT
1 AATATTATTTATTATATAATAT
*
10179578 -ATATTATTTATTA-AT-ATTT
1 AATATTATTTATTATATAATAT
* * *
10179597 TATTTTAATATATTAATATAATAT
1 AATATT-ATTTATT-ATATAATAT
* *
10179621 TAT-TTA-TTAATAT-TAATAT
1 AATATTATTTATTATATAATAT
* * *
10179640 ATTATTATAATATTAT-T--TAC
1 AATATTAT-TTATTATATAATAT
* *
10179660 AATAATATGTATTA-A-AATATT
1 AATATTATTTATTATATAATA-T
* *
10179681 ATTTATTAATATATTATATAATAT
1 A-ATATT-ATTTATTATATAATAT
10179705 AATATTATTTATT-TATAATAT
1 AATATTATTTATTATATAATAT
10179726 AATATTATTTAT
1 AATATTATTTAT
10179738 AAGTAAAATT
Statistics
Matches: 171, Mismatches: 31, Indels: 49
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.02
18 12 0.07
19 13 0.08
20 21 0.12
21 31 0.18
22 27 0.16
23 31 0.18
24 14 0.08
25 7 0.04
26 7 0.04
27 5 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (22 bp):
AATATTATTTATTATATAATAT
Found at i:10179731 original size:89 final size:86
Alignment explanation
Indices: 10179465--10179739 Score: 225
Period size: 89 Copynumber: 3.2 Consensus size: 86
10179455 TATTATTTAT
* * * * *
10179465 TAATATATTAT-ATATTATTTTTCAATATTATTTATTAATATATTATATTAATAGTATATTATTT
1 TAATATATTATAATATTA-TTTACAATAATA-TTATTAAAATATTAT-TTATTA-TATATTATAT
* *
10179529 ATTATAATAATA-TTA--T-TAAT-
62 AATATAATATTATTTATTTATAATA
* *
10179549 TAATATATTATAATA-TATTTACTAATAGTATATTATTTATTAATA-T-TTTATT-T-TAATATA
1 TAATATATTATAATATTATTTAC-AATA--ATATTA-TTA-AAATATTATTTATTATATATTATA
10179609 TTAATATAATATTATTTATTAATATTAATA
61 -TAATATAATATTATTTATT--TA-TAATA
10179639 T-AT-TATTATAATATTATTTACAATAATATGTATTAAAATATTATTTATTAATATATTATATAA
1 TAATATATTATAATATTATTTACAATAATAT-TATTAAAATATTATTTATT-ATATATTATATAA
10179702 TATAATATTATTTATTTATAATA
64 TATAATATTATTTATTTATAATA
10179725 TAATATTATTTATAA
1 TAATA-TA-TTATAA
10179740 GTAAAATTAT
Statistics
Matches: 154, Mismatches: 11, Indels: 46
0.73 0.05 0.22
Matches are distributed among these distances:
81 5 0.03
82 12 0.08
83 7 0.05
84 21 0.14
85 11 0.07
86 20 0.13
87 16 0.10
88 14 0.09
89 35 0.23
90 13 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (86 bp):
TAATATATTATAATATTATTTACAATAATATTATTAAAATATTATTTATTATATATTATATAATA
TAATATTATTTATTTATAATA
Found at i:10180895 original size:36 final size:38
Alignment explanation
Indices: 10180814--10180898 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 38
10180804 AAATATTAAT
*
10180814 ATATTATTATTTTAATATATATAATAATCAATAATATT
1 ATATTATTATTTTAATATATATAATAATCAATAATATA
* * ** *
10180852 ATTTTATTATTTTAATA-A-GTAATGTTTAATAATATA
1 ATATTATTATTTTAATATATATAATAATCAATAATATA
10180888 ATATTATTATT
1 ATATTATTATT
10180899 ATTTTCTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 23 0.57
37 1 0.03
38 16 0.40
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (38 bp):
ATATTATTATTTTAATATATATAATAATCAATAATATA
Found at i:10180923 original size:43 final size:42
Alignment explanation
Indices: 10180835--10180927 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
10180825 TTAATATATA
*
10180835 TAATAATCAATAATATTATTTTATTATTTTAATAAGTAATGTT
1 TAATAAT-AATAATATTATTTTATTATTTTAATAAATAATGTT
10180878 TAATAAT-ATAATATTATTATTATT-TTCTTAATATGAATAAT-TT
1 TAATAATAATAATATTATT-TTATTATT-TTAATA--AATAATGTT
10180921 TAATAAT
1 TAATAAT
10180928 TTTTTTTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
41 13 0.29
42 11 0.24
43 16 0.36
44 5 0.11
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (42 bp):
TAATAATAATAATATTATTTTATTATTTTAATAAATAATGTT
Found at i:10180938 original size:18 final size:19
Alignment explanation
Indices: 10180917--10180955 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
10180907 AATATGAATA
10180917 ATTTTAATAAT-T-TTTTTT
1 ATTTTAA-AATATATTTTTT
10180935 ATTTTAAAATATATTTTTT
1 ATTTTAAAATATATTTTTT
10180954 AT
1 AT
10180956 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAAAATATATTTTTT
Found at i:10180952 original size:21 final size:20
Alignment explanation
Indices: 10180922--10180960 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10180912 GAATAATTTT
*
10180922 AATAATTTTTTTTATTTTAA
1 AATAATTTTTTATATTTTAA
10180942 AATATATTTTTTATATTTT
1 AATA-ATTTTTTATATTTT
10180961 TATTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
AATAATTTTTTATATTTTAA
Found at i:10181069 original size:21 final size:21
Alignment explanation
Indices: 10181045--10181108 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
10181035 AGATACTTTC
10181045 AATATAAAATATAAATATTTT
1 AATATAAAATATAAATATTTT
*
10181066 -A-AT--AGTATAAATATTTT
1 AATATAAAATATAAATATTTT
* *
10181083 AATA-ATAAATATTACTATTTT
1 AATATA-AAATATAAATATTTT
10181104 AATAT
1 AATAT
10181109 TAATAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
17 13 0.39
18 1 0.03
19 3 0.09
20 1 0.03
21 15 0.45
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AATATAAAATATAAATATTTT
Found at i:10181076 original size:17 final size:16
Alignment explanation
Indices: 10181053--10181095 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
10181043 TCAATATAAA
10181053 ATATAAATATTTTAAT
1 ATATAAATATTTTAAT
10181069 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
10181086 A-ATAAATATT
1 ATATAAATATT
10181096 ACTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:10181113 original size:44 final size:44
Alignment explanation
Indices: 10181075--10181162 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
10181065 TAATAGTATA
* *
10181075 AATATTTTAATAATAAATATTACTATT-TTAATATTAATAAAAAT
1 AATATTTTAAGAAT-AATATTACTATTCTAAATATTAATAAAAAT
* *
10181119 AATATTTTAAGAATAGTATTACTATTCTAAATATT-TTAAAAAT
1 AATATTTTAAGAATAATATTACTATTCTAAATATTAATAAAAAT
10181162 A
1 A
10181163 TAATATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
43 19 0.49
44 20 0.51
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (44 bp):
AATATTTTAAGAATAATATTACTATTCTAAATATTAATAAAAAT
Found at i:10183585 original size:52 final size:52
Alignment explanation
Indices: 10183496--10183597 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
10183486 AGCCATACAT
* *
10183496 ACTTATCTATTAAGAATCCCTTTCCTCTTAAAGTTCTTCTTTTGCAAGTCAA
1 ACTTATCTATTAAGAATCCATTTCCTCTTAAAGTTCTTCTTTTACAAGTCAA
* * *
10183548 ACTTATCTATTAAGAATCTATTTTCTTTTAGAA-TTCTTCTTTTACAAGTC
1 ACTTATCTATTAAGAATCCATTTCCTCTTA-AAGTTCTTCTTTTACAAGTC
10183598 TTCTTATTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 42 0.95
53 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (52 bp):
ACTTATCTATTAAGAATCCATTTCCTCTTAAAGTTCTTCTTTTACAAGTCAA
Found at i:10186633 original size:21 final size:22
Alignment explanation
Indices: 10186584--10186633 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
10186574 ATATTGATTT
* *
10186584 AATTT-ATTAAAATTAATATTA
1 AATTTAATTAAAAATAATAATA
*
10186605 AATATAATTAAAAAT-ATAATA
1 AATTTAATTAAAAATAATAATA
10186626 AATTTAAT
1 AATTTAAT
10186634 CGTATCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAATTAAAAATAATAATA
Found at i:10187145 original size:2 final size:2
Alignment explanation
Indices: 10187138--10187165 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10187128 TTCTCATCTC
10187138 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
10187166 CTATCCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10188959 original size:22 final size:21
Alignment explanation
Indices: 10188929--10188973 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
10188919 TTACTCGGTC
* *
10188929 AAACATCATTTATTAATAAAT
1 AAACATCATATAATAATAAAT
*
10188950 AAACAATCATATAATAATTAAT
1 AAAC-ATCATATAATAATAAAT
10188972 AA
1 AA
10188974 TTATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
AAACATCATATAATAATAAAT
Found at i:10189242 original size:2 final size:2
Alignment explanation
Indices: 10189237--10189290 Score: 71
Period size: 2 Copynumber: 28.5 Consensus size: 2
10189227 AGAGAGAGGA
10189237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
10189279 -T AT -T A- AT AT AT A
1 AT AT AT AT AT AT AT A
10189291 AATTTTATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.09
2 41 0.87
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10189396 original size:20 final size:19
Alignment explanation
Indices: 10189326--10189399 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
10189316 TATAATGATA
10189326 ATTTATTAAT-AAATAAAT
1 ATTTATTAATAAAATAAAT
* **
10189344 ATTAATTTTTAAAATAAAT
1 ATTTATTAATAAAATAAAT
* **
10189363 ATATAAAAATTAAAATAAATT
1 ATTTATTAA-TAAAATAAA-T
10189384 ATTTATTAATAAAATA
1 ATTTATTAATAAAATA
10189400 TTATTATTTG
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
18 7 0.17
19 11 0.27
20 16 0.39
21 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTATTAATAAAATAAAT
Found at i:10189437 original size:17 final size:16
Alignment explanation
Indices: 10189376--10189438 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 16
10189366 TAAAAATTAA
10189376 AATAAATTAT-TTATT
1 AATAAATTATATTATT
10189391 AATAAA--ATATTATT
1 AATAAATTATATTATT
* * * *
10189405 ATTTGATTTATTTTATT
1 A-ATAAATTATATTATT
10189422 AATAAATTATCATTATT
1 AATAAATTAT-ATTATT
10189439 TAATTCATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
13 2 0.06
14 6 0.17
15 8 0.23
16 6 0.17
17 13 0.37
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
AATAAATTATATTATT
Found at i:10189439 original size:26 final size:28
Alignment explanation
Indices: 10189410--10189461 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
10189400 TTATTATTTG
* *
10189410 ATTTATTTTATTAATAA-AT-TATCATT
1 ATTTAATTCATTAATAATATATATCATT
10189436 ATTTAATTCATTAATAATATATATCA
1 ATTTAATTCATTAATAATATATATCA
10189462 AATATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 2 0.09
28 5 0.23
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTAATTCATTAATAATATATATCATT
Found at i:10198898 original size:26 final size:26
Alignment explanation
Indices: 10198841--10198893 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10198831 AAAATTTTAA
*
10198841 TAAAAAAACCAAAATTCTAAAAATTC
1 TAAAAAAACCAAAATTATAAAAATTC
*
10198867 TAAAAAAATCATAAATATATAAAAATT
1 TAAAAAAACCA-AAAT-TATAAAAATT
10198894 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 4 0.17
28 9 0.39
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAAAAAACCAAAATTATAAAAATTC
Found at i:10199149 original size:28 final size:26
Alignment explanation
Indices: 10199112--10199163 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
10199102 TTCTATTTTT
**
10199112 TTTTAATTTTATAATTTTTTAAAAACA
1 TTTTAATTTTA-AAAATTTTAAAAACA
10199139 TTTTAATTTTTAAAAATTTTAAAAA
1 TTTTAA-TTTTAAAAATTTTAAAAA
10199164 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTAATTTTAAAAATTTTAAAAACA
Found at i:10199636 original size:9 final size:10
Alignment explanation
Indices: 10199611--10199636 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10199601 CGTTTAGGTA
10199611 AATTTTTTAG
1 AATTTTTTAG
10199621 AATTTTTTAG
1 AATTTTTTAG
10199631 AATTTT
1 AATTTT
10199637 ACAGATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:10200868 original size:15 final size:15
Alignment explanation
Indices: 10200850--10200882 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10200840 AAAAAAATTC
10200850 AGATTAATTTTGTAA
1 AGATTAATTTTGTAA
10200865 AGATTAATTTTGTAA
1 AGATTAATTTTGTAA
10200880 AGA
1 AGA
10200883 AAATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (15 bp):
AGATTAATTTTGTAA
Found at i:10201900 original size:2 final size:2
Alignment explanation
Indices: 10201877--10201920 Score: 52
Period size: 2 Copynumber: 21.0 Consensus size: 2
10201867 AGGAATGATC
* *
10201877 AT AT CAT AT AT CAT AT AC AT AT AT CT 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
10201921 TAAAAAGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 32 0.89
3 4 0.11
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10202051 original size:20 final size:20
Alignment explanation
Indices: 10201979--10202056 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
10201969 ATTTTAAAAT
*
10201979 TTTAAATTA-ATAAATTTATC
1 TTTAAATTATATAAATTTA-A
* *
10201999 TTTAAA-TATATAATTTTGA
1 TTTAAATTATATAAATTTAA
* *
10202018 -TTAATTTATTTAAATTTAA
1 TTTAAATTATATAAATTTAA
* *
10202037 TTTAAATAATATAAAATTAA
1 TTTAAATTATATAAATTTAA
10202057 AAAATGAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 4 0.09
19 12 0.27
20 28 0.64
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
TTTAAATTATATAAATTTAA
Found at i:10206158 original size:44 final size:44
Alignment explanation
Indices: 10206109--10206200 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
10206099 TTTAATCAGT
* *
10206109 ATAACTTAGTAGCAAATTAGTGATAACTTAATAGTAAATAAATG
1 ATAACTTAGTAGCAAATAAGTGATAACTTAATAGTAAATAAATA
** * ** *
10206153 ATAACTTAGTAGTTAATAATTGATAACTTTTTAGTAAATCAATA
1 ATAACTTAGTAGCAAATAAGTGATAACTTAATAGTAAATAAATA
10206197 ATAA
1 ATAA
10206201 TACAAAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (44 bp):
ATAACTTAGTAGCAAATAAGTGATAACTTAATAGTAAATAAATA
Found at i:10206187 original size:22 final size:22
Alignment explanation
Indices: 10206109--10206200 Score: 85
Period size: 22 Copynumber: 4.2 Consensus size: 22
10206099 TTTAATCAGT
* * * *
10206109 ATAACTTAGTAGCAAATTAGTG
1 ATAACTTAATAGTAAATAAATG
10206131 ATAACTTAATAGTAAATAAATG
1 ATAACTTAATAGTAAATAAATG
* * *
10206153 ATAACTTAGTAGTTAATAATTG
1 ATAACTTAATAGTAAATAAATG
** * *
10206175 ATAACTTTTTAGTAAATCAATA
1 ATAACTTAATAGTAAATAAATG
10206197 ATAA
1 ATAA
10206201 TACAAAATAA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAAATG
Found at i:10206395 original size:22 final size:22
Alignment explanation
Indices: 10206349--10206402 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
10206339 CAATGGTAAC
10206349 TTAATAGTAAATTAGTGATAAT
1 TTAATAGTAAATTAGTGATAAT
* ** *
10206371 TTAGTAGTAAATTAGTTTTAGT
1 TTAATAGTAAATTAGTGATAAT
10206393 TTAATAGTAA
1 TTAATAGTAA
10206403 TTAATTGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (22 bp):
TTAATAGTAAATTAGTGATAAT
Found at i:10206550 original size:39 final size:42
Alignment explanation
Indices: 10206477--10206573 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 42
10206467 ACTTAAAAGA
* *
10206477 AAATCAGT-ATAACTTAATAGTAAATCATCGATAA-TAGT-T
1 AAATCAGTAATAACTTAATAGCAAATCATCGATAATTAATAT
10206516 AAAT-AGTAATAACTTAATAGCAAATCAT-GCATAATTTAATAT
1 AAATCAGTAATAACTTAATAGCAAATCATCG-ATAA-TTAATAT
*
10206558 AAATGAGTAATAACTT
1 AAATCAGTAATAACTT
10206574 GGTAGTGAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
38 4 0.08
39 27 0.54
41 3 0.06
42 5 0.10
43 11 0.22
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (42 bp):
AAATCAGTAATAACTTAATAGCAAATCATCGATAATTAATAT
Found at i:10206648 original size:44 final size:45
Alignment explanation
Indices: 10206620--10206716 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
10206610 GATAATTTTG
*
10206620 TAATAAATA-ATTAAAAAT-TAAGTAGTAAATCAATGATAATATAA
1 TAATAAATACATAAAAAATATAA-TAGTAAATCAATGATAATATAA
* * * *
10206664 TATTAAATACATAAAAAATATAATAGTAAATCATTAATAATTTAA
1 TAATAAATACATAAAAAATATAATAGTAAATCAATGATAATATAA
10206709 TAATAAAT
1 TAATAAAT
10206717 TGATAACTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 8 0.18
45 34 0.76
46 3 0.07
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (45 bp):
TAATAAATACATAAAAAATATAATAGTAAATCAATGATAATATAA
Found at i:10206715 original size:22 final size:22
Alignment explanation
Indices: 10206611--10206716 Score: 70
Period size: 22 Copynumber: 4.8 Consensus size: 22
10206601 TAAATGGATG
** *
10206611 ATAATTTTGTAATAAATAATTA
1 ATAATTTAATAATAAATCATTA
* * * *
10206633 A-AAATTAAGTAGTAAATCAATG
1 ATAATTTAA-TAATAAATCATTA
* * *
10206655 ATAATATAATATTAAATACATAA
1 ATAATTTAATAATAAAT-CATTA
* * *
10206678 AAAATATAATAGTAAATCATTA
1 ATAATTTAATAATAAATCATTA
10206700 ATAATTTAATAATAAAT
1 ATAATTTAATAATAAAT
10206717 TGATAACTTA
Statistics
Matches: 62, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.06
22 36 0.58
23 22 0.35
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAATTTAATAATAAATCATTA
Found at i:10206743 original size:41 final size:43
Alignment explanation
Indices: 10206640--10206799 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 43
10206630 TTAAAAATTA
* * * * * * *
10206640 AGTAGTAAATCAATGATAATATAATATTAAATACATAAAAAATAT
1 AGTAGTAAATCATTAATAATTTAATAATAAAT-TATAATAACT-T
* *
10206685 AATAGTAAATCATTAATAATTTAATAATAAA-T-TGATAACTT
1 AGTAGTAAATCATTAATAATTTAATAATAAATTATAATAACTT
* * *
10206726 AGTAGTAATTCATTAATAATGTT-GTAGTAAATTACTAATAACTT
1 AGTAGTAAATCATTAATAAT-TTAATAATAAATTA-TAATAACTT
* * *
10206770 AGTCGTAAATCAGTGATAATTTAATAATAA
1 AGTAGTAAATCATTAATAATTTAATAATAA
10206800 CTCGGTTAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
41 25 0.28
42 8 0.09
43 2 0.02
44 29 0.32
45 26 0.29
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (43 bp):
AGTAGTAAATCATTAATAATTTAATAATAAATTATAATAACTT
Found at i:10206744 original size:22 final size:21
Alignment explanation
Indices: 10206719--10206777 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
10206709 TAATAAATTG
*
10206719 ATAACTTAGTAGTAATTCATTA
1 ATAACTTAGTAGTAATT-ACTA
*
10206741 ATAA-TGTTGTAGTAAATTACTA
1 ATAACT-TAGTAGT-AATTACTA
*
10206763 ATAACTTAGTCGTAA
1 ATAACTTAGTAGTAA
10206778 ATCAGTGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 22 0.73
23 5 0.17
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (21 bp):
ATAACTTAGTAGTAATTACTA
Found at i:10206884 original size:22 final size:23
Alignment explanation
Indices: 10206830--10206910 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 23
10206820 TATTAGTAAA
**
10206830 TTAGTAGTAAATCATTTATAACT
1 TTAGTAGTAAATCATCAATAACT
* *
10206853 TTA-TAATAAATTATCAATAAC-
1 TTAGTAGTAAATCATCAATAACT
* *
10206874 TTAGTAGTAAATCA-CAAAAAAT
1 TTAGTAGTAAATCATCAATAACT
* *
10206896 TTAATGGTAAATCAT
1 TTAGTAGTAAATCAT
10206911 TCATAGCTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 8 0.18
22 34 0.76
23 3 0.07
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (23 bp):
TTAGTAGTAAATCATCAATAACT
Found at i:10206975 original size:22 final size:22
Alignment explanation
Indices: 10206945--10207008 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
10206935 CGATTAGTAA
* *
10206945 TAAAATATTGATAATTTAATAG
1 TAAATTATTGATAACTTAATAG
* *
10206967 TAAATTATTAATAACTTAGTAG
1 TAAATTATTGATAACTTAATAG
* *
10206989 TAAATAACTGATAACTTAAT
1 TAAATTATTGATAACTTAAT
10207009 TGTCAATCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAATTATTGATAACTTAATAG
Found at i:10207303 original size:21 final size:21
Alignment explanation
Indices: 10207270--10207346 Score: 55
Period size: 22 Copynumber: 3.6 Consensus size: 21
10207260 ATATATTAGT
* *
10207270 AAATCAATAATAGGTTAATAA
1 AAATAAATAATAGCTTAATAA
* *
10207291 AAATAAATGATAGCTTAATAGT
1 AAATAAATAATAGCTTAATA-A
* * * * *
10207313 TAATAATTGATAACTTGATAA
1 AAATAAATAATAGCTTAATAA
10207334 TAAATAAATAATA
1 -AAATAAATAATA
10207347 ACGTAATAGT
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
21 17 0.40
22 25 0.60
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (21 bp):
AAATAAATAATAGCTTAATAA
Found at i:10207341 original size:44 final size:44
Alignment explanation
Indices: 10207284--10207382 Score: 137
Period size: 44 Copynumber: 2.3 Consensus size: 44
10207274 CAATAATAGG
* * * *
10207284 TTAATAA-AAATAAATGATAGCTTAATAGTTAATAATTGATAAC
1 TTAATAATAAATAAATAATAACGTAATAGTAAATAATTGATAAC
* *
10207327 TTGATAATAAATAAATAATAACGTAATAGTAAATTATTGATAAC
1 TTAATAATAAATAAATAATAACGTAATAGTAAATAATTGATAAC
10207371 TTAATAATAAAT
1 TTAATAATAAAT
10207383 TAGTTTCAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 6 0.12
44 42 0.88
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (44 bp):
TTAATAATAAATAAATAATAACGTAATAGTAAATAATTGATAAC
Found at i:10207384 original size:22 final size:22
Alignment explanation
Indices: 10207284--10207382 Score: 101
Period size: 22 Copynumber: 4.5 Consensus size: 22
10207274 CAATAATAGG
*
10207284 TTAATAA-AAATAAATGATAGC
1 TTAATAATAAATAAATGATAAC
* * *
10207305 TTAATAGTTAATAATTGATAAC
1 TTAATAATAAATAAATGATAAC
* *
10207327 TTGATAATAAATAAATAATAAC
1 TTAATAATAAATAAATGATAAC
* * * *
10207349 GTAATAGTAAATTATTGATAAC
1 TTAATAATAAATAAATGATAAC
10207371 TTAATAATAAAT
1 TTAATAATAAAT
10207383 TAGTTTCAGT
Statistics
Matches: 60, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
21 6 0.10
22 54 0.90
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (22 bp):
TTAATAATAAATAAATGATAAC
Done.