Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 123 of 130
Found at i:24561225 original size:17 final size:17
Alignment explanation
Indices: 24561205--24561257 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
24561195 TTAAATTAAA
24561205 ATTTGAATTTTACAAAT
1 ATTTGAATTTTACAAAT
* ** *
24561222 ATTTTAATTGAATTAAA-
1 ATTTGAATTTTA-CAAAT
24561239 ATTTGAATTTTACAAAT
1 ATTTGAATTTTACAAAT
24561256 AT
1 AT
24561258 GTTTTAAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTGAATTTTACAAAT
Found at i:24561230 original size:34 final size:34
Alignment explanation
Indices: 24561191--24561257 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
24561181 AATAAATCAA
24561191 TTAATTAAATTAAAATTTGAATTTTACAAATATT
1 TTAATTAAATTAAAATTTGAATTTTACAAATATT
*
24561225 TTAATTGAATTAAAATTTGAATTTTACAAATAT
1 TTAATTAAATTAAAATTTGAATTTTACAAATAT
24561258 GTTTTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (34 bp):
TTAATTAAATTAAAATTTGAATTTTACAAATATT
Found at i:24564083 original size:32 final size:32
Alignment explanation
Indices: 24564047--24564107 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
24564037 TTTTTTTTTG
24564047 ATTAAATGTTTAATTTAGAA-TTAAATATTAAA
1 ATTAAATGTTTAATTTA-AATTTAAATATTAAA
*
24564079 ATTAATTGTTTAATTTAAATTTAAATATT
1 ATTAAATGTTTAATTTAAATTTAAATATT
24564108 TAATTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
ATTAAATGTTTAATTTAAATTTAAATATTAAA
Found at i:24564102 original size:19 final size:19
Alignment explanation
Indices: 24564074--24564113 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24564064 GAATTAAATA
* *
24564074 TTAAAATTAATTGTTTAAT
1 TTAAAATTAAATATTTAAT
*
24564093 TTAAATTTAAATATTTAAT
1 TTAAAATTAAATATTTAAT
24564112 TT
1 TT
24564114 TATATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAAAATTAAATATTTAAT
Found at i:24566174 original size:16 final size:16
Alignment explanation
Indices: 24566149--24566214 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
24566139 AATTTATTAA
*
24566149 ATTAATTATAAATATT
1 ATTAACTATAAATATT
24566165 ATTAACTATAAATAAGAAATT
1 ATTAACTATAAAT-----ATT
24566186 -TTATAC-ATAAATATT
1 ATTA-ACTATAAATATT
24566201 ATTAACTATAAATA
1 ATTAACTATAAATA
24566215 AAAATTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 16
0.71 0.02 0.28
Matches are distributed among these distances:
15 5 0.12
16 22 0.54
20 9 0.22
21 5 0.12
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTAACTATAAATATT
Found at i:24567157 original size:18 final size:18
Alignment explanation
Indices: 24567136--24567170 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24567126 GATTATAATT
24567136 ATTTATAATTAATAAATA
1 ATTTATAATTAATAAATA
* *
24567154 ATTTATCATTTATAAAT
1 ATTTATAATTAATAAAT
24567171 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTATAATTAATAAATA
Found at i:24567183 original size:26 final size:28
Alignment explanation
Indices: 24567131--24567198 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 28
24567121 AATTTGATTA
* *
24567131 TAATTATTTAT-AATT-AATAAATAATT
1 TAATCATTTATAAATTAAAAAAATAATT
24567157 T-ATCATTTATAAATTAAAAAAAT-ATT
1 TAATCATTTATAAATTAAAAAAATAATT
*
24567183 TAATCATAT-TAAATTA
1 TAATCATTTATAAATTA
24567199 TTATTGTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 8 0.22
26 16 0.44
27 12 0.33
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TAATCATTTATAAATTAAAAAAATAATT
Found at i:24571778 original size:17 final size:17
Alignment explanation
Indices: 24571758--24571806 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
24571748 GTCAAAAACC
24571758 AAGTAAAAAAAAAAGAA
1 AAGTAAAAAAAAAAGAA
24571775 AAGT--AAAAAAAAGCAA
1 AAGTAAAAAAAAAAG-AA
24571791 AGAG-AAAAAAAAAAGA
1 A-AGTAAAAAAAAAAGA
24571807 GAGTTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 9 0.32
16 3 0.11
17 7 0.25
18 9 0.32
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (17 bp):
AAGTAAAAAAAAAAGAA
Found at i:24571782 original size:15 final size:16
Alignment explanation
Indices: 24571764--24571802 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
24571754 AACCAAGTAA
24571764 AAAAAAAAG-AAA-AG
1 AAAAAAAAGCAAAGAG
24571778 TAAAAAAAAGCAAAGAG
1 -AAAAAAAAGCAAAGAG
24571795 AAAAAAAA
1 AAAAAAAA
24571803 AAGAGAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGCAAAGAG
Found at i:24571809 original size:15 final size:16
Alignment explanation
Indices: 24571759--24571810 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
24571749 TCAAAAACCA
*
24571759 AGTAAAAAAAAAAGAAA
1 AGTAAAAAAAAAAG-AG
24571776 AGTAAAAAAAAGCAA-AG
1 AGTAAAAAAAA--AAGAG
24571793 AG-AAAAAAAAAAGAG
1 AGTAAAAAAAAAAGAG
24571808 AGT
1 AGT
24571811 TAATTAAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.07
15 4 0.13
16 8 0.27
17 14 0.47
19 2 0.07
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (16 bp):
AGTAAAAAAAAAAGAG
Found at i:24576890 original size:23 final size:23
Alignment explanation
Indices: 24576845--24576899 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
24576835 GATTGTTATC
* *
24576845 TATTTCTTCTATATTGTTGTGAT
1 TATTGCTTCTATATTGTTATGAT
*
24576868 TATTGCTTCTGTATTGTTATGAT
1 TATTGCTTCTATATTGTTATGAT
24576891 TATTGCTTC
1 TATTGCTTC
24576900 AGGCGTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.58
Consensus pattern (23 bp):
TATTGCTTCTATATTGTTATGAT
Found at i:24580496 original size:18 final size:19
Alignment explanation
Indices: 24580459--24580503 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24580449 AAAACCAAGT
*
24580459 AAAAAAAGTAAAAAGTAAA
1 AAAAAAAGCAAAAAGTAAA
*
24580478 AAAAAAAGCAAAGAG-AAA
1 AAAAAAAGCAAAAAGTAAA
*
24580496 AAGAAAAG
1 AAAAAAAG
24580504 AGAGAGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAAAAAGCAAAAAGTAAA
Found at i:24588784 original size:15 final size:15
Alignment explanation
Indices: 24588766--24588796 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24588756 TAGTTATGAT
*
24588766 TTTAATTTTTTAAAA
1 TTTAATTATTTAAAA
24588781 TTTAATTATTTAAAA
1 TTTAATTATTTAAAA
24588796 T
1 T
24588797 ATAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATTATTTAAAA
Found at i:24588988 original size:13 final size:13
Alignment explanation
Indices: 24588964--24588988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24588954 TTAAAATATG
24588964 ATATAAAAATAAT
1 ATATAAAAATAAT
24588977 ATATAAAAATAA
1 ATATAAAAATAA
24588989 GAAGATTTGA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATATAAAAATAAT
Found at i:24589074 original size:30 final size:32
Alignment explanation
Indices: 24589054--24589147 Score: 93
Period size: 36 Copynumber: 2.8 Consensus size: 32
24589044 TATATTTTAT
*
24589054 ATTTTTATAT-TAATATAAATTATAATATGTA
1 ATTTTTATATAAAATATAAATTATAATATGTA
* *
24589085 ATTTTTATATAAAATATAATATAAATATATAAATTTA
1 ATTTTTATATAAAATATAA-AT---TATA-ATATGTA
24589122 ATTTTT-TATAAAATATAAATATATAA
1 ATTTTTATATAAAATATAAAT-TATAA
24589148 ATCGTCGTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
31 10 0.19
32 8 0.15
33 7 0.13
35 2 0.04
36 16 0.30
37 11 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (32 bp):
ATTTTTATATAAAATATAAATTATAATATGTA
Found at i:24589108 original size:37 final size:36
Alignment explanation
Indices: 24589064--24589144 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 36
24589054 ATTTTTATAT
24589064 TAATATAAAT-TATAATATGTAATTTTTATATAAAATA
1 TAATATAAATATATAA-ATGTAATTTTT-TATAAAATA
*
24589101 TAATATAAATATATAAATTTAATTTTTTATAAAATA
1 TAATATAAATATATAAATGTAATTTTTTATAAAATA
24589137 TAAATATA
1 T-AATATA
24589145 TAAATCGTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 10 0.24
37 26 0.63
38 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (36 bp):
TAATATAAATATATAAATGTAATTTTTTATAAAATA
Found at i:24593835 original size:18 final size:17
Alignment explanation
Indices: 24593792--24593837 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
24593782 TATAGTATTA
24593792 ATTTTAAA-TTAAATTT
1 ATTTTAAATTTAAATTT
24593808 ATTTTAAAATTTAAAATTT
1 ATTTT-AAATTT-AAATTT
24593827 -TATTTAAATTT
1 AT-TTTAAATTT
24593838 GATTAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.19
17 3 0.12
18 9 0.35
19 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:24593874 original size:40 final size:40
Alignment explanation
Indices: 24593799--24593874 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
24593789 TTAATTTTAA
*
24593799 ATTAAATTTATTTTAAAATTTAAAATTTTATTTAAATTTG
1 ATTAAATTTATTTTAAAATTTAAAATTTTAATTAAATTTG
*
24593839 ATTAAATTTGATTTTTTAAATTT-AAA-TTTAATTAAA
1 ATTAAATTT-A-TTTTAAAATTTAAAATTTTAATTAAA
24593875 GATAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 18 0.56
41 4 0.12
42 10 0.31
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (40 bp):
ATTAAATTTATTTTAAAATTTAAAATTTTAATTAAATTTG
Found at i:24594550 original size:13 final size:13
Alignment explanation
Indices: 24594514--24594552 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
24594504 AATTTTTGAG
24594514 TTATAAAATATTTT
1 TTATAAAATA-TTT
24594528 TTAATAAAATATTT
1 TT-ATAAAATATTT
*
24594542 TTATTAAATAT
1 TTATAAAATAT
24594553 CATTTAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 8 0.35
14 7 0.30
15 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATAAAATATTT
Found at i:24594833 original size:20 final size:19
Alignment explanation
Indices: 24594774--24594841 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
24594764 GAAACCCACG
*
24594774 ATATAAAAATAAATTTAATA
1 ATATAAAAAT-AATATAATA
* * *
24594794 ATTTTAAATATGATATAATA
1 A-TATAAAAATAATATAATA
24594814 ATATAAAAATAATAT-A-A
1 ATATAAAAATAATATAATA
24594831 ATA-AAAAATAA
1 ATATAAAAATAA
24594842 AAATATTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
16 8 0.20
17 4 0.10
18 1 0.03
19 11 0.28
20 9 0.22
21 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (19 bp):
ATATAAAAATAATATAATA
Found at i:24595387 original size:22 final size:22
Alignment explanation
Indices: 24595361--24595412 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
24595351 AATATAAATG
*
24595361 AAATATAATTTA-AAATTTTAAT
1 AAATATAATATATAAA-TTTAAT
*
24595383 AAATATTATATATAAATTTAAT
1 AAATATAATATATAAATTTAAT
*
24595405 AAAAATAA
1 AAATATAA
24595413 AAATATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATATAATATATAAATTTAAT
Found at i:24597049 original size:3 final size:3
Alignment explanation
Indices: 24597035--24597091 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
24597025 TCACGTGGCA
*
24597035 AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24597083 AAT AAT AAT
1 AAT AAT AAT
24597092 GTAAGTTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24612888 original size:83 final size:83
Alignment explanation
Indices: 24612749--24612902 Score: 272
Period size: 83 Copynumber: 1.9 Consensus size: 83
24612739 GTTCGTGGGT
*
24612749 ACATGCTACTCGAGATACGGGACCTTGCACCAGGACTACCTCGAATGATGCTATATAAACTAATA
1 ACATGCTACTCGAGATACGGGACCTTGCACCAGGACTACCTCAAATGATGCTATATAAACTAATA
24612814 ATATATAACATGGCATCC
66 ATATATAACATGGCATCC
* *
24612832 ACATGCTACTCGAGATACTGGACCTTGTACCAGGACTACCTCAAATGATGCTATATAAACTAATA
1 ACATGCTACTCGAGATACGGGACCTTGCACCAGGACTACCTCAAATGATGCTATATAAACTAATA
*
24612897 TTATAT
66 ATATAT
24612903 CACCACTTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (83 bp):
ACATGCTACTCGAGATACGGGACCTTGCACCAGGACTACCTCAAATGATGCTATATAAACTAATA
ATATATAACATGGCATCC
Found at i:24622047 original size:15 final size:15
Alignment explanation
Indices: 24622029--24622058 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24622019 TTTATAATTT
24622029 AAATATTACATTAAA
1 AAATATTACATTAAA
*
24622044 AAATATTATATTAAA
1 AAATATTACATTAAA
24622059 TATTTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATTACATTAAA
Found at i:24623478 original size:6 final size:6
Alignment explanation
Indices: 24623463--24623513 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
24623453 TTTAATTAAT
*
24623463 TATTTA -ATTTT TATTTA TATTTA TATATT- TATTTA -ATTTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TAT-TTA TATTTA TA-TTTA TATTTA
24623510 TATT
1 TATT
24623514 AAAAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:24623496 original size:24 final size:25
Alignment explanation
Indices: 24623445--24623512 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
24623435 TATATATAAA
*
24623445 AATTTAATTTTA-ATTAAT-TATTT
1 AATTTAATTTTATATTTATATATTT
*
24623468 AATTT-TTATTTATATTTATATATTT
1 AATTTAAT-TTTATATTTATATATTT
24623493 -ATTTAATTTTATATTTATAT
1 AATTTAATTTTATATTTATAT
24623513 TAAAAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.03
23 9 0.24
24 22 0.58
25 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
AATTTAATTTTATATTTATATATTT
Found at i:24623503 original size:18 final size:18
Alignment explanation
Indices: 24623463--24623510 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
24623453 TTTAATTAAT
*
24623463 TATTTA-ATTTTTATTTA
1 TATTTATATATTTATTTA
24623480 TATTTATATATTTATTTA
1 TATTTATATATTTATTTA
24623498 -ATTT-TATATTTAT
1 TATTTATATATTTAT
24623511 ATTAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 9 0.31
17 10 0.34
18 10 0.34
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTATATATTTATTTA
Found at i:24623513 original size:18 final size:18
Alignment explanation
Indices: 24623446--24623513 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
24623436 ATATATAAAA
*
24623446 ATTTAATTTTA-ATTAATT
1 ATTTAATTTTATATTTA-T
24623464 ATTTAATTTT-TATTTAT
1 ATTTAATTTTATATTTAT
24623481 ATTT-A---TATA-TT-T
1 ATTTAATTTTATATTTAT
24623493 ATTTAATTTTATATTTAT
1 ATTTAATTTTATATTTAT
24623511 ATT
1 ATT
24623514 AAAAATAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 16
0.71 0.02 0.28
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 2 0.05
16 5 0.12
17 7 0.17
18 18 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTAATTTTATATTTAT
Found at i:24623524 original size:18 final size:18
Alignment explanation
Indices: 24623503--24623553 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
24623493 ATTTAATTTT
24623503 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAATA
24623521 ATATTTTATATTTAAAAAATA
1 ATA-TTTATA-TT-AAAAATA
24623542 ATATTT-TATTAA
1 ATATTTATATTAA
24623554 TTTTAGATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 8 0.27
20 5 0.17
21 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:24623558 original size:24 final size:21
Alignment explanation
Indices: 24623506--24623550 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24623496 TAATTTTATA
24623506 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
24623525 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
24623546 TTTAT
1 TTTAT
24623551 TAATTTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:24624690 original size:23 final size:23
Alignment explanation
Indices: 24624660--24624717 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
24624650 GAATTTTTTT
24624660 ATTT-ATTGTTAAAAAATTTTAA
1 ATTTGATTGTTAAAAAATTTTAA
* ****
24624682 GTTTGATTGTTAATTGGTTTTAA
1 ATTTGATTGTTAAAAAATTTTAA
24624705 ATTTGATTGTTAA
1 ATTTGATTGTTAA
24624718 CAATTGATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (23 bp):
ATTTGATTGTTAAAAAATTTTAA
Found at i:24625522 original size:25 final size:25
Alignment explanation
Indices: 24625494--24625552 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 25
24625484 TTTATTAAAA
* *
24625494 ATAATTTAATAAAAAATTTAATTTG
1 ATAAATTAATAAAAAATTTAATGTG
24625519 ATAAATTAAT--AAAATTTAATGTG
1 ATAAATTAATAAAAAATTTAATGTG
24625542 A-AAATTAATAA
1 ATAAATTAATAA
24625553 TATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 8 0.27
23 13 0.43
25 9 0.30
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
ATAAATTAATAAAAAATTTAATGTG
Found at i:24630188 original size:2 final size:2
Alignment explanation
Indices: 24630181--24630216 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24630171 CACAACATTG
24630181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24630217 CAGGCAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24639710 original size:37 final size:33
Alignment explanation
Indices: 24639666--24639744 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
24639656 TATAAATAAT
*
24639666 ATTTTTATATATT-A-TT-AATTTTTATATTAAA
1 ATTTTTATTTATTAATTTAAATTTTT-TATTAAA
*
24639697 CTTTATTAGTTTATTAATTTAAATTTTTTATTAAA
1 ATTT-TTA-TTTATTAATTTAAATTTTTTATTAAA
24639732 ATTTTTATTTATT
1 ATTTTTATTTATT
24639745 TGTTTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 3 0.08
32 3 0.08
33 11 0.28
34 4 0.10
35 12 0.30
36 7 0.17
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (33 bp):
ATTTTTATTTATTAATTTAAATTTTTTATTAAA
Found at i:24644603 original size:29 final size:28
Alignment explanation
Indices: 24644534--24644603 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 28
24644524 GAATTTTATG
24644534 TAAAATAATATATTTAATATTTAATAATA
1 TAAAATAAT-TATTTAATATTTAATAATA
* * *
24644563 TTAAAT-A-GATTTAGATATATTTA-AATA
1 TAAAATAATTATTTA-ATAT-TTAATAATA
24644590 TAAAATAATTATTT
1 TAAAATAATTATTT
24644604 TTATAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
26 5 0.16
27 13 0.41
28 5 0.16
29 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
TAAAATAATTATTTAATATTTAATAATA
Found at i:24645786 original size:21 final size:23
Alignment explanation
Indices: 24645762--24645808 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
24645752 TAGAATACTA
24645762 AAATTTTAA-TTTTAATAATTT-
1 AAATTTTAATTTTTAATAATTTC
*
24645783 AAA-TTTAATTTTTGATAATTTC
1 AAATTTTAATTTTTAATAATTTC
24645805 AAAT
1 AAAT
24645809 ACATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 5 0.23
21 14 0.64
22 3 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AAATTTTAATTTTTAATAATTTC
Found at i:24646344 original size:15 final size:15
Alignment explanation
Indices: 24646324--24646355 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24646314 CTGAAAAAGG
24646324 AAATGAAAAGAAAAA
1 AAATGAAAAGAAAAA
24646339 AAATGAAAAGAAAAA
1 AAATGAAAAGAAAAA
24646354 AA
1 AA
24646356 CAAAACCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (15 bp):
AAATGAAAAGAAAAA
Found at i:24649938 original size:30 final size:30
Alignment explanation
Indices: 24649904--24649994 Score: 130
Period size: 30 Copynumber: 3.0 Consensus size: 30
24649894 ATAGACCGCC
*
24649904 GCAGGGACAAACCAAGGAAAAGTACTGATA
1 GCAGGGACAAACCAAGGAAAAGCACTGATA
* * *
24649934 GCAGGGA-AAAGCCGAGGAGAAGCATTGATA
1 GCAGGGACAAA-CCAAGGAAAAGCACTGATA
24649964 GCAGGGACAAACCAAGGAAAAGCACTGATA
1 GCAGGGACAAACCAAGGAAAAGCACTGATA
24649994 G
1 G
24649995 GCCAGAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 3 0.06
30 46 0.88
31 3 0.06
ACGTcount: A:0.44, C:0.16, G:0.31, T:0.09
Consensus pattern (30 bp):
GCAGGGACAAACCAAGGAAAAGCACTGATA
Found at i:24650925 original size:30 final size:30
Alignment explanation
Indices: 24650891--24650948 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24650881 TGTTGAATTG
*
24650891 AATTTGATGTTTAATCTAATTGATTCATTA
1 AATTTGATGTTTAATCTAATTAATTCATTA
* * *
24650921 AATTTTATGTTTATTTTAATTAATTCAT
1 AATTTGATGTTTAATCTAATTAATTCAT
24650949 GTAATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (30 bp):
AATTTGATGTTTAATCTAATTAATTCATTA
Found at i:24660598 original size:17 final size:16
Alignment explanation
Indices: 24660567--24660610 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
24660557 AATTTTTAAA
*
24660567 TAATTATAAAAATATTAT
1 TAATT-TAAATATATT-T
24660585 TAATTTAAATATATTT
1 TAATTTAAATATATTT
*
24660601 TAAATTAAAT
1 TAATTTAAAT
24660611 TTAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 9 0.38
18 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTAAATATATTT
Found at i:24662312 original size:2 final size:2
Alignment explanation
Indices: 24662305--24662338 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24662295 AATGAAACTA
24662305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24662339 GAGAAGGAAT
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):
AT
Found at i:24663398 original size:2 final size:2
Alignment explanation
Indices: 24663391--24663431 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
24663381 ATGAGCAAGC
* *
24663391 AT AT AT AT AT AT AT AT AA AT A- AT AT AT A- AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24663431 A
1 A
24663432 AATCACTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24672227 original size:17 final size:18
Alignment explanation
Indices: 24672188--24672229 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
24672178 TTAATATTTA
*
24672188 TAATATTTAAATTCAATT
1 TAATATTTAAATTAAATT
* *
24672206 AAATATTT-ATTTAAATT
1 TAATATTTAAATTAAATT
24672223 TAATATT
1 TAATATT
24672230 ATTATTCAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATATTTAAATTAAATT
Found at i:24674097 original size:14 final size:15
Alignment explanation
Indices: 24674071--24674103 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24674061 TACAACTTAA
*
24674071 ATTTAATTAATATTT
1 ATTTAATTAATATAT
24674086 ATTTAA-TAATATAT
1 ATTTAATTAATATAT
24674100 ATTT
1 ATTT
24674104 TATCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTAATTAATATAT
Found at i:24674493 original size:27 final size:30
Alignment explanation
Indices: 24674463--24674524 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 30
24674453 AATAATGTGA
*
24674463 TTTACTGAT-AAAATATTAAT-T-TT-TAAT
1 TTTAATGATCAAAAT-TTAATATCTTATAAT
24674490 TTTAATGATCAAAATTTAATATCTTATAAT
1 TTTAATGATCAAAATTTAATATCTTATAAT
24674520 TTTAA
1 TTTAA
24674525 ATACAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 13 0.43
28 6 0.20
29 2 0.07
30 9 0.30
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTAATGATCAAAATTTAATATCTTATAAT
Found at i:24674638 original size:19 final size:17
Alignment explanation
Indices: 24674616--24674673 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 17
24674606 TAAGATATTA
24674616 AATAATAATTTATTAATAT
1 AATAATAATTTA-TAA-AT
*
24674635 AATACAT-ATATATAAAT
1 AATA-ATAATTTATAAAT
24674652 -ATAA-AATTTAATAAAT
1 AATAATAATTT-ATAAAT
24674668 AATAAT
1 AATAAT
24674674 TTAGATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
15 4 0.12
16 9 0.28
17 6 0.19
18 3 0.09
19 8 0.25
20 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAATAATTTATAAAT
Found at i:24674651 original size:33 final size:32
Alignment explanation
Indices: 24674610--24674671 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
24674600 TTAAATTAAG
* *
24674610 ATATTAAATA-ATAATTTATTAATATAATACAT
1 ATATTAAATATAAAATTTAATAA-ATAATACAT
24674642 ATATATAAATATAAAATTTAATAAATAATA
1 ATAT-TAAATATAAAATTTAATAAATAATA
24674672 ATTTAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 4 0.15
33 12 0.46
34 10 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
ATATTAAATATAAAATTTAATAAATAATACAT
Found at i:24679842 original size:18 final size:19
Alignment explanation
Indices: 24679819--24679859 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
24679809 AATCGAGTTA
24679819 TATATATATATT-AATTTT
1 TATATATATATTAAATTTT
*
24679837 TATATATATTTTAAATTTT
1 TATATATATATTAAATTTT
24679856 TATA
1 TATA
24679860 AAATAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATATATATTAAATTTT
Found at i:24680831 original size:16 final size:16
Alignment explanation
Indices: 24680812--24680867 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
24680802 ATTATAATTA
24680812 AAAATAAAATTTATAT
1 AAAATAAAATTTATAT
24680828 ---A-AAAATTTATAT
1 AAAATAAAATTTATAT
* *
24680840 TAAATAAATTTTAT-T
1 AAAATAAAATTTATAT
24680855 AAAATTAAAATTT
1 AAAA-TAAAATTT
24680868 GAATTTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 11 0.34
13 1 0.03
15 5 0.16
16 15 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATAAAATTTATAT
Found at i:24682170 original size:7 final size:7
Alignment explanation
Indices: 24682158--24682191 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
24682148 ATATTTAAAA
24682158 AATAATT
1 AATAATT
24682165 AATAATT
1 AATAATT
24682172 AATAATT
1 AATAATT
24682179 AA-AATT
1 AATAATT
*
24682185 TATAATT
1 AATAATT
24682192 TAAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATAATT
Found at i:24682177 original size:14 final size:13
Alignment explanation
Indices: 24682158--24682203 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
24682148 ATATTTAAAA
24682158 AATAATTAATAATT
1 AATAATTAA-AATT
24682172 AATAATTAAAATT
1 AATAATTAAAATT
*
24682185 TATAATTTAAAATAT
1 AATAA-TTAAAAT-T
24682200 AATA
1 AATA
24682204 CTGACATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.29
14 16 0.57
15 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATAATTAAAATT
Found at i:24682373 original size:32 final size:32
Alignment explanation
Indices: 24682287--24682382 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 32
24682277 AAAGTTAATA
24682287 AAATTTTATATTTTTATATCAATA-AAATTATGAT
1 AAATTTTATA-TTTTATAT-AATATAAA-TATGAT
***
24682321 ATAATTTTTATATAAAATATAATATAAATAT-AT
1 A-AA-TTTTATATTTTATATAATATAAATATGAT
24682354 AAATTTTAATATTTTATATAATATAAATA
1 AAATTTT-ATATTTTATATAATATAAATA
24682383 CATGAATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
31 4 0.08
32 20 0.38
33 3 0.06
34 8 0.15
35 10 0.19
36 7 0.13
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (32 bp):
AAATTTTATATTTTATATAATATAAATATGAT
Found at i:24683221 original size:2 final size:2
Alignment explanation
Indices: 24683214--24683243 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24683204 CTCGTAGAGG
*
24683214 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24683244 GGTCATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24683415 original size:37 final size:36
Alignment explanation
Indices: 24683307--24683415 Score: 107
Period size: 37 Copynumber: 3.0 Consensus size: 36
24683297 AATATAATTT
24683307 AAAATTTTA-ATAATAAT-TATATATAAA-TTTAATAA
1 AAAATTTTATATAA-AATATA-ATATAAATTTTAATAA
*** * *
24683342 AAAATTTTATATTTTCATAATAATATGAATTATAATACA
1 AAAATTTTATA-TAAAAT-ATAATATAAATTTTAATA-A
24683381 AAAATTTTATATAAAATATAATATAAATTTTAATA
1 AAAATTTTATATAAAATATAATATAAATTTTAATA
24683416 TTTTAATATT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
35 9 0.16
36 3 0.05
37 23 0.40
38 11 0.19
39 12 0.21
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (36 bp):
AAAATTTTATATAAAATATAATATAAATTTTAATAA
Found at i:24683643 original size:15 final size:16
Alignment explanation
Indices: 24683615--24683647 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24683605 AAATAAATGA
*
24683615 TAATAATTTTTAATTT
1 TAATAATTTATAATTT
24683631 TAAT-ATTTATAATTT
1 TAATAATTTATAATTT
24683646 TA
1 TA
24683648 TTATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAATAATTTATAATTT
Found at i:24703214 original size:32 final size:32
Alignment explanation
Indices: 24703178--24703238 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
24703168 TTTAAATCAG
24703178 TTTAAAAAATTAAATAAAAAACTTTATATTAT
1 TTTAAAAAATTAAATAAAAAACTTTATATTAT
** * **
24703210 TTTAAACTATTAAGTAAAAATTTTTATAT
1 TTTAAAAAATTAAATAAAAAACTTTATAT
24703239 CTTAAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (32 bp):
TTTAAAAAATTAAATAAAAAACTTTATATTAT
Found at i:24703633 original size:18 final size:18
Alignment explanation
Indices: 24703607--24703642 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24703597 AATTATTTGA
24703607 AAAACAAATTTGAATTTT
1 AAAACAAATTTGAATTTT
*
24703625 AAAATAAATTTGAATTTT
1 AAAACAAATTTGAATTTT
24703643 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (18 bp):
AAAACAAATTTGAATTTT
Found at i:24704257 original size:51 final size:52
Alignment explanation
Indices: 24704171--24704272 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
24704161 ATCTTATCTG
*
24704171 TTAAGTAAGGTATCAATTGAAGTCATCAACATGATATCAATTGG-TAATTACTA
1 TTAAGTAAGATATCAATT-AAGTCATCAACATGATATCAA-TGGATAATTACTA
* **
24704224 TTAAGTGAGATATCAATT-AGTCATCAATGTGATATCAATGGATAATTAC
1 TTAAGTAAGATATCAATTAAGTCATCAACATGATATCAATGGATAATTAC
24704273 AGTTTATTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 3 0.07
51 25 0.57
53 16 0.36
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (52 bp):
TTAAGTAAGATATCAATTAAGTCATCAACATGATATCAATGGATAATTACTA
Found at i:24704416 original size:2 final size:2
Alignment explanation
Indices: 24704409--24704442 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24704399 CTTTATCTCT
* *
24704409 TA TA TA TA TA TA TA TA TA TA TC TA TC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24704443 AACCAAAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24710141 original size:12 final size:12
Alignment explanation
Indices: 24710124--24710153 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24710114 GCGGAGCATG
24710124 TGGATAGATAGA
1 TGGATAGATAGA
24710136 TGGATAGATAGA
1 TGGATAGATAGA
*
24710148 TAGATA
1 TGGATA
24710154 TGGGATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (12 bp):
TGGATAGATAGA
Found at i:24711238 original size:28 final size:27
Alignment explanation
Indices: 24711181--24711234 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24711171 TTATTTTATG
24711181 ATAGAAAGAAAAATGAAAGAGAACATT
1 ATAGAAAGAAAAATGAAAGAGAACATT
24711208 ATAGAAAGAAAAATGAAAGAGAACATT
1 ATAGAAAGAAAAATGAAAGAGAACATT
24711235 TATAAAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.63, C:0.04, G:0.19, T:0.15
Consensus pattern (27 bp):
ATAGAAAGAAAAATGAAAGAGAACATT
Found at i:24718351 original size:30 final size:30
Alignment explanation
Indices: 24718310--24718366 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
24718300 TTTATTATTT
* * *
24718310 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
24718340 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
24718367 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:24718395 original size:23 final size:21
Alignment explanation
Indices: 24718339--24718399 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
24718329 GATATTTTTA
*
24718339 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTTAAAAAT
24718359 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
24718380 AATATTTTATTAATTTTAAA
1 AATATTTTA-T-ATTTTAAA
24718400 TCGAATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 4 0.11
21 24 0.65
22 1 0.03
23 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:24718477 original size:16 final size:14
Alignment explanation
Indices: 24718448--24718481 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
24718438 GAATATGAAA
24718448 AAATAAAAAAATTT
1 AAATAAAAAAATTT
24718462 AAATAAAATTAAATTT
1 AAATAAAA--AAATTT
24718478 AAAT
1 AAAT
24718482 TTAATATCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATAAAAAAATTT
Found at i:24719261 original size:27 final size:27
Alignment explanation
Indices: 24719231--24719285 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
24719221 CTTTCATTAG
24719231 TTTAATTTGATTGAT-TAATTTTTAAAA
1 TTTAATTT-ATTGATATAATTTTTAAAA
* *
24719258 TTTAATTTATTTATATTATTTTTAAAA
1 TTTAATTTATTGATATAATTTTTAAAA
24719285 T
1 T
24719286 ATTTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTAATTTATTGATATAATTTTTAAAA
Found at i:24739081 original size:13 final size:12
Alignment explanation
Indices: 24739063--24739095 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
24739053 GCATAGAAAG
24739063 AGATGATGCATGC
1 AGATGATGCAT-C
24739076 AGATGATGCATC
1 AGATGATGCATC
24739088 AGATGATG
1 AGATGATG
24739096 ATTCTCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (12 bp):
AGATGATGCATC
Found at i:24739100 original size:91 final size:91
Alignment explanation
Indices: 24738968--24739220 Score: 389
Period size: 91 Copynumber: 2.7 Consensus size: 91
24738958 ATTTTTTGAG
24738968 AGAGATGATGCAATGCCAGATGATGCATCAGATGATGATTCTCAACATCAGCTTAGGAGGATTCC
1 AGAGATGATGC-ATG-CAGATGATGCATCAGATGATGATTCTCAACATCAGCTTAGGAGGATTCC
24739033 TAGAGGCAAGCAAATGAAGTGCATAGAA
64 TAGAGGCAAGCAAATGAAGTGCATAGAA
*
24739061 AGAGATGATGCATGCAGATGATGCATCAGATGATGATTCTCAACATCAGCTTAGGAGGAGTCCTA
1 AGAGATGATGCATGCAGATGATGCATCAGATGATGATTCTCAACATCAGCTTAGGAGGATTCCTA
24739126 GAGGCAAGCAAATGAAGTGCATAGAA
66 GAGGCAAGCAAATGAAGTGCATAGAA
* * * * * * * *
24739152 AGAGATGATGCATTTTCAGATGATTCATTAGAGGATAATCCTCAACAGCAGCATAGGAGGATTCC
1 AGAGATGATGCA--TGCAGATGATGCATCAGATGATGATTCTCAACATCAGCTTAGGAGGATTCC
24739217 TAGA
64 TAGA
24739221 AACAAAGTGG
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
91 88 0.59
92 3 0.02
93 57 0.39
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.23
Consensus pattern (91 bp):
AGAGATGATGCATGCAGATGATGCATCAGATGATGATTCTCAACATCAGCTTAGGAGGATTCCTA
GAGGCAAGCAAATGAAGTGCATAGAA
Found at i:24747366 original size:17 final size:18
Alignment explanation
Indices: 24747341--24747375 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24747331 TCGTGCAATT
*
24747341 ATTAGTTATGAC-ATGAC
1 ATTAATTATGACTATGAC
24747358 ATTAATTATGACTATGAC
1 ATTAATTATGACTATGAC
24747376 TAGACTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
ATTAATTATGACTATGAC
Found at i:24750358 original size:134 final size:134
Alignment explanation
Indices: 24750193--24750465 Score: 537
Period size: 134 Copynumber: 2.0 Consensus size: 134
24750183 CATAGGAGTA
24750193 TTGGGGCTCTACGTCTTATGGGTGTGTATGCTTGTTTGTGAGTGGACTAGAGGAGATTGAGAGGG
1 TTGGGGCTCTACGTCTTATGGGTGTGTATGCTTGTTTGTGAGTGGACTAGAGGAGATTGAGAGGG
24750258 TCCACATAGGTATGGTATATGGGAGCATATGGGTATGTGTTTGGTTATGTTGAAAGAGTGCACAA
66 TCCACATAGGTATGGTATATGGGAGCATATGGGTATGTGTTTGGTTATGTTGAAAGAGTGCACAA
24750323 GGGT
131 GGGT
24750327 TTGGGGCTCTACGTCTTATGGGTGTGTATGCTTGTTTGTGAGTGGACTAGAGGAGATTGAGAGGG
1 TTGGGGCTCTACGTCTTATGGGTGTGTATGCTTGTTTGTGAGTGGACTAGAGGAGATTGAGAGGG
*
24750392 TCCACATAGGTATGTTATATGGGAGCATATGGGTATGTGTTTGGTTATGTTGAAAGAGTGCACAA
66 TCCACATAGGTATGGTATATGGGAGCATATGGGTATGTGTTTGGTTATGTTGAAAGAGTGCACAA
24750457 GGGT
131 GGGT
24750461 TTGGG
1 TTGGG
24750466 TTTGTGTTTG
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 138 1.00
ACGTcount: A:0.21, C:0.09, G:0.37, T:0.33
Consensus pattern (134 bp):
TTGGGGCTCTACGTCTTATGGGTGTGTATGCTTGTTTGTGAGTGGACTAGAGGAGATTGAGAGGG
TCCACATAGGTATGGTATATGGGAGCATATGGGTATGTGTTTGGTTATGTTGAAAGAGTGCACAA
GGGT
Found at i:24755437 original size:19 final size:19
Alignment explanation
Indices: 24755413--24755449 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24755403 AAATTACTAA
24755413 AAAATTAATAAAAATAAAC
1 AAAATTAATAAAAATAAAC
*
24755432 AAAATTAATAAAATTAAA
1 AAAATTAATAAAAATAAA
24755450 ATTACTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATTAATAAAAATAAAC
Found at i:24755834 original size:14 final size:16
Alignment explanation
Indices: 24755800--24755848 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
24755790 ATCTTTTAAA
*
24755800 AATTATATATACTTATAT
1 AATTATATATAGTT-T-T
24755818 AATTATA-ATA-TTTT
1 AATTATATATAGTTTT
24755832 AATTATATATAGTTTT
1 AATTATATATAGTTTT
24755848 A
1 A
24755849 TTTGTGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 7 0.24
17 3 0.10
18 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
AATTATATATAGTTTT
Found at i:24757285 original size:2 final size:2
Alignment explanation
Indices: 24757280--24757308 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24757270 TGTGTGTGGC
24757280 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 T
24757309 TAAGAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24759974 original size:14 final size:15
Alignment explanation
Indices: 24759938--24759975 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24759928 TCAATGTAAA
24759938 TTTTTTT-ATGAAAT
1 TTTTTTTAATGAAAT
*
24759952 TTTTTTTAAT-AACT
1 TTTTTTTAATGAAAT
24759966 TTTTTTTAAT
1 TTTTTTTAAT
24759976 TACAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTTTTAATGAAAT
Found at i:24760761 original size:13 final size:12
Alignment explanation
Indices: 24760743--24760782 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
24760733 TTTACAAAGT
24760743 ATTAAAACATAAA
1 ATTAAAA-ATAAA
*
24760756 ATTAAAATTAAA
1 ATTAAAAATAAA
*
24760768 ATTAAAATTAAA
1 ATTAAAAATAAA
24760780 ATT
1 ATT
24760783 TTAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAAAAATAAA
Found at i:24760763 original size:6 final size:6
Alignment explanation
Indices: 24760752--24760782 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24760742 TATTAAAACA
24760752 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
24760783 TTAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:24765350 original size:22 final size:23
Alignment explanation
Indices: 24765325--24765370 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
24765315 AAAAGATAAT
*
24765325 AGCAACAAA-ATTTTCTTTTTCA
1 AGCAACAAAGATTTTCTTCTTCA
*
24765347 AGCAACAAAGCTTTTCTTCTTCA
1 AGCAACAAAGATTTTCTTCTTCA
24765370 A
1 A
24765371 TTAGGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (23 bp):
AGCAACAAAGATTTTCTTCTTCA
Found at i:24771850 original size:6 final size:6
Alignment explanation
Indices: 24771839--24771872 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
24771829 TTGATGATTC
24771839 AATTAT AATTAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATT
24771873 CACTTGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTAT
Found at i:24772824 original size:18 final size:18
Alignment explanation
Indices: 24772797--24772833 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24772787 AGAAGCCTCA
* *
24772797 GAGGATGAAGATGAGGAT
1 GAGGACGAAGATGAAGAT
24772815 GAGGACGAAGATGAAGAT
1 GAGGACGAAGATGAAGAT
24772833 G
1 G
24772834 GCAGTGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.43, T:0.14
Consensus pattern (18 bp):
GAGGACGAAGATGAAGAT
Found at i:24772885 original size:3 final size:3
Alignment explanation
Indices: 24772877--24772902 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24772867 GTGAGGAGAC
24772877 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
24772903 CAGAGGTGCC
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:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:24774660 original size:22 final size:22
Alignment explanation
Indices: 24774635--24774679 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24774625 GTTGCACATC
*
24774635 GATTACCATGCTATACATGAAT
1 GATTACCATGCCATACATGAAT
24774657 GATTACCATGCCATACATGAAT
1 GATTACCATGCCATACATGAAT
24774679 G
1 G
24774680 GTATGGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (22 bp):
GATTACCATGCCATACATGAAT
Found at i:24775828 original size:23 final size:23
Alignment explanation
Indices: 24775800--24775855 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
24775790 ATTCGATTAA
* * *
24775800 ATTAAATAAGTTTATTTTTAAAT
1 ATTAAATAAATATATTATTAAAT
24775823 ATTAAATAAATATATTATTAAAT
1 ATTAAATAAATATATTATTAAAT
*
24775846 A-TACATAAAT
1 ATTAAATAAAT
24775856 CAATATGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAATAAATATATTATTAAAT
Found at i:24778128 original size:2 final size:2
Alignment explanation
Indices: 24778121--24778146 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24778111 TTTGACATGA
24778121 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
24778147 CCTCTTAAAA
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:24794158 original size:21 final size:22
Alignment explanation
Indices: 24794134--24794176 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24794124 TCACTATGTT
*
24794134 TATTAT-TATTGAAATATCAAA
1 TATTATCTATTAAAATATCAAA
24794155 TATTATCTATTAAAATATCAAA
1 TATTATCTATTAAAATATCAAA
24794177 ATAACCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (22 bp):
TATTATCTATTAAAATATCAAA
Found at i:24794187 original size:22 final size:22
Alignment explanation
Indices: 24794140--24794189 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24794130 TGTTTATTAT
* * *
24794140 TATTGAAATATCAAATATTATC
1 TATTAAAATATCAAATATAACC
24794162 TATTAAAATATCAAA-ATAACC
1 TATTAAAATATCAAATATAACC
24794183 ATATTAA
1 -TATTAA
24794190 CTATAATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (22 bp):
TATTAAAATATCAAATATAACC
Found at i:24804172 original size:19 final size:21
Alignment explanation
Indices: 24804150--24804195 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
24804140 AAAATAAAAT
24804150 TAAAAATAA-TTTTA-AAGTA
1 TAAAAATAAGTTTTAGAAGTA
*
24804169 TAAAAA-AAGTTTTAGATGTA
1 TAAAAATAAGTTTTAGAAGTA
24804189 -AAAAATA
1 TAAAAATA
24804196 TATATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.09
19 16 0.70
20 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
TAAAAATAAGTTTTAGAAGTA
Found at i:24808244 original size:9 final size:9
Alignment explanation
Indices: 24808230--24808259 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
24808220 TATATTTTAT
24808230 TAATTAAAA
1 TAATTAAAA
24808239 TAATTAAAA
1 TAATTAAAA
24808248 TATATTAAAA
1 TA-ATTAAAA
24808258 TA
1 TA
24808260 TAAAAACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:24808256 original size:10 final size:10
Alignment explanation
Indices: 24808232--24808261 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24808222 TATTTTATTA
24808232 ATTAAAATA-
1 ATTAAAATAT
24808241 ATTAAAATAT
1 ATTAAAATAT
24808251 ATTAAAATAT
1 ATTAAAATAT
24808261 A
1 A
24808262 AAAACTCGAT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:24816497 original size:19 final size:18
Alignment explanation
Indices: 24816468--24816511 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
24816458 ATATCTAAGT
24816468 AAATCTTTATTTTAAACAAA
1 AAAT-TTTA-TTTAAACAAA
* *
24816488 AAATTTTATTTATATAAA
1 AAATTTTATTTAAACAAA
24816506 AAATTT
1 AAATTT
24816512 ATCTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 4 0.18
20 4 0.18
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTTATTTAAACAAA
Found at i:24816926 original size:6 final size:6
Alignment explanation
Indices: 24816915--24816942 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24816905 AATTGCAACA
24816915 TTATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTAT
24816943 TCTGCATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:24825123 original size:19 final size:20
Alignment explanation
Indices: 24825099--24825148 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
24825089 CATATTTAAT
*
24825099 TTTATAAAAATTTTAAC-TA
1 TTTATAAAAATTTAAACTTA
*
24825118 TTTATAAATATTTAAACTTA
1 TTTATAAAAATTTAAACTTA
24825138 TTTATTAAAAA
1 TTTA-TAAAAA
24825149 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.58
20 6 0.23
21 5 0.19
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTATAAAAATTTAAACTTA
Found at i:24825605 original size:28 final size:28
Alignment explanation
Indices: 24825573--24825635 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 28
24825563 AGCCCAATGT
24825573 TATTTA-TGATTTTTAAATTATAATAAAA
1 TATTTATTGATTTTTAAATTATAA-AAAA
*
24825601 TATTTAATTTGATTTTTAAATTTTAAAAAA
1 TATTT-A-TTGATTTTTAAATTATAAAAAA
24825631 T-TTTA
1 TATTTA
24825636 ATATTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 6 0.19
29 4 0.13
30 5 0.16
31 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
TATTTATTGATTTTTAAATTATAAAAAA
Found at i:24825615 original size:31 final size:30
Alignment explanation
Indices: 24825579--24825656 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
24825569 ATGTTATTTA
24825579 TGATTTTTAAATTATAATAAAATATTTAAT-T
1 TGATTTTTAAATTATAA-AAAAT-TTTAATAT
*
24825610 TGATTTTTAAATTTTAAAAAATTTTAATAT
1 TGATTTTTAAATTATAAAAAATTTTAATAT
* *
24825640 T-ATATTTGAATTATAAA
1 TGATTTTTAAATTATAAA
24825657 TTTATAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 19 0.45
30 7 0.17
31 16 0.38
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TGATTTTTAAATTATAAAAAATTTTAATAT
Found at i:24826387 original size:4 final size:4
Alignment explanation
Indices: 24826378--24826412 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
24826368 TATTTTGTGT
24826378 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
24826413 TCTTTGGGTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:24827379 original size:17 final size:17
Alignment explanation
Indices: 24827357--24827413 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 17
24827347 GAGTCGTGCC
*
24827357 TTATTTTGGTATTTTTA
1 TTATTTTGTTATTTTTA
* *
24827374 TTATTTTTTTATTATT-
1 TTATTTTGTTATTTTTA
*
24827390 TTATTTTGTTATTTATA
1 TTATTTTGTTATTTTTA
24827407 TTTATTT
1 -TTATTT
24827414 ATTCCATTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.41
17 13 0.41
18 6 0.19
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (17 bp):
TTATTTTGTTATTTTTA
Found at i:24827388 original size:14 final size:13
Alignment explanation
Indices: 24827368--24827449 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
24827358 TATTTTGGTA
24827368 TTTTTATTATT-TT
1 TTTTTATT-TTATT
24827381 TTTATTATTTTATT
1 TTT-TTATTTTATT
*
24827395 TTGTTATTTATATT
1 TTTTTATTT-TATT
* **
24827409 TATTTATTCCATT
1 TTTTTATTTTATT
* *
24827422 TGTTTATTTT-TC
1 TTTTTATTTTATT
* *
24827434 TTTTTCTTGTATT
1 TTTTTATTTTATT
24827447 TTT
1 TTT
24827450 GCATAATTAT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
12 8 0.15
13 25 0.48
14 19 0.37
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.76
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:24829686 original size:24 final size:24
Alignment explanation
Indices: 24829654--24829705 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
24829644 TCATCCAATT
*
24829654 CACTGATAGTATATAAAATCTATA
1 CACTAATAGTATATAAAATCTATA
24829678 CACTAATAGTATATAAAATCTATA
1 CACTAATAGTATATAAAATCTATA
24829702 CACT
1 CACT
24829706 GATAATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (24 bp):
CACTAATAGTATATAAAATCTATA
Found at i:24829720 original size:24 final size:24
Alignment explanation
Indices: 24829654--24829711 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
24829644 TCATCCAATT
* *
24829654 CACTGATAGTATATAAAATCTATA
1 CACTAATAATATATAAAATCTATA
*
24829678 CACTAATAGTATATAAAATCTATA
1 CACTAATAATATATAAAATCTATA
*
24829702 CACTGATAAT
1 CACTAATAAT
24829712 TCATCAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.33
Consensus pattern (24 bp):
CACTAATAATATATAAAATCTATA
Found at i:24834999 original size:157 final size:157
Alignment explanation
Indices: 24834711--24835022 Score: 381
Period size: 157 Copynumber: 2.0 Consensus size: 157
24834701 GAATAGGATC
* **
24834711 AAAATTATTTGTGCATGCTTGATAAAGGCTCAATTACTGAGATTCCTCTGATGAAAGAAAAGAAG
1 AAAATTATTTGTACATGCTTGATAAAGGCTCAATTACTGAGATTCCTCTGACAAAAGAAAAGAAG
*
24834776 AAAAGCAAGCATGTCAACTTTGCAGATACTGTTGAAATATTTGAAGATTCAAGTCAAAAAAAGAT
66 AAAAGCAAGCATGTCAACTTTGCAGATACTATTGAAATATTTGAAGATTCAAGTCAAAAAAAGAT
* *
24834841 TTGTTTAGGTTTGCCTTGAATATCACA
131 TTGTTGAGGGTTGCCTTGAATATCACA
** * * * * *
24834868 AAAATTATTTGTACATTTTTTATGAAGGTTCAGTTGCTGAGATTCCTCTGACAAAAGAAAAGAAG
1 AAAATTATTTGTACATGCTTGATAAAGGCTCAATTACTGAGATTCCTCTGACAAAAGAAAAGAAG
* * * * * * * * *** *
24834933 AATAGCAAGCGTGTTAGCTTTGCATATATTATTGAAGTATTTGGAGATTCAAGTCAATGGATGAT
66 AAAAGCAAGCATGTCAACTTTGCAGATACTATTGAAATATTTGAAGATTCAAGTCAAAAAAAGAT
* *
24834998 TTGTTGGGGGTTGTCTTGAATATCA
131 TTGTTGAGGGTTGCCTTGAATATCA
24835023 TAATCCTACA
Statistics
Matches: 128, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
157 128 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (157 bp):
AAAATTATTTGTACATGCTTGATAAAGGCTCAATTACTGAGATTCCTCTGACAAAAGAAAAGAAG
AAAAGCAAGCATGTCAACTTTGCAGATACTATTGAAATATTTGAAGATTCAAGTCAAAAAAAGAT
TTGTTGAGGGTTGCCTTGAATATCACA
Found at i:24841941 original size:27 final size:27
Alignment explanation
Indices: 24841904--24841955 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
24841894 TCAAACGAAA
24841904 GTTAATATAATATTAT-TTAATCTAAT
1 GTTAATATAATATTATCTTAATCTAAT
*
24841930 GTTAATTATAATATTATCTTATTCTA
1 GTTAA-TATAATATTATCTTAATCTA
24841956 TTATATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 11 0.48
28 7 0.30
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (27 bp):
GTTAATATAATATTATCTTAATCTAAT
Found at i:24843301 original size:15 final size:16
Alignment explanation
Indices: 24843281--24843310 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24843271 TGGATATCTT
24843281 AAAAATGAAA-AAAAA
1 AAAAATGAAAGAAAAA
24843296 AAAAATGAAAGAAAA
1 AAAAATGAAAGAAAA
24843311 TTTTGTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (16 bp):
AAAAATGAAAGAAAAA
Found at i:24844281 original size:10 final size:10
Alignment explanation
Indices: 24844248--24844289 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
24844238 TGAAATATTT
24844248 TTAAAAATATA
1 TTAAAAATA-A
24844259 TTTAATAAA-AA
1 -TTAA-AAATAA
24844270 TTAAAAATAA
1 TTAAAAATAA
24844280 TTAAAAATAA
1 TTAAAAATAA
24844290 AATATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 3 0.11
10 16 0.57
11 1 0.04
12 5 0.18
13 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TTAAAAATAA
Found at i:24844291 original size:22 final size:22
Alignment explanation
Indices: 24844248--24844292 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24844238 TGAAATATTT
* *
24844248 TTAAAAATATATTTAATAAAAA
1 TTAAAAATATATTAAAAAAAAA
24844270 TTAAAAATA-ATTAAAAATAAAA
1 TTAAAAATATATTAAAAA-AAAA
24844292 T
1 T
24844293 ATATGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAAATATATTAAAAAAAAA
Found at i:24849974 original size:3 final size:3
Alignment explanation
Indices: 24849966--24849990 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24849956 TTTGTACATA
24849966 GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG G
24849991 AAGAAGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:24863539 original size:2 final size:2
Alignment explanation
Indices: 24863534--24863561 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24863524 AAAAAAAAAA
24863534 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
24863562 TTGCTTTCGA
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:24867449 original size:163 final size:163
Alignment explanation
Indices: 24867179--24867506 Score: 647
Period size: 163 Copynumber: 2.0 Consensus size: 163
24867169 TGTGCATAAA
24867179 CCCTTTAGAAATTGGATCGAATCCAACCAGAAAAGGAAGAATGATATGAAGCTAAAACCCTAAAT
1 CCCTTTAGAAATTGGATCGAATCCAACCAGAAAAGGAAGAATGATATGAAGCTAAAACCCTAAAT
24867244 CTGCTCCACAAGAATCCCAATTTCAAAACCTAGATCTCCCAAAAGACCCGTTGATTTTCCCGATC
66 CTGCTCCACAAGAATCCCAATTTCAAAACCTAGATCTCCCAAAAGACCCGTTGATTTTCCCGATC
24867309 AGAAACCCTAAAATGAGAAACTGAAGCCTCCAC
131 AGAAACCCTAAAATGAGAAACTGAAGCCTCCAC
*
24867342 CCCTTTAGAAATTGGATCGAATCCAACCAGAAAAGGAAGAATGATATGAGGCTAAAACCCTAAAT
1 CCCTTTAGAAATTGGATCGAATCCAACCAGAAAAGGAAGAATGATATGAAGCTAAAACCCTAAAT
24867407 CTGCTCCACAAGAATCCCAATTTCAAAACCTAGATCTCCCAAAAGACCCGTTGATTTTCCCGATC
66 CTGCTCCACAAGAATCCCAATTTCAAAACCTAGATCTCCCAAAAGACCCGTTGATTTTCCCGATC
24867472 AGAAACCCTAAAATGAGAAACTGAAGCCTCCAC
131 AGAAACCCTAAAATGAGAAACTGAAGCCTCCAC
24867505 CC
1 CC
24867507 TCTCACTCCT
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (163 bp):
CCCTTTAGAAATTGGATCGAATCCAACCAGAAAAGGAAGAATGATATGAAGCTAAAACCCTAAAT
CTGCTCCACAAGAATCCCAATTTCAAAACCTAGATCTCCCAAAAGACCCGTTGATTTTCCCGATC
AGAAACCCTAAAATGAGAAACTGAAGCCTCCAC
Found at i:24869724 original size:25 final size:26
Alignment explanation
Indices: 24869696--24869744 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
24869686 ATTATATATT
*
24869696 TATGTAAT-ATTTTATATAAAAATTA
1 TATGTAATAATTTGATATAAAAATTA
*
24869721 TATGTTATAATTTGATATAAAAAT
1 TATGTAATAATTTGATATAAAAAT
24869745 ATAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (26 bp):
TATGTAATAATTTGATATAAAAATTA
Found at i:24869817 original size:16 final size:16
Alignment explanation
Indices: 24869798--24869832 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24869788 TTTATTTAAA
*
24869798 TTTTAAATTATATTAT
1 TTTTAAATTATATCAT
*
24869814 TTTTATATTATATCAT
1 TTTTAAATTATATCAT
24869830 TTT
1 TTT
24869833 ATCGTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTATATCAT
Found at i:24871296 original size:9 final size:10
Alignment explanation
Indices: 24871262--24871299 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
24871252 TCTCTTGAAC
24871262 AAAATTTACAT
1 AAAATTTA-AT
24871273 AAAATTTAAAT
1 AAAATTT-AAT
24871284 AAAATTT-AT
1 AAAATTTAAT
24871293 AAAATTT
1 AAAATTT
24871300 TTTTGTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.35
11 16 0.62
12 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAATTTAAT
Found at i:24871717 original size:2 final size:2
Alignment explanation
Indices: 24871712--24871746 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24871702 CACACACACA
24871712 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
24871747 AGATCTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:24875697 original size:12 final size:12
Alignment explanation
Indices: 24875664--24875700 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
24875654 ACTATGTTTC
*
24875664 ATATATATATAT
1 ATATATATACAT
24875676 ATATATATACAT
1 ATATATATACAT
*
24875688 ATTTATATACAT
1 ATATATATACAT
24875700 A
1 A
24875701 AAAGATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATATATACAT
Found at i:24876257 original size:23 final size:21
Alignment explanation
Indices: 24876206--24876262 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
24876196 AATTTTAAAA
*
24876206 TAAAAATAAAAATGTTAGATAT
1 TAAAAA-AAAAATGTTAGACAT
*
24876228 TAGAAAAAAAAATTTTGAGACAT
1 TA-AAAAAAAAATGTT-AGACAT
24876251 CTAAAAAAAAAA
1 -TAAAAAAAAAA
24876263 AAAAAGGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 18 0.60
24 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAAAAAAAAATGTTAGACAT
Found at i:24879399 original size:21 final size:21
Alignment explanation
Indices: 24879375--24879419 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24879365 CTTTATAAAA
*
24879375 AAATTACAAATATTAAAATTT
1 AAATTACAAATATCAAAATTT
** *
24879396 AAATTTTAAATATCAAATTTT
1 AAATTACAAATATCAAAATTT
24879417 AAA
1 AAA
24879420 AATAATTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTACAAATATCAAAATTT
Found at i:24881876 original size:22 final size:22
Alignment explanation
Indices: 24881851--24881893 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24881841 AAATTGATAA
24881851 TAATTATTTTATATT-AAAATAT
1 TAATTATTTT-TATTCAAAATAT
24881873 TAATTATTTTTATTCAAAATA
1 TAATTATTTTTATTCAAAATA
24881894 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATTATTTTTATTCAAAATAT
Found at i:24881898 original size:21 final size:21
Alignment explanation
Indices: 24881847--24881898 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
24881837 TTTAAAATTG
24881847 ATAATAATTATTTTATATTAAA
1 ATAA-AATTATTTTATATTAAA
*
24881869 ATATTAATTATTTT-TATTCAAA
1 ATA-AAATTATTTTATATT-AAA
24881891 ATAAAATT
1 ATAAAATT
24881899 TAAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATTATTTTATATTAAA
Found at i:24881961 original size:43 final size:42
Alignment explanation
Indices: 24881893--24881976 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
24881883 TATTCAAAAT
* *
24881893 AAAATTTAAAATAAATAAAATAAAAAATGAA-AAGAAATGAAA
1 AAAATTTAAAATAAATAAAAAAAAAAAAGAACAA-AAATGAAA
*
24881935 AAAACTTTTAAATAAA-AAATAAAAAAAAAGAACAAAAATGAA
1 AAAA-TTTAAAATAAATAAA-AAAAAAAAAGAACAAAAATGAA
24881977 CTAAATACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 7 0.19
43 27 0.75
44 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (42 bp):
AAAATTTAAAATAAATAAAAAAAAAAAAGAACAAAAATGAAA
Found at i:24885795 original size:22 final size:22
Alignment explanation
Indices: 24885749--24885813 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
24885739 TGAAAATGAT
* *
24885749 ATAAAAAATTAAAATTTTATTAAA
1 ATAAAAAA-T-AAATTTAATAAAA
* *
24885773 ATTATAAATAAATTTAATAAAA
1 ATAAAAAATAAATTTAATAAAA
*
24885795 ATAAAAAATATATTTAATA
1 ATAAAAAATAAATTTAATA
24885814 TTTAATATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 27 0.79
23 1 0.03
24 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAAAAAATAAATTTAATAAAA
Found at i:24895593 original size:15 final size:15
Alignment explanation
Indices: 24895561--24895607 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
24895551 GGATACATAT
*
24895561 AAATAAAA-ATAAATA
1 AAATAAAATA-AAAGA
24895576 AAATAAAATAAAAGA
1 AAATAAAATAAAAGA
24895591 AAA-AAAATTAAAAGA
1 AAATAAAA-TAAAAGA
24895606 AA
1 AA
24895608 TGAAATGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 24 0.83
16 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (15 bp):
AAATAAAATAAAAGA
Found at i:24896106 original size:15 final size:15
Alignment explanation
Indices: 24896083--24896112 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24896073 CAAAAATAAA
*
24896083 ATTTTTTTAACTTTT
1 ATTTCTTTAACTTTT
24896098 ATTTCTTTAACTTTT
1 ATTTCTTTAACTTTT
24896113 TTCCCAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTCTTTAACTTTT
Found at i:24908267 original size:4 final size:4
Alignment explanation
Indices: 24908258--24908282 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24908248 ATATCTTCTT
24908258 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
24908283 GTCAGGCAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:24908641 original size:18 final size:21
Alignment explanation
Indices: 24908618--24908664 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 21
24908608 AATTTTTTAT
24908618 AAAATAAAAAA-ATT-TA-GA
1 AAAATAAAAAAGATTGTATGA
24908636 AAAATAAAAAAGATTGTATGA
1 AAAATAAAAAAGATTGTATGA
24908657 AAAATAAA
1 AAAATAAA
24908665 TAACATGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.42
19 3 0.12
20 2 0.08
21 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
AAAATAAAAAAGATTGTATGA
Done.