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 80 of 130
Found at i:16048545 original size:16 final size:15
Alignment explanation
Indices: 16048522--16048570 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
16048512 ATGCTCCACC
16048522 AAAAAAAAAAGAGAA
1 AAAAAAAAAAGAGAA
16048537 AACAAAAAACAA-AGAA
1 AA-AAAAAA-AAGAGAA
*
16048553 AAAGAAAAAAGAAGAA
1 AAAAAAAAAAG-AGAA
16048569 AA
1 AA
16048571 TTTGTTGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 7 0.24
16 18 0.62
17 2 0.07
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAGAA
Found at i:16050031 original size:17 final size:17
Alignment explanation
Indices: 16050011--16050044 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16050001 GAAACTTAGA
*
16050011 ATCTTGTGAATATTTCT
1 ATCTTGCGAATATTTCT
*
16050028 ATCTTGCGAATCTTTCT
1 ATCTTGCGAATATTTCT
16050045 TACGAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (17 bp):
ATCTTGCGAATATTTCT
Found at i:16050914 original size:114 final size:114
Alignment explanation
Indices: 16050732--16050946 Score: 277
Period size: 114 Copynumber: 1.9 Consensus size: 114
16050722 ACATCGTCCA
* * * ** * *
16050732 AGTCATTCATTTACAACTTTGACTCGGTCTTGGTCACTTTTAGACTCATGGCATTGTCTCAGTTA
1 AGTCATTCATTTACAACCTTGACTCAGTCTTGGTCACTTTTAGACTCATGACATCATCCCAGTAA
* * * * * *
16050797 TTCGATCTTGGCTTAGGTTAGATTATTCTCAGACTTACAGTATCATCTC
66 TTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTTACAGTATCATCTC
* * * *
16050846 AGTCATTCATTTACAACCTTGACTCAGTTTTTGTCACTTTTAGGCTCGTGACATCATCCCAGTAA
1 AGTCATTCATTTACAACCTTGACTCAGTCTTGGTCACTTTTAGACTCATGACATCATCCCAGTAA
16050911 TTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTT
66 TTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTT
16050947 GTGGCATCAT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
114 84 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (114 bp):
AGTCATTCATTTACAACCTTGACTCAGTCTTGGTCACTTTTAGACTCATGACATCATCCCAGTAA
TTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTTACAGTATCATCTC
Found at i:16050956 original size:114 final size:114
Alignment explanation
Indices: 16050723--16050999 Score: 268
Period size: 114 Copynumber: 2.4 Consensus size: 114
16050713 AGAGTCGCGA
* * * * * **
16050723 CATCGTCCAAGTCATTCATTTACAACTTTGACTCGGTCTTGGTCACTTTTAGACTCATGGCATTG
1 CATCATCCCAGTCATTCATTTACAACCTTGACTCAGTCTTGGTCACTTTTAGACTCATGACATCA
* * * * * * * *
16050788 TCTCAGTTATTCGATCTTGGCTTAGGTTAGATTATTCTCAGACTTACAG
66 TCCCAGTAATTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTTACAG
* * * * * *
16050837 TATCATCTCAGTCATTCATTTACAACCTTGACTCAGTTTTTGTCACTTTTAGGCTCGTGACATCA
1 CATCATCCCAGTCATTCATTTACAACCTTGACTCAGTCTTGGTCACTTTTAGACTCATGACATCA
***
16050902 TCCCAGTAATTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTTGTGG
66 TCCCAGTAATTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTTACAG
* * * * **
16050951 CATCATCCCCGTCATTTATCTT-TAACCTTAACTTGGTCTTGGTCACTTT
1 CATCATCCCAGTCATTCAT-TTACAACCTTGACTCAGTCTTGGTCACTTT
16051000 CAAACTCACG
Statistics
Matches: 128, Mismatches: 34, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
114 126 0.98
115 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (114 bp):
CATCATCCCAGTCATTCATTTACAACCTTGACTCAGTCTTGGTCACTTTTAGACTCATGACATCA
TCCCAGTAATTCGATCTTAGCTCAAGTCAAATCATTCTCAGACTTACAG
Found at i:16051509 original size:3 final size:3
Alignment explanation
Indices: 16051501--16051620 Score: 86
Period size: 3 Copynumber: 44.0 Consensus size: 3
16051491 AGTATATCAC
* * *
16051501 TAT TAT TA- TAT TAT TAT TA- TAG TAC TA- TAT TA- TAC TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
16051543 TAT TAT TA- TAT TAT TA- TAC TA- TAT TA- TAT TA- TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
16051586 TAT T-G TAGT TAT T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
16051621 CTTTCTTCCT
Statistics
Matches: 98, Mismatches: 5, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
2 25 0.26
3 71 0.72
4 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:16051533 original size:13 final size:12
Alignment explanation
Indices: 16051488--16051579 Score: 70
Period size: 13 Copynumber: 7.7 Consensus size: 12
16051478 AGAATTGTAG
*
16051488 TATAGTATATCAC
1 TATATTATAT-AC
16051501 TATTATTATAT--
1 TA-TATTATATAC
16051512 TATTATTATAGTAC
1 TA-TATTATA-TAC
16051526 TATA-T-TATAC
1 TATATTATATAC
*
16051536 TATATTATATTAT
1 TATATTATA-TAC
16051549 TATATTATTATAC
1 TATATTA-TATAC
16051562 TATATTATAT--
1 TATATTATATAC
16051572 TATATTAT
1 TATATTAT
16051580 TATTGTTATT
Statistics
Matches: 68, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
10 15 0.22
11 13 0.19
12 7 0.10
13 22 0.32
14 11 0.16
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (12 bp):
TATATTATATAC
Found at i:16051538 original size:10 final size:10
Alignment explanation
Indices: 16051523--16051579 Score: 77
Period size: 10 Copynumber: 6.1 Consensus size: 10
16051513 ATTATTATAG
16051523 TACTATATTA
1 TACTATATTA
16051533 TACTATATTA
1 TACTATATTA
16051543 TA-T-TATTA
1 TACTATATTA
16051551 TA-T-TATTA
1 TACTATATTA
16051559 TACTATATTA
1 TACTATATTA
*
16051569 TATTATATTA
1 TACTATATTA
16051579 T
1 T
16051580 TATTGTTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
8 15 0.34
9 2 0.05
10 27 0.61
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (10 bp):
TACTATATTA
Found at i:16051550 original size:31 final size:31
Alignment explanation
Indices: 16051488--16051582 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 31
16051478 AGAATTGTAG
*
16051488 TATAGTA-TATCACTATTATTATA-T-TATTAT
1 TATAGTACTAT-ACTA-TACTATATTATATTAT
*
16051518 TATAGTACTATATTATACTATATTATATTAT
1 TATAGTACTATACTATACTATATTATATTAT
* * *
16051549 TATATTATTATACTATATTATATTATATTAT
1 TATAGTACTATACTATACTATATTATATTAT
16051580 TAT
1 TAT
16051583 TGTTATTGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 6 0.11
30 11 0.20
31 39 0.70
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (31 bp):
TATAGTACTATACTATACTATATTATATTAT
Found at i:16051597 original size:23 final size:22
Alignment explanation
Indices: 16051504--16051620 Score: 100
Period size: 23 Copynumber: 5.3 Consensus size: 22
16051494 ATATCACTAT
*
16051504 TATTATATTATTATTATAGTACTA
1 TATTATATTATTATTAT--TATTA
*
16051528 TATTATACTA-TATTA-TA-T-
1 TATTATATTATTATTATTATTA
16051546 TATTATATTATTA-TACTATATTA
1 TATTATATTATTATTA-T-TATTA
* *
16051569 TATTATATTATTATTGTTATTG
1 TATTATATTATTATTATTATTA
*
16051591 TAGTTATTTTATTATTATTATTA
1 TA-TTATATTATTATTATTATTA
16051614 TTATTAT
1 -TATTAT
16051621 CTTTCTTCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.14
19 3 0.04
20 2 0.03
21 2 0.03
22 7 0.09
23 40 0.52
24 12 0.16
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (22 bp):
TATTATATTATTATTATTATTA
Found at i:16052514 original size:24 final size:24
Alignment explanation
Indices: 16052487--16052575 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 24
16052477 TTTCTTTTCC
16052487 ATTTTATTTTTATTTTTTGATTTT
1 ATTTTATTTTTATTTTTTGATTTT
* **
16052511 ATTTTAGTTTATATTTTTT-AAATT
1 ATTTTA-TTTTTATTTTTTGATTTT
* *
16052535 ATTTTATTTTTAGTTTTTG-TTAT
1 ATTTTATTTTTATTTTTTGATTTT
16052558 -TTTTATGGTTTTATTTTT
1 ATTTTAT--TTTTATTTTT
16052576 GAGAAATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
22 6 0.12
23 11 0.21
24 24 0.46
25 11 0.21
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTTATTTTTTGATTTT
Found at i:16057737 original size:3 final size:3
Alignment explanation
Indices: 16057729--16057773 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
16057719 TAATAAGACT
16057729 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16057774 CCAAGGTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16058992 original size:30 final size:31
Alignment explanation
Indices: 16058940--16059002 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
16058930 TTTAAGTTTT
*
16058940 GAAGGTTTTAGGGTTTGGTTTTA-AGGTATG
1 GAAGGTTTTAGGGTTTGATTTTAGAGGTATG
* *
16058970 GAAGG-TTTAGAGTTTTGATTTTAGAGGTTTG
1 GAAGGTTTTAG-GGTTTGATTTTAGAGGTATG
16059001 GA
1 GA
16059003 TTTAAAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 15 0.54
31 8 0.29
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (31 bp):
GAAGGTTTTAGGGTTTGATTTTAGAGGTATG
Found at i:16059004 original size:15 final size:15
Alignment explanation
Indices: 16058945--16059139 Score: 68
Period size: 16 Copynumber: 12.8 Consensus size: 15
16058935 GTTTTGAAGG
16058945 TTTTAG-GGTTTGG-
1 TTTTAGAGGTTTGGA
*
16058958 TTTTA-AGGTATGGAA
1 TTTTAGAGGTTTGG-A
* *
16058973 GGTTTAGA-GTTTTGA
1 -TTTTAGAGGTTTGGA
16058988 TTTTAGAGGTTTGGA
1 TTTTAGAGGTTTGGA
*
16059003 -TTTAAAGGATTTTGGA
1 TTTTAGAGG--TTTGGA
* **
16059019 TTTAAGA-GTTTAAA
1 TTTTAGAGGTTTGGA
* *
16059033 GGTTT-GAGATTTCGGA
1 -TTTTAGAGGTTT-GGA
*
16059049 TTTTATG-GGATTTTAGA
1 TTTTA-GAGG--TTTGGA
*
16059066 TTTTAGGGGTTTCGGA
1 TTTTAGAGGTTT-GGA
*
16059082 TTTTAGGGGTTTGGA
1 TTTTAGAGGTTTGGA
* *
16059097 -TTTAAAGGATTTTGAA
1 TTTTAGAGG--TTTGGA
16059113 TTTTAG-GGTTTTGGA
1 TTTTAGAGG-TTTGGA
*
16059128 TTTTAGGGGTTT
1 TTTTAGAGGTTT
16059140 TAGAAATCTA
Statistics
Matches: 135, Mismatches: 25, Indels: 42
0.67 0.12 0.21
Matches are distributed among these distances:
13 11 0.08
14 25 0.19
15 36 0.27
16 41 0.30
17 19 0.14
18 3 0.02
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (15 bp):
TTTTAGAGGTTTGGA
Found at i:16059085 original size:16 final size:16
Alignment explanation
Indices: 16059046--16059140 Score: 104
Period size: 16 Copynumber: 6.0 Consensus size: 16
16059036 TTGAGATTTC
*
16059046 GGATTTTATGGGATTTT
1 GGATTTTA-GGGGTTTT
* *
16059063 AGATTTTAGGGGTTTC
1 GGATTTTAGGGGTTTT
16059079 GGATTTTAGGGG-TTT
1 GGATTTTAGGGGTTTT
* * *
16059094 GGATTTAAAGGATTTT
1 GGATTTTAGGGGTTTT
*
16059110 GAATTTTA-GGGTTTT
1 GGATTTTAGGGGTTTT
16059125 GGATTTTAGGGGTTTT
1 GGATTTTAGGGGTTTT
16059141 AGAAATCTAG
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
15 24 0.38
16 33 0.52
17 7 0.11
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (16 bp):
GGATTTTAGGGGTTTT
Found at i:16059512 original size:21 final size:23
Alignment explanation
Indices: 16059477--16059519 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
16059467 TTATTATTAT
16059477 TAAAACAATTAAAAAACTTATCC
1 TAAAACAATTAAAAAACTTATCC
16059500 TAAAA-AATT-AAAAACTTATC
1 TAAAACAATTAAAAAACTTATC
16059520 ATGCATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.55
22 4 0.20
23 5 0.25
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAACAATTAAAAAACTTATCC
Found at i:16066159 original size:19 final size:18
Alignment explanation
Indices: 16066135--16066171 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
16066125 GAATTGTTTT
16066135 TATATAATTATATATTTAA
1 TATATAATTAT-TATTTAA
16066154 TATATAATTATTATTTAA
1 TATATAATTATTATTTAA
16066172 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATAATTATTATTTAA
Found at i:16066637 original size:13 final size:13
Alignment explanation
Indices: 16066619--16066643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16066609 TTCTCATCAC
16066619 TTTAAAATTTTAT
1 TTTAAAATTTTAT
16066632 TTTAAAATTTTA
1 TTTAAAATTTTA
16066644 CTTTGTTTTC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAAATTTTAT
Found at i:16067877 original size:2 final size:2
Alignment explanation
Indices: 16067840--16067864 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16067830 AGTTGTAATA
16067840 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16067865 CACACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16069303 original size:23 final size:22
Alignment explanation
Indices: 16069277--16069324 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
16069267 ATTTTTTAAG
16069277 TAATAAAAATATTATTATAA-AAA
1 TAATAAAAATATT-TTA-AATAAA
16069300 TAATAAAAATATTTTAAATAAA
1 TAATAAAAATATTTTAAATAAA
16069322 TAA
1 TAA
16069325 AATACATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.08
22 9 0.38
23 13 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TAATAAAAATATTTTAAATAAA
Found at i:16074940 original size:109 final size:106
Alignment explanation
Indices: 16074748--16074943 Score: 293
Period size: 109 Copynumber: 1.8 Consensus size: 106
16074738 AAACAATTTC
* * **
16074748 GATCTTATGCTATTTTAGATTTTTTTTCTTTTTGTTTGTGCCATGTAATGCAGAATTTGACTGAT
1 GATCTTATACTATTTTAGATTTTTTTTCTTTTCGTTTGTGCCATACAATGCAGAATTTGACTGAT
* *
16074813 CTACCATGTAATATGCCTTCAATGCCTTTGCTTCTTCACAA
66 CTACCACGTAATAGGCCTTCAATGCCTTTGCTTCTTCACAA
*
16074854 GATCTTATACTATTTTAGATTTTTTTTTTTCTTTTCGTTTGTGCCATACAATGCGGAATTTGACT
1 GATCTTATACTATTTTAGA---TTTTTTTTCTTTTCGTTTGTGCCATACAATGCAGAATTTGACT
*
16074919 GATCTACTACGTAATAGGCCTTCAA
63 GATCTACCACGTAATAGGCCTTCAA
16074944 ATGAGAATAC
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
106 18 0.23
109 61 0.77
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.46
Consensus pattern (106 bp):
GATCTTATACTATTTTAGATTTTTTTTCTTTTCGTTTGTGCCATACAATGCAGAATTTGACTGAT
CTACCACGTAATAGGCCTTCAATGCCTTTGCTTCTTCACAA
Found at i:16075403 original size:6 final size:6
Alignment explanation
Indices: 16075392--16075435 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
16075382 TGACTTTTTT
* * *
16075392 TAATTA TAATTA TAATAA TTATTT TAAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T-AATTA TAATTA TAATTA T
16075436 TTTTAATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 27 0.87
7 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:16075421 original size:25 final size:25
Alignment explanation
Indices: 16075388--16075455 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 25
16075378 TTCTTGACTT
16075388 TTTTTAATTATAATTATAATAATTA
1 TTTTTAATTATAATTATAATAATTA
*
16075413 TTTTAAATTATAA-T-T-ATAATTA
1 TTTTTAATTATAATTATAATAATTA
*
16075435 TTTTTAATT-TAATTAAAATAA
1 TTTTTAATTATAATTATAATAA
16075456 ATCTCATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.08
22 16 0.43
23 1 0.03
24 5 0.14
25 12 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTTAATTATAATTATAATAATTA
Found at i:16080857 original size:58 final size:58
Alignment explanation
Indices: 16080767--16080885 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
16080757 AAGAGATAAT
16080767 TGATCAAAGACCTAAAAATCAACCTAAATCGGTAGATGATCTCGTAACTATACCTTTC
1 TGATCAAAGACCTAAAAATCAACCTAAATCGGTAGATGATCTCGTAACTATACCTTTC
16080825 TGATCAAAGACCTAAAAATCAACCTAAATCGGTAGATGATCTCGTAACTATACCTTTC
1 TGATCAAAGACCTAAAAATCAACCTAAATCGGTAGATGATCTCGTAACTATACCTTTC
16080883 TGA
1 TGA
16080886 GATAACATCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (58 bp):
TGATCAAAGACCTAAAAATCAACCTAAATCGGTAGATGATCTCGTAACTATACCTTTC
Found at i:16095924 original size:47 final size:47
Alignment explanation
Indices: 16095855--16095948 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
16095845 TTGAGAAAGA
*
16095855 AGGTATTAGACGGTGACACATATTCCTAGTGTTGTCCACTGGCCAGG
1 AGGTATTAGACAGTGACACATATTCCTAGTGTTGTCCACTGGCCAGG
16095902 AGGTATTAGACAGTGACACATATTCCTAGTGTTGTCCACTGGCCAGG
1 AGGTATTAGACAGTGACACATATTCCTAGTGTTGTCCACTGGCCAGG
16095949 TGGCACATTC
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:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (47 bp):
AGGTATTAGACAGTGACACATATTCCTAGTGTTGTCCACTGGCCAGG
Found at i:16097094 original size:2 final size:2
Alignment explanation
Indices: 16097087--16097111 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16097077 TGAATAAATT
16097087 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 T
16097112 TTTGCTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16099862 original size:17 final size:17
Alignment explanation
Indices: 16099836--16099879 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16099826 TAAATAAAGT
*
16099836 AAAAAA-AAAAAATTGG
1 AAAAAATAAAAAATTAG
*
16099852 AAAAAATAAAAAATTAT
1 AAAAAATAAAAAATTAG
16099869 AAAAAATAAAA
1 AAAAAATAAAA
16099880 TATAGTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAAAATAAAAAATTAG
Found at i:16103837 original size:22 final size:22
Alignment explanation
Indices: 16103812--16103863 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
16103802 ATACCTTTAA
16103812 GCATAATTTGTAAAACCTTCTG
1 GCATAATTTGTAAAACCTTCTG
**
16103834 GCATAATTTGTAAGGCCTTCTG
1 GCATAATTTGTAAAACCTTCTG
16103856 GCATAATT
1 GCATAATT
16103864 CTCAAGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (22 bp):
GCATAATTTGTAAAACCTTCTG
Found at i:16103895 original size:22 final size:22
Alignment explanation
Indices: 16103883--16103964 Score: 119
Period size: 22 Copynumber: 3.7 Consensus size: 22
16103873 TCCAGGTATG
* *
16103883 ATTTGTAAGACCTCTAAACATG
1 ATTTGTAAGACCTCCAAACATA
* *
16103905 ATTTATAAGACCTCCAAGCATA
1 ATTTGTAAGACCTCCAAACATA
16103927 ATTTGTAAGACCTCCAAACATA
1 ATTTGTAAGACCTCCAAACATA
*
16103949 ATTTTTAAGACCTCCA
1 ATTTGTAAGACCTCCA
16103965 GCATACTCTC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (22 bp):
ATTTGTAAGACCTCCAAACATA
Found at i:16103915 original size:44 final size:44
Alignment explanation
Indices: 16103813--16103969 Score: 147
Period size: 44 Copynumber: 3.6 Consensus size: 44
16103803 TACCTTTAAG
* * * * * * ***
16103813 CATAATTTGTAAAACCTTCTGGCATAATTTGTAAGGCCTTCTGG
1 CATAATTTATAAGACCTCCAGGCATAATTTGTAAGACCTCCAAA
* * * *
16103857 CATAATTCT-CAAGACCTCCAGGTATGATTTGTAAGACCTCTAAA
1 CATAATT-TATAAGACCTCCAGGCATAATTTGTAAGACCTCCAAA
* *
16103901 CATGATTTATAAGACCTCCAAGCATAATTTGTAAGACCTCCAAA
1 CATAATTTATAAGACCTCCAGGCATAATTTGTAAGACCTCCAAA
*
16103945 CATAATTTTTAAGACCTCCA-GCATA
1 CATAATTTATAAGACCTCCAGGCATA
16103970 CTCTCAGAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
43 6 0.07
44 84 0.92
45 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (44 bp):
CATAATTTATAAGACCTCCAGGCATAATTTGTAAGACCTCCAAA
Found at i:16104486 original size:39 final size:38
Alignment explanation
Indices: 16104406--16104559 Score: 150
Period size: 38 Copynumber: 4.0 Consensus size: 38
16104396 TCCCTTTTTA
* * * *
16104406 TATTTTTAAAG-TCATGTACCTTTATTATGATGAGCCTT
1 TATTTTTAAAGCT-GTGTGCCTCTATTATGAAGAGCCTT
* *
16104444 TATTTTTAAAGCTGTGTGCTTCTGTTATAGAAGAGCCTT
1 TATTTTTAAAGCTGTGTGCCTCTATTAT-GAAGAGCCTT
* * *
16104483 TATTTTTAAAGCTGTATGCCTCTATTATGAGGAGCCTC
1 TATTTTTAAAGCTGTGTGCCTCTATTATGAAGAGCCTT
* * * *
16104521 TATTTTTAAAGTTGTGAGTCTCTATT-TAGAGGAGCCTT
1 TATTTTTAAAGCTGTGTGCCTCTATTAT-GAAGAGCCTT
16104559 T
1 T
16104560 TATATTTTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.01
38 61 0.63
39 35 0.36
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (38 bp):
TATTTTTAAAGCTGTGTGCCTCTATTATGAAGAGCCTT
Found at i:16104562 original size:77 final size:77
Alignment explanation
Indices: 16104406--16104559 Score: 190
Period size: 77 Copynumber: 2.0 Consensus size: 77
16104396 TCCCTTTTTA
* * * * *
16104406 TATTTTTAAAGTCATGTACCTTTATTATGATGAGCCTTTATTTTTAAAGCTGTGTGCTTCTGTTA
1 TATTTTTAAAGTCATGTACCTCTATTATGAGGAGCCTCTATTTTTAAAGCTGTGAGCTTCTATTA
16104471 TAGAAGAGCCTT
66 TAGAAGAGCCTT
*
16104483 TATTTTTAAAG-C-TGTATGCCTCTATTATGAGGAGCCTCTATTTTTAAAGTTGTGAG-TCTCTA
1 TATTTTTAAAGTCATGTA--CCTCTATTATGAGGAGCCTCTATTTTTAAAGCTGTGAGCT-TCTA
*
16104545 TT-TAGAGGAGCCTT
63 TTATAGAAGAGCCTT
16104559 T
1 T
16104560 TATATTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
75 4 0.06
76 14 0.21
77 49 0.73
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (77 bp):
TATTTTTAAAGTCATGTACCTCTATTATGAGGAGCCTCTATTTTTAAAGCTGTGAGCTTCTATTA
TAGAAGAGCCTT
Found at i:16104744 original size:21 final size:21
Alignment explanation
Indices: 16104701--16104846 Score: 98
Period size: 21 Copynumber: 6.8 Consensus size: 21
16104691 ATCTTTGACA
* *
16104701 TGAATCTCTAAAATTTTCAAATG
1 TGAACCTCT-AAATTTT-GAATG
* *
16104724 AGAACCTTTAAATTTTGAATG
1 TGAACCTCTAAATTTTGAATG
* *
16104745 TGAATCTCTAAGATTTTAAATG
1 TGAACCTCTAA-ATTTTGAATG
*
16104767 TGAA--TACATGAATTTTGAATG
1 TGAACCT-C-TAAATTTTGAATG
* *
16104788 TAAATCTCTAAGATTTTGAATG
1 TGAACCTCTAA-ATTTTGAATG
* * *
16104810 TGAACCTTTGAATTTTGGATG
1 TGAACCTCTAAATTTTGAATG
* *
16104831 TGAATCTCTAGATTTT
1 TGAACCTCTAAATTTT
16104847 CAAATGTAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
20 1 0.01
21 48 0.50
22 40 0.42
23 7 0.07
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (21 bp):
TGAACCTCTAAATTTTGAATG
Found at i:16104781 original size:43 final size:43
Alignment explanation
Indices: 16104701--16104911 Score: 198
Period size: 43 Copynumber: 4.9 Consensus size: 43
16104691 ATCTTTGACA
* * * * *
16104701 TGAATCTCTAAAATTTTCAAATGAGAACCTTTAAATTTTGAATG
1 TGAATCTCTAAGATTTTCAAATGTGAAAC-ATGAATTTTGAATG
16104745 TGAATCTCTAAGATTTT-AAATGTGAATACATGAATTTTGAATG
1 TGAATCTCTAAGATTTTCAAATGTGAA-ACATGAATTTTGAATG
* * * * *
16104788 TAAATCTCTAAGATTTT-GAATGTGAACCTTTGAATTTTGGATG
1 TGAATCTCTAAGATTTTCAAATGTGAAAC-ATGAATTTTGAATG
* *
16104831 TGAATCTCT-AGATTTTCAAATGT-AAACATTTGAGTTTT-AGATA
1 TGAATCTCTAAGATTTTCAAATGTGAAACA--TGAATTTTGA-ATG
* *
16104874 TGAATCTCTAAGATTTTCGAATGTGAACCTATGAATTT
1 TGAATCTCTAAGATTTTCAAATGTGAAAC-ATGAATTT
16104912 ATAAGATTTT
Statistics
Matches: 138, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
42 11 0.08
43 87 0.63
44 36 0.26
45 3 0.02
46 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (43 bp):
TGAATCTCTAAGATTTTCAAATGTGAAACATGAATTTTGAATG
Found at i:16104824 original size:86 final size:86
Alignment explanation
Indices: 16104700--16104911 Score: 272
Period size: 86 Copynumber: 2.5 Consensus size: 86
16104690 AATCTTTGAC
* * * *
16104700 ATGAATCTCTAAAATTTTCAAATGAGAACCTTTAAATTTTGAATGTGAATCTCTAAGATTTT-AA
1 ATGAATCTCTAAGATTTTCGAATGTGAACCTTTGAATTTTGAATGTGAATCTCT-AGATTTTCAA
16104764 ATGTGAATACA-TGAATTTT-GA-
65 ATGT-AA-ACATTGAATTTTAGAT
*
16104785 ATGTAAATCTCTAAGATTTT-GAATGTGAACCTTTGAATTTTGGATGTGAATCTCTAGATTTTCA
1 ATG--AATCTCTAAGATTTTCGAATGTGAACCTTTGAATTTTGAATGTGAATCTCTAGATTTTCA
*
16104849 AATGTAAACATTTGAGTTTTAGAT
64 AATGTAAACA-TTGAATTTTAGAT
*
16104873 ATGAATCTCTAAGATTTTCGAATGTGAACCTATGAATTT
1 ATGAATCTCTAAGATTTTCGAATGTGAACCTTTGAATTT
16104912 ATAAGATTTT
Statistics
Matches: 112, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
84 3 0.03
85 12 0.11
86 59 0.53
87 35 0.31
88 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (86 bp):
ATGAATCTCTAAGATTTTCGAATGTGAACCTTTGAATTTTGAATGTGAATCTCTAGATTTTCAAA
TGTAAACATTGAATTTTAGAT
Found at i:16104928 original size:32 final size:31
Alignment explanation
Indices: 16104872--16104943 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
16104862 GAGTTTTAGA
* * *
16104872 TATGAATCTCTAAGATTTTCGAATGTGAACC
1 TATGAATTTATAAGATTTTCGAATGTAAACC
*
16104903 TATGAATTTATAAGATTTTTCGAATGTAAATC
1 TATGAATTTATAAGA-TTTTCGAATGTAAACC
*
16104935 TTTGAATTT
1 TATGAATTT
16104944 TGAATGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 13 0.37
32 22 0.63
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (31 bp):
TATGAATTTATAAGATTTTCGAATGTAAACC
Found at i:16104971 original size:22 final size:21
Alignment explanation
Indices: 16104925--16104983 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
16104915 AGATTTTTCG
* * *
16104925 AATGTAAATCTTTGAATTTTG
1 AATGTAAATCTCTAAATTTTA
16104946 AATGTAAATCTCTAAACTTTTA
1 AATGTAAATCTCTAAA-TTTTA
*
16104968 AATGTGAATCTCTAAA
1 AATGTAAATCTCTAAA
16104984 AATTTCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 14 0.42
22 19 0.58
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
AATGTAAATCTCTAAATTTTA
Found at i:16104998 original size:23 final size:22
Alignment explanation
Indices: 16104952--16104999 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16104942 TTTGAATGTA
* * *
16104952 AATCTCTAAACTTTTAAATGTG
1 AATCTCTAAAATTTCAAATATG
16104974 AATCTCTAAAAATTTCAAATATG
1 AATCTCT-AAAATTTCAAATATG
16104997 AAT
1 AAT
16105000 AAATCACTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (22 bp):
AATCTCTAAAATTTCAAATATG
Found at i:16105148 original size:36 final size:35
Alignment explanation
Indices: 16105108--16105239 Score: 147
Period size: 36 Copynumber: 3.7 Consensus size: 35
16105098 AATCTTTAAA
* *
16105108 CTTTTACGAATCTTTAAATTTTTGCGAATTTTGAAT
1 CTTTTACAAATC-TTAAATCTTTGCGAATTTTGAAT
* * *
16105144 CTTTTACAAATCTTGAATCTTTGCGAATCTTAAAT
1 CTTTTACAAATCTTAAATCTTTGCGAATTTTGAAT
* * * *
16105179 CTTTTGCAAATATTTGAATCTTTGCAAATTTTTGAAT
1 CTTTTACAAAT-CTTAAATCTTTGCGAA-TTTTGAAT
*
16105216 CTTTTACAAATCTTAAATTTTTGC
1 CTTTTACAAATCTTAAATCTTTGC
16105240 TAATCTTTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
35 29 0.36
36 35 0.44
37 16 0.20
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (35 bp):
CTTTTACAAATCTTAAATCTTTGCGAATTTTGAAT
Found at i:16105156 original size:54 final size:53
Alignment explanation
Indices: 16105098--16105239 Score: 171
Period size: 53 Copynumber: 2.6 Consensus size: 53
16105088 GAAATTTGCT
* *
16105098 AATCTTTAAACTTTTACGAATCTTTAAATTTTTGCGAAT-TTTGAATCTTTTACA
1 AATCTTTAATCTTTTACGAATC-TTAAATTTTTGCAAATATTTGAATC-TTTACA
* * *
16105152 AATCTTGAATC-TTTGCGAATCTTAAATCTTTTGCAAATATTTGAATCTTTGCA
1 AATCTTTAATCTTTTACGAATCTTAAAT-TTTTGCAAATATTTGAATCTTTACA
* *
16105205 AATTTTTGAATCTTTTACAAATCTTAAATTTTTGC
1 AATCTTT-AATCTTTTACGAATCTTAAATTTTTGC
16105240 TAATCTTTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
52 6 0.08
53 28 0.37
54 27 0.36
55 14 0.19
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.47
Consensus pattern (53 bp):
AATCTTTAATCTTTTACGAATCTTAAATTTTTGCAAATATTTGAATCTTTACA
Found at i:16105184 original size:18 final size:18
Alignment explanation
Indices: 16105092--16105257 Score: 108
Period size: 18 Copynumber: 9.2 Consensus size: 18
16105082 AATCTTGAAA
*
16105092 TTTGCTAATCTTTAAA-CT
1 TTTGCAAATC-TTAAATCT
* *
16105110 TTTACGAATCTTTAAAT-T
1 TTTGCAAATC-TTAAATCT
* * *
16105128 TTTGCGAATTTTGAATCT
1 TTTGCAAATCTTAAATCT
* *
16105146 TTTACAAATCTTGAATC-
1 TTTGCAAATCTTAAATCT
*
16105163 TTTGCGAATCTTAAATCT
1 TTTGCAAATCTTAAATCT
* *
16105181 TTTGCAAATATTTGAATC-
1 TTTGCAAAT-CTTAAATCT
* *
16105199 TTTGCAAATTTTTGAATCT
1 TTTGCAAA-TCTTAAATCT
*
16105218 TTTACAAATCTTAAAT-T
1 TTTGCAAATCTTAAATCT
* *
16105235 TTTGCTAATCTTTAAATAT
1 TTTGCAAATC-TTAAATCT
16105254 TTTG
1 TTTG
16105258 TGAACCTTGA
Statistics
Matches: 121, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
17 28 0.23
18 74 0.61
19 19 0.16
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (18 bp):
TTTGCAAATCTTAAATCT
Found at i:16105456 original size:21 final size:20
Alignment explanation
Indices: 16105343--16105457 Score: 74
Period size: 22 Copynumber: 5.5 Consensus size: 20
16105333 TTTGCAAGTA
*
16105343 TTTAAA-TTCAAATTGAAAAT
1 TTTAAATTTC-AATTGCAAAT
*
16105363 CTTTAAAATT-AATTGCAAAT
1 -TTTAAATTTCAATTGCAAAT
*
16105383 TTCTGAATTTCAAGTTG-AGAAT
1 TT-TAAATTTCAA-TTGCA-AAT
* *
16105405 TCTTAAAATTCAAATTGTAAAT
1 T-TTAAATTTC-AATTGCAAAT
16105427 GTTTAAATTTCAATTGCAAACT
1 -TTTAAATTTCAATTGCAAA-T
*
16105449 TTTGAATTT
1 TTTAAATTT
16105458 TAGTTGCGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.03
20 14 0.18
21 25 0.33
22 30 0.39
23 5 0.07
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTAAATTTCAATTGCAAAT
Found at i:16107104 original size:22 final size:22
Alignment explanation
Indices: 16107078--16107121 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
16107068 TCATATCTAA
16107078 TTTTAGGTTTATGGATCTATAC
1 TTTTAGGTTTATGGATCTATAC
16107100 TTTTAGGTTTATGGATCTATAC
1 TTTTAGGTTTATGGATCTATAC
16107122 ATTATGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.50
Consensus pattern (22 bp):
TTTTAGGTTTATGGATCTATAC
Found at i:16115648 original size:22 final size:22
Alignment explanation
Indices: 16115599--16115651 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
16115589 TGTTAATATG
16115599 ATAAATATAAAACTAATTTTTT
1 ATAAATATAAAACTAATTTTTT
*
16115621 ATTAAATATATATA-TAATTTTTT
1 A-TAAATATA-AAACTAATTTTTT
16115644 ATAAATAT
1 ATAAATAT
16115652 TTTAAGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.29
23 18 0.64
24 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAATATAAAACTAATTTTTT
Found at i:16128901 original size:29 final size:27
Alignment explanation
Indices: 16128852--16128908 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
16128842 ACATTAAAAG
* *
16128852 TATTTTGCTATTTTAATTTTAAATATT
1 TATTTTGATATTTTAAATTTAAATATT
16128879 TATTTTGTATATTATTAAATTTAAATATT
1 TATTTTG-ATATT-TTAAATTTAAATATT
16128908 T
1 T
16128909 TTAATATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTTTGATATTTTAAATTTAAATATT
Found at i:16129020 original size:42 final size:43
Alignment explanation
Indices: 16128919--16129022 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 43
16128909 TTAATATTTC
*
16128919 AATAATAAATAGTATTATATTATTATTTTAATAATAAATAATA
1 AATAATAAATAATATTATATTATTATTTTAATAATAAATAATA
* * * **
16128962 ACAT-ATATAATTATATT-T-TTATTATTTTACTAATTAATGTTA
1 A-ATAATA-AATAATATTATATTATTATTTTAATAATAAATAATA
16129004 AATAATACAATAATATTAT
1 AATAATA-AATAATATTAT
16129023 TTTCTTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.04
42 32 0.65
43 6 0.12
44 9 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
AATAATAAATAATATTATATTATTATTTTAATAATAAATAATA
Found at i:16129667 original size:21 final size:21
Alignment explanation
Indices: 16129643--16129694 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
16129633 TTCGAAATTA
16129643 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
16129664 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
16129685 ATAAAATATT
1 ATAAAATATT
16129695 TAAAAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:16136172 original size:60 final size:62
Alignment explanation
Indices: 16136054--16136192 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 62
16136044 TCATAACTAA
* * * **
16136054 CTAAAATTATTATAATATTTCTTTTATCATAATTACGAAAATATCATTTTTACTATAATT-G
1 CTAAAATTACTATAATATTTCTTTTATCATAATTACAAAAATATCACTCATACTATAATTAG
* *
16136115 ATCAAAATTACTATAATA-TT-TTTTATCATAATTACAAAAATATCCCTCATA-TCATAATTAG
1 CT-AAAATTACTATAATATTTCTTTTATCATAATTACAAAAATATCACTCATACT-ATAATTAG
16136176 CTAAAATTACTATAATA
1 CTAAAATTACTATAATA
16136193 GCTTATCTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 1 0.01
60 47 0.70
61 5 0.07
62 14 0.21
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.42
Consensus pattern (62 bp):
CTAAAATTACTATAATATTTCTTTTATCATAATTACAAAAATATCACTCATACTATAATTAG
Found at i:16142581 original size:61 final size:62
Alignment explanation
Indices: 16142452--16142601 Score: 216
Period size: 61 Copynumber: 2.4 Consensus size: 62
16142442 ACCCATGCTT
* * *
16142452 TCATAATTAGCTAAAATTACTATAATATATTTTTTATTATAATTACGAAAATATCTCTTATA
1 TCATAATTAGCTAAAATTACTATAATATATTTTTTATCATAATTACGAAAATATCCCTCATA
*
16142514 -CTATAATTAG-TCAAAATTACTATAATAT-TTTTTTATCATAATTATGAAAATATCCCTCATA
1 TC-ATAATTAGCT-AAAATTACTATAATATATTTTTTATCATAATTACGAAAATATCCCTCATA
*
16142575 TCATAATTGGCTAAAATTACTATAATA
1 TCATAATTAGCTAAAATTACTATAATA
16142602 GCCAATCACC
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
61 53 0.67
62 26 0.33
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (62 bp):
TCATAATTAGCTAAAATTACTATAATATATTTTTTATCATAATTACGAAAATATCCCTCATA
Found at i:16143336 original size:45 final size:45
Alignment explanation
Indices: 16143285--16143378 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
16143275 TTACATATTT
* *
16143285 AATTACTATAAATCTATACAATATATTGAAAGTTTCTCCTATGAA
1 AATTACTATAAATCTATACAATATATTAAAAGTATCTCCTATGAA
16143330 AATTACTATAAATCTATACAATATATTAAAAGTATCTCCTATGAA
1 AATTACTATAAATCTATACAATATATTAAAAGTATCTCCTATGAA
16143375 AATT
1 AATT
16143379 GTTAAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (45 bp):
AATTACTATAAATCTATACAATATATTAAAAGTATCTCCTATGAA
Found at i:16143421 original size:23 final size:23
Alignment explanation
Indices: 16143378--16143421 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16143368 CTATGAAAAT
* *
16143378 TGTTAAAAAAATATATTTATTAA
1 TGTTAAAAAAATAAATATATTAA
*
16143401 TGTTAAAATAATAAATATATT
1 TGTTAAAAAAATAAATATATT
16143422 TTCATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
TGTTAAAAAAATAAATATATTAA
Found at i:16143961 original size:23 final size:22
Alignment explanation
Indices: 16143931--16143973 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
16143921 AAATTGTTAT
**
16143931 TAAATTAATTTAAAAAAATTCA
1 TAAATTAACCTAAAAAAATTCA
16143953 TAAACTTAACCTAAAAAAATT
1 TAAA-TTAACCTAAAAAAATT
16143974 TATCTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATTAACCTAAAAAAATTCA
Found at i:16144219 original size:8 final size:8
Alignment explanation
Indices: 16144199--16144228 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
16144189 TTATAAATTG
16144199 AATATTATA
1 AATATT-TA
16144208 AATATTTA
1 AATATTTA
16144216 AATATTTA
1 AATATTTA
16144224 AATAT
1 AATAT
16144229 ATAATTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AATATTTA
Found at i:16148055 original size:17 final size:18
Alignment explanation
Indices: 16148028--16148063 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
16148018 CATGCTCAGA
*
16148028 AAAAACAAATTGAGACAT
1 AAAAACAAATTGAAACAT
16148046 AAAAAC-AATTGAAACAT
1 AAAAACAAATTGAAACAT
16148063 A
1 A
16148064 CGTAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (18 bp):
AAAAACAAATTGAAACAT
Found at i:16148174 original size:31 final size:31
Alignment explanation
Indices: 16148108--16148175 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
16148098 CAAAACTCAT
* * *
16148108 GAAATTATTCAAATAAATGAAGTTTTTTCAC
1 GAAATTATTCAAATAAATGAAATTTTTTAAA
* *
16148139 GAAATTATTTAAA-AAATTAAATTTCTTTAAA
1 GAAATTATTCAAATAAATGAAATTT-TTTAAA
16148170 GAAATT
1 GAAATT
16148176 GAATATATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (31 bp):
GAAATTATTCAAATAAATGAAATTTTTTAAA
Found at i:16148421 original size:27 final size:26
Alignment explanation
Indices: 16148368--16148418 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16148358 AAATATTATG
16148368 GAAAAAAAAAGGAAAGGAAAAGGAAT
1 GAAAAAAAAAGGAAAGGAAAAGGAAT
* *
16148394 GAAAAAAGTAAGGAAATG-AAAGGAA
1 GAAAAAA-AAAGGAAAGGAAAAGGAA
16148419 ATGGGGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (26 bp):
GAAAAAAAAAGGAAAGGAAAAGGAAT
Found at i:16173714 original size:29 final size:30
Alignment explanation
Indices: 16173662--16173745 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
16173652 CCTACCCAAG
** **
16173662 TATATATTATATTCTTAATTTTA-TATTTA
1 TATATATTATATTAATAAAATTATTATTTA
16173691 TATATATTATATTAATAAAATTATTATTTA
1 TATATATTATATTAATAAAATTATTATTTA
16173721 -ATACT-TTA-ATTTAATAAAA-TATTAT
1 TATA-TATTATA-TTAATAAAATTATTAT
16173746 GCTTGTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.15
29 34 0.71
30 7 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (30 bp):
TATATATTATATTAATAAAATTATTATTTA
Found at i:16174314 original size:23 final size:22
Alignment explanation
Indices: 16174261--16174315 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
16174251 TTTATGATGG
*
16174261 AATTTATTTTATATTATTGATTAA
1 AATTT-TTTTATATTATTAATT-A
* *
16174285 AAATTTTCTATATTATTAATTA
1 AATTTTTTTATATTATTAATTA
16174307 AATTTTTTT
1 AATTTTTTT
16174316 CTTTGTCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.31
23 14 0.54
24 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
AATTTTTTTATATTATTAATTA
Found at i:16175262 original size:12 final size:12
Alignment explanation
Indices: 16175245--16175277 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16175235 ATCCCATTTA
16175245 ATTATTTTAATT
1 ATTATTTTAATT
16175257 ATTATTTTAA-T
1 ATTATTTTAATT
16175268 ATT-TTTTAAT
1 ATTATTTTAAT
16175278 AAAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 4 0.20
12 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTATTTTAATT
Found at i:16176405 original size:5 final size:5
Alignment explanation
Indices: 16176395--16176419 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16176385 CAATTAAGGC
16176395 CAAAG CAAAG CAAAG CAAAG CAAAG
1 CAAAG CAAAG CAAAG CAAAG CAAAG
16176420 AGGGAGAAAG
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:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
CAAAG
Found at i:16185254 original size:11 final size:11
Alignment explanation
Indices: 16185240--16185269 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16185230 TTTATAAGAG
16185240 ATTTATTAAAA
1 ATTTATTAAAA
*
16185251 ATTTATTTAAA
1 ATTTATTAAAA
16185262 ATTTATTA
1 ATTTATTA
16185270 CATATTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTATTAAAA
Found at i:16185445 original size:52 final size:51
Alignment explanation
Indices: 16185298--16185423 Score: 128
Period size: 51 Copynumber: 2.4 Consensus size: 51
16185288 AAAAACTTGT
* * * * * *
16185298 AAAAGAAAAATTTTAACA-AAAAAAAATTTTTTAATATGTAAATTTGACTTAC
1 AAAAGAAAAA-TTTAAGAGAAAATAAA-TTCTTAATAGGCAAGTTTGACTTAC
* *
16185350 AAAAGAAAAATTTAAGAGGAAATAAATTCTTAATAGGTAAGTTTGACTTAC
1 AAAAGAAAAATTTAAGAGAAAATAAATTCTTAATAGGCAAGTTTGACTTAC
* *
16185401 AAGAGAAGAATTCTAAGAGAAAA
1 AAAAGAAAAATT-TAAGAGAAAA
16185424 GTGATTTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
51 38 0.60
52 25 0.40
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.29
Consensus pattern (51 bp):
AAAAGAAAAATTTAAGAGAAAATAAATTCTTAATAGGCAAGTTTGACTTAC
Found at i:16186350 original size:11 final size:11
Alignment explanation
Indices: 16186333--16186375 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
16186323 AAATCTCATA
16186333 AGAGATTTGTT
1 AGAGATTTGTT
*
16186344 TGAGATTTGTT
1 AGAGATTTGTT
16186355 AGAGATTTGTT
1 AGAGATTTGTT
16186366 AGAGATTTGT
1 AGAGATTTGT
16186376 CAGATATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:16186361 original size:22 final size:22
Alignment explanation
Indices: 16186333--16186388 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
16186323 AAATCTCATA
*
16186333 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTC
*
16186355 AGAGATTTGTTAGAGATTTGTC
1 AGAGATTTGTTTGAGATTTGTC
*
16186377 AGATA-TTGTTTG
1 AGAGATTTGTTTG
16186389 TGGACAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTC
Found at i:16186473 original size:52 final size:51
Alignment explanation
Indices: 16186406--16186555 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 51
16186396 GAAAACTTAT
* * *
16186406 AAAAAAAGAATTCTAAGAGAAAGAGAATTCTTAATAGGTACGTTTGATTTGC
1 AAAAGAAGAATTCTAAGAGAAA-AGAATTCTTAATAGGTAAGTTTGATTTAC
* * *
16186458 AAAAGAAGAATTCTAAGAGGAAAAAAATTCTTAATAGGCAAGTTTGATTTAT
1 AAAAGAAGAATTCTAAGA-GAAAAGAATTCTTAATAGGTAAGTTTGATTTAC
* * *
16186510 AAGAGAAGAATTCTAAGAGAAAAGGGATTCTTAATGGGTAAGTTTG
1 AAAAGAAGAATTCTAAGAGAAAA-GAATTCTTAATAGGTAAGTTTG
16186556 TATGGTTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 5 0.06
52 76 0.89
53 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGAAGAATTCTAAGAGAAAAGAATTCTTAATAGGTAAGTTTGATTTAC
Found at i:16194259 original size:12 final size:12
Alignment explanation
Indices: 16194234--16194274 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
16194224 TATATAAACA
16194234 AATTATTT-TTT
1 AATTATTTATTT
16194245 AATTATTTATTT
1 AATTATTTATTT
16194257 AATT-TTATATTT
1 AATTATT-TATTT
*
16194269 ATTTAT
1 AATTAT
16194275 ATATGTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.38
12 15 0.58
13 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:16195690 original size:35 final size:35
Alignment explanation
Indices: 16195622--16195690 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
16195612 AAAAAAAGGT
* *
16195622 ATTGATAACCAACTTTGTTCCATCGATAGAGGAAA
1 ATTGATAACCAACTTTGGTCCATCGATAAAGGAAA
* * *
16195657 ATTGATAACCCACTTTGGTCTATTGATAAAGGAA
1 ATTGATAACCAACTTTGGTCCATCGATAAAGGAA
16195691 GCATGATTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (35 bp):
ATTGATAACCAACTTTGGTCCATCGATAAAGGAAA
Found at i:16199952 original size:17 final size:17
Alignment explanation
Indices: 16199917--16199987 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 17
16199907 AGAGGTTCTT
*
16199917 TTTTATTAAATTATCTA
1 TTTTATTTAATTATCTA
* *
16199934 TTTTATTTAATTTTGTA
1 TTTTATTTAATTATCTA
*
16199951 TTTT-TTT-ATTGATCGA
1 TTTTATTTAATT-ATCTA
16199967 --TTATTTAATTA--TA
1 TTTTATTTAATTATCTA
16199980 TTTTATTT
1 TTTTATTT
16199988 GTTTTATGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
13 1 0.02
14 2 0.05
15 13 0.31
16 8 0.19
17 18 0.43
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTATTTAATTATCTA
Found at i:16204688 original size:64 final size:64
Alignment explanation
Indices: 16204556--16204713 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 64
16204546 CCCAAACCTT
* * * ** * * *
16204556 AAAATATAAAAAAATTATTTAAAGTA-TTTTCTGTATAAAAACGTCTTAAATAATTTTTTTATA
1 AAAATATAAAATAATTATTTAAAGTATTTTTCTATACAAAAACACCTCAAATAATATATTTATA
* * * * *
16204619 CAAATATAAATTAATTATTTAAGGTATTTTTCTATACAAAAATACCTCAAATAATATATTTGTA
1 AAAATATAAAATAATTATTTAAAGTATTTTTCTATACAAAAACACCTCAAATAATATATTTATA
* *
16204683 AAAATATAAAATAATTATTTAATGCATTTTT
1 AAAATATAAAATAATTATTTAAAGTATTTTT
16204714 TCATGCCAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
63 22 0.29
64 55 0.71
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.42
Consensus pattern (64 bp):
AAAATATAAAATAATTATTTAAAGTATTTTTCTATACAAAAACACCTCAAATAATATATTTATA
Found at i:16205479 original size:15 final size:16
Alignment explanation
Indices: 16205456--16205489 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16205446 TTATGAGATT
16205456 AATAAAAATA-TTTAA
1 AATAAAAATATTTTAA
*
16205471 AATATAAATATTTTAA
1 AATAAAAATATTTTAA
16205487 AAT
1 AAT
16205490 TTTAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAAAATATTTTAA
Found at i:16218224 original size:27 final size:27
Alignment explanation
Indices: 16218186--16218240 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16218176 CTGCTACAAA
16218186 ATGCTTTTAAGATTATTGGACAGAGTG
1 ATGCTTTTAAGATTATTGGACAGAGTG
16218213 ATGCTTTTAAGATTATTGGACAGAGTG
1 ATGCTTTTAAGATTATTGGACAGAGTG
16218240 A
1 A
16218241 CAGAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (27 bp):
ATGCTTTTAAGATTATTGGACAGAGTG
Found at i:16220080 original size:2 final size:2
Alignment explanation
Indices: 16220073--16220097 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16220063 ACACCTTCAA
16220073 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
16220098 TACTGCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16224114 original size:27 final size:28
Alignment explanation
Indices: 16224084--16224151 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
16224074 TTTTTGAATT
16224084 ATTTTTATTTTTTAATTAAGTTTT-AT-A
1 ATTTTTATTTTTTAATTAA-TTTTAATAA
* * *
16224111 ATTTTTATTCTTTGATTTATTTTAAATAA
1 ATTTTTATTTTTTAATTAATTTT-AATAA
16224140 ATTTTTATTTTT
1 ATTTTTATTTTT
16224152 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 16 0.47
28 2 0.06
29 12 0.35
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (28 bp):
ATTTTTATTTTTTAATTAATTTTAATAA
Found at i:16224260 original size:23 final size:24
Alignment explanation
Indices: 16224211--16224257 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
16224201 TTAAAAAAAT
16224211 ATTTAAATATAATAAAATATATAA
1 ATTTAAATATAATAAAATATATAA
*
16224235 ATTTATATA-AATAAAATA-ATAA
1 ATTTAAATATAATAAAATATATAA
16224257 A
1 A
16224258 ATTGATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATTTAAATATAATAAAATATATAA
Found at i:16233130 original size:2 final size:2
Alignment explanation
Indices: 16233123--16233169 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
16233113 CCGTAAATCC
16233123 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16233165 CT CT C
1 CT CT C
16233170 CCCCTTTTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:16235672 original size:24 final size:24
Alignment explanation
Indices: 16235641--16235688 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
16235631 AATATCTAAA
*
16235641 AAATGTATAAAATGATAAAATATT
1 AAATGTATAAAATAATAAAATATT
*
16235665 AAATGTATAAAATAATATAATATT
1 AAATGTATAAAATAATAAAATATT
16235689 TTTCTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATGTATAAAATAATAAAATATT
Found at i:16239001 original size:19 final size:20
Alignment explanation
Indices: 16238977--16239021 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
16238967 TTATTAACAT
*
16238977 TTTATATTA-ATGTTTATGG
1 TTTATATTATATGTTTATGC
*
16238996 TTTATA-TATTTGTTTATGC
1 TTTATATTATATGTTTATGC
16239015 TTTATAT
1 TTTATAT
16239022 ATTGAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.62
Consensus pattern (20 bp):
TTTATATTATATGTTTATGC
Found at i:16239022 original size:19 final size:19
Alignment explanation
Indices: 16238987--16239024 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16238977 TTTATATTAA
*
16238987 TGTTTATGGTTTATATATT
1 TGTTTATGCTTTATATATT
16239006 TGTTTATGCTTTATATATT
1 TGTTTATGCTTTATATATT
16239025 GAACATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.63
Consensus pattern (19 bp):
TGTTTATGCTTTATATATT
Found at i:16239131 original size:19 final size:18
Alignment explanation
Indices: 16239080--16239120 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16239070 ATGGATATTT
*
16239080 TATAAATATA-AACTAAA
1 TATAAACATATAACTAAA
*
16239097 TATAAACATTTAACTAAA
1 TATAAACATATAACTAAA
16239115 TATAAA
1 TATAAA
16239121 ATCAATAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAAACATATAACTAAA
Found at i:16241087 original size:18 final size:17
Alignment explanation
Indices: 16241066--16241126 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
16241056 TCTCACTCCT
16241066 ATAACAACAACAACAACA
1 ATAACAACAACAACAA-A
* *
16241084 ATAAGATCAACAACATAA
1 ATAACAACAACAACA-AA
* *
16241102 ATAATAACATCAACAATA
1 ATAACAACAACAACAA-A
16241120 ATAACAA
1 ATAACAA
16241127 TCAATCAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 1 0.03
18 33 0.94
19 1 0.03
ACGTcount: A:0.64, C:0.20, G:0.02, T:0.15
Consensus pattern (17 bp):
ATAACAACAACAACAAA
Found at i:16241096 original size:21 final size:20
Alignment explanation
Indices: 16241070--16241127 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
16241060 ACTCCTATAA
*
16241070 CAACAACAACAACAATAAGAT
1 CAACAACAA-AACAATAACAT
*
16241091 CAACAACATAAATAATAACAT
1 CAACAACA-AAACAATAACAT
*
16241112 CAACAATAATAACAAT
1 CAACAACAA-AACAAT
16241128 CAATCAAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.62, C:0.21, G:0.02, T:0.16
Consensus pattern (20 bp):
CAACAACAAAACAATAACAT
Found at i:16241110 original size:15 final size:15
Alignment explanation
Indices: 16241074--16241126 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
16241064 CTATAACAAC
16241074 AACAACAACAATAAGAT
1 AACAACAACAAT-A-AT
16241091 CAACAACATA-AATAAT
1 -AACAACA-ACAATAAT
*
16241107 AACATCAACAATAAT
1 AACAACAACAATAAT
16241122 AACAA
1 AACAA
16241127 TCAATCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 1 0.03
15 16 0.52
16 2 0.06
17 1 0.03
18 10 0.32
19 1 0.03
ACGTcount: A:0.64, C:0.19, G:0.02, T:0.15
Consensus pattern (15 bp):
AACAACAACAATAAT
Found at i:16244483 original size:20 final size:19
Alignment explanation
Indices: 16244450--16244488 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16244440 TTTTTTAATT
*
16244450 GTAATAAAATAATCCAAAA
1 GTAATAAAAAAATCCAAAA
16244469 GTAATCAAAAAAATCCAAAA
1 GTAAT-AAAAAAATCCAAAA
16244489 AATAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (19 bp):
GTAATAAAAAAATCCAAAA
Found at i:16246812 original size:22 final size:22
Alignment explanation
Indices: 16246787--16246839 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
16246777 ATATATAATT
16246787 ATATAATTATA-TTTAAAAAATA
1 ATAT-ATTATATTTTAAAAAATA
*
16246809 ATATTTTATATTTTAAAAAATA
1 ATATATTATATTTTAAAAAATA
*
16246831 ATATTTTAT
1 ATATATTAT
16246840 TAATTTCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATTATATTTTAAAAAATA
Found at i:16246819 original size:21 final size:22
Alignment explanation
Indices: 16246793--16246839 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
16246783 AATTATATAA
16246793 TTATA-TTTAAAAAATAATATT
1 TTATATTTTAAAAAATAATATT
16246814 TTATATTTTAAAAAATAATATT
1 TTATATTTTAAAAAATAATATT
16246836 TTAT
1 TTAT
16246840 TAATTTCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATATTTTAAAAAATAATATT
Found at i:16248471 original size:18 final size:19
Alignment explanation
Indices: 16248448--16248489 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
16248438 TTAAAAGAAT
*
16248448 TTTTTTTTAAT-TTAAAAA
1 TTTTTTTAAATGTTAAAAA
*
16248466 -TTTTTTAAATGTTTAAAA
1 TTTTTTTAAATGTTAAAAA
16248484 TTTTTT
1 TTTTTT
16248490 CCAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTTTAAATGTTAAAAA
Found at i:16248509 original size:40 final size:37
Alignment explanation
Indices: 16248456--16248564 Score: 103
Period size: 40 Copynumber: 2.8 Consensus size: 37
16248446 ATTTTTTTTT
* *
16248456 AATTTAAAAATTTTTTAAATGTTTAAAATTTTTTCCAAAA
1 AATTGAAATATTTTTTAAAT-TTTAAAATTTTTT--AAAA
* **
16248496 AATTGAAATATTTTATAAATTTATAAAAAAATTTTAAAA
1 AATTGAAATATTTTTTAAATTT-T-AAAATTTTTTAAAA
*
16248535 AA-TGAAATATTTTTTGAAATTGTAAAATTT
1 AATTGAAATATTTTTT-AAATTTTAAAATTT
16248565 AAAAATTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
37 5 0.09
38 13 0.23
39 13 0.23
40 18 0.32
41 8 0.14
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.45
Consensus pattern (37 bp):
AATTGAAATATTTTTTAAATTTTAAAATTTTTTAAAA
Found at i:16248764 original size:35 final size:37
Alignment explanation
Indices: 16248725--16248794 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
16248715 AACTTAAAAA
16248725 TTGAAAAT-AAAAAATCTAAAAATTT-TTAAAAAGAT
1 TTGAAAATAAAAAAATCTAAAAATTTATTAAAAAGAT
16248760 TTGAAAATAAAAAAAATCTAAAAATTTATTAAAAA
1 TTGAAAAT-AAAAAAATCTAAAAATTTATTAAAAA
16248795 ATTCATCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
35 8 0.25
37 17 0.53
38 7 0.22
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (37 bp):
TTGAAAATAAAAAAATCTAAAAATTTATTAAAAAGAT
Found at i:16248795 original size:21 final size:20
Alignment explanation
Indices: 16248732--16248824 Score: 79
Period size: 21 Copynumber: 4.8 Consensus size: 20
16248722 AAATTGAAAA
16248732 TAAAAAA-TCTAAAAATTTT
1 TAAAAAATTCTAAAAATTTT
*
16248751 TAAAAAGATT-TGAAAA---T
1 TAAAAA-ATTCTAAAAATTTT
* *
16248768 AAAAAAAATCTAAAAATTTAT
1 TAAAAAATTCTAAAAATTT-T
* *
16248789 TAAAAAATTCATCACAATTTT
1 TAAAAAATTC-TAAAAATTTT
16248810 TAAAAAATTCTAAAA
1 TAAAAAATTCTAAAA
16248825 GTAAAAAGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
16 2 0.04
17 11 0.20
19 6 0.11
20 9 0.16
21 21 0.38
22 7 0.12
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAAATTCTAAAAATTTT
Found at i:16248944 original size:19 final size:18
Alignment explanation
Indices: 16248896--16248937 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
16248886 CAAAACTTAT
*
16248896 AAATTT-AATAAAAATAA
1 AAATTTCAAAAAAAATAA
16248913 AAATTTTCAAAAAAAATGAA
1 AAA-TTTCAAAAAAAAT-AA
16248933 AAATT
1 AAATT
16248938 CATAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 3 0.14
19 10 0.48
20 5 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATTTCAAAAAAAATAA
Found at i:16249054 original size:20 final size:21
Alignment explanation
Indices: 16249031--16249069 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16249021 CAAATTGTTT
*
16249031 AAAATTTTTAGA-TTTTTTCA
1 AAAAATTTTAGACTTTTTTCA
16249051 AAAAATTTTAGACTTTTTT
1 AAAAATTTTAGACTTTTTT
16249070 TTATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
AAAAATTTTAGACTTTTTTCA
Found at i:16249121 original size:30 final size:29
Alignment explanation
Indices: 16249082--16249152 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
16249072 ATTTTCAATT
* *
16249082 TTTTAAGTTTTTGTGAATTTTT-TTAGAA
1 TTTTGAGTTTTTGTGAATTTTTATTAAAA
* *
16249110 TTTTAAGAGTTTATGTGGATTTTTATTAAAA
1 TTTT--GAGTTTTTGTGAATTTTTATTAAAA
16249141 TTTTGAGTTTTT
1 TTTTGAGTTTTT
16249153 TTTAAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.11
29 7 0.20
30 15 0.43
31 9 0.26
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.59
Consensus pattern (29 bp):
TTTTGAGTTTTTGTGAATTTTTATTAAAA
Found at i:16249151 original size:19 final size:19
Alignment explanation
Indices: 16249129--16249182 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
16249119 TTTATGTGGA
16249129 TTTTTATTAAAATTTTGAG
1 TTTTTATTAAAATTTTGAG
* *
16249148 TTTTTTTTAAATTTTTTGAG
1 TTTTTATTAAA-ATTTTGAG
*
16249168 TTTTCA-TAAAATTTT
1 TTTTTATTAAAATTTT
16249183 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 4 0.14
19 14 0.48
20 11 0.38
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTTATTAAAATTTTGAG
Found at i:16249152 original size:20 final size:20
Alignment explanation
Indices: 16249129--16249171 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16249119 TTTATGTGGA
*
16249129 TTTTTATTAAA-ATTTTGAG
1 TTTTTTTTAAATATTTTGAG
*
16249148 TTTTTTTTAAATTTTTTGAG
1 TTTTTTTTAAATATTTTGAG
16249168 TTTT
1 TTTT
16249172 CATAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTTTTTAAATATTTTGAG
Found at i:16249179 original size:20 final size:20
Alignment explanation
Indices: 16249141--16249184 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16249131 TTTATTAAAA
** *
16249141 TTTTGAGTTTTTTTTAAATT
1 TTTTGAGTTTTCATAAAATT
16249161 TTTTGAGTTTTCATAAAATT
1 TTTTGAGTTTTCATAAAATT
16249181 TTTT
1 TTTT
16249185 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTGAGTTTTCATAAAATT
Found at i:16249818 original size:27 final size:29
Alignment explanation
Indices: 16249781--16249861 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 29
16249771 ATATAATTAC
*
16249781 ATAATAATTTTATTAATTTATTAT-AATAA
1 ATAA-AATTTTATTAATTTATAATAAATAA
16249810 AT-AAATTTTATT-ATTATATAATAAATAA
1 ATAAAATTTTATTAATT-TATAATAAATAA
16249838 ATAAAATTCTTATTAATTTTATAA
1 ATAAAATT-TTATTAA-TTTATAA
16249862 ATTTAAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
26 3 0.07
27 14 0.31
28 8 0.18
29 7 0.16
30 5 0.11
31 6 0.13
32 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
ATAAAATTTTATTAATTTATAATAAATAA
Found at i:16249819 original size:19 final size:20
Alignment explanation
Indices: 16249797--16249835 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16249787 ATTTTATTAA
16249797 TTTATTATAATA-AATAAAT
1 TTTATTATAATATAATAAAT
*
16249816 TTTATTATTATATAATAAAT
1 TTTATTATAATATAATAAAT
16249836 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATTATAATATAATAAAT
Found at i:16250022 original size:21 final size:22
Alignment explanation
Indices: 16249996--16250049 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
16249986 TACAATTAAT
16249996 TTTAATCTCACT-GTTACAATA
1 TTTAATCTCACTCGTTACAATA
* * *
16250017 TTTAATTTTA-TCGTTATAATA
1 TTTAATCTCACTCGTTACAATA
*
16250038 ATTAATCTCACT
1 TTTAATCTCACT
16250050 TTTATTATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (22 bp):
TTTAATCTCACTCGTTACAATA
Found at i:16252997 original size:2 final size:2
Alignment explanation
Indices: 16252990--16253016 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16252980 GCAGGTTGGT
16252990 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
16253017 TTTTAAGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16262212 original size:21 final size:21
Alignment explanation
Indices: 16262169--16262215 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16262159 CCTTTGTATC
* **
16262169 TTAGTTATGAGTCATTGTACT
1 TTAGTTATGACTCATCATACT
*
16262190 TTAGTTATGACTCATCATCCT
1 TTAGTTATGACTCATCATACT
16262211 TTAGT
1 TTAGT
16262216 CTTATCCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (21 bp):
TTAGTTATGACTCATCATACT
Found at i:16263996 original size:26 final size:26
Alignment explanation
Indices: 16263930--16264022 Score: 149
Period size: 26 Copynumber: 3.7 Consensus size: 26
16263920 GTTGTTAGGC
16263930 CTGATACCATTTAT--ACACATAGCT
1 CTGATACCATTTATACACACATAGCT
16263954 CTGATA--ATTTATACACACATAGCT
1 CTGATACCATTTATACACACATAGCT
16263978 CTGATACCATTTATACACACATAGCT
1 CTGATACCATTTATACACACATAGCT
*
16264004 CTGATACTATTTATACACA
1 CTGATACCATTTATACACA
16264023 GCGGCAGGTA
Statistics
Matches: 64, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
22 6 0.09
24 22 0.34
26 36 0.56
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
CTGATACCATTTATACACACATAGCT
Found at i:16264753 original size:21 final size:21
Alignment explanation
Indices: 16264729--16264771 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16264719 CTAAAGGATG
* * *
16264729 ATGAGTCATAATTAAGGTACA
1 ATGACTCATAACTAAGATACA
16264750 ATGACTCATAACTAAGATACA
1 ATGACTCATAACTAAGATACA
16264771 A
1 A
16264772 AGGTTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (21 bp):
ATGACTCATAACTAAGATACA
Found at i:16265054 original size:21 final size:24
Alignment explanation
Indices: 16265025--16265068 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
16265015 AGCACCATCA
16265025 TTTGAGAGA-ACGTTG-AGTGTGT
1 TTTGAGAGAGACGTTGAAGTGTGT
*
16265047 TTTG-GAGAGAGGTTGAAGTGTG
1 TTTGAGAGAGACGTTGAAGTGTG
16265069 AATTATCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.34
Consensus pattern (24 bp):
TTTGAGAGAGACGTTGAAGTGTGT
Found at i:16270872 original size:27 final size:27
Alignment explanation
Indices: 16270834--16270888 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16270824 CTGCTACAAA
16270834 ATGCTTTTAAGATTATTGGACAGAGTG
1 ATGCTTTTAAGATTATTGGACAGAGTG
16270861 ATGCTTTTAAGATTATTGGACAGAGTG
1 ATGCTTTTAAGATTATTGGACAGAGTG
16270888 A
1 A
16270889 CAGAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (27 bp):
ATGCTTTTAAGATTATTGGACAGAGTG
Found at i:16272728 original size:2 final size:2
Alignment explanation
Indices: 16272721--16272747 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16272711 TACACTTCAA
16272721 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
16272748 GCACTCTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:16273664 original size:19 final size:18
Alignment explanation
Indices: 16273617--16273665 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
16273607 AATTTTAATT
*
16273617 AATAA-ATTTATAATTAA
1 AATAATATTTAAAATTAA
16273634 AATAATATTTTAAAATCTAA
1 AATAATA-TTTAAAAT-TAA
*
16273654 TATAATATTTAA
1 AATAATATTTAA
16273666 TATTTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 12 0.44
20 9 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATATTTAAAATTAA
Found at i:16276763 original size:27 final size:28
Alignment explanation
Indices: 16276733--16276800 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
16276723 TTTTTGAATT
16276733 ATTTTTATTTTTTAATTAAGTTTT-AT-A
1 ATTTTTATTTTTTAATTAA-TTTTAATAA
* * *
16276760 ATTTTTATTCTTTGATTTATTTTAAATAA
1 ATTTTTATTTTTTAATTAATTTT-AATAA
16276789 ATTTTTATTTTT
1 ATTTTTATTTTT
16276801 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 16 0.47
28 2 0.06
29 12 0.35
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (28 bp):
ATTTTTATTTTTTAATTAATTTTAATAA
Found at i:16276859 original size:18 final size:18
Alignment explanation
Indices: 16276832--16276881 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16276822 AAAAATTAAT
*
16276832 TTAAATATATATTAAAAA
1 TTAAAAATATATTAAAAA
*
16276850 TTAAAAATATATTTAAATA
1 TTAAAAATATA-TTAAAAA
*
16276869 TAATAAAATATAT
1 TTA-AAAATATAT
16276882 AAATTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.37
19 9 0.33
20 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAATATATTAAAAA
Found at i:16276885 original size:28 final size:28
Alignment explanation
Indices: 16276819--16276902 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 28
16276809 AATAGTTTAT
16276819 ATTAAAAAT-TAATTTAAATATATATTAAAA
1 ATTAAAAATAT-ATTTAAATATA-A-TAAAA
16276849 ATTAAAAATATATTTAAATATAAT-AAA
1 ATTAAAAATATATTTAAATATAATAAAA
* * * *
16276876 ATATATAAATTTATATAAATAAAATAA
1 AT-TAAAAATATATTTAAATATAATAA
16276903 TAAAATTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.11
28 19 0.40
29 2 0.04
30 20 0.43
31 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTAAAAATATATTTAAATATAATAAAA
Found at i:16276905 original size:22 final size:22
Alignment explanation
Indices: 16276847--16276906 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
16276837 TATATATTAA
* *
16276847 AAATTAAA-AATATATTTAAAT
1 AAATAAAATAATAAATTTAAAT
*
16276868 ATAATAAAATATATAAATTTATAT
1 A-AATAAAATA-ATAAATTTAAAT
16276892 AAATAAAATAATAAA
1 AAATAAAATAATAAA
16276907 ATTGATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 11 0.33
23 10 0.30
24 11 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAAATAATAAATTTAAAT
Found at i:16276909 original size:23 final size:24
Alignment explanation
Indices: 16276860--16276906 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
16276850 TTAAAAATAT
16276860 ATTTAAATATAATAAAATATATAA
1 ATTTAAATATAATAAAATATATAA
*
16276884 ATTTATATA-AATAAAATA-ATAA
1 ATTTAAATATAATAAAATATATAA
16276906 A
1 A
16276907 ATTGATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATTTAAATATAATAAAATATATAA
Found at i:16285797 original size:2 final size:2
Alignment explanation
Indices: 16285790--16285834 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
16285780 CCGTAAATCC
16285790 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
16285832 CT C
1 CT C
16285835 CCCCTTTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:16286929 original size:25 final size:27
Alignment explanation
Indices: 16286904--16286975 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 27
16286894 TGCATTATAA
16286904 TAAAA-ATTATTATTTA-ATATTTTAATT
1 TAAAATATTA-TATTTACATATTTTAA-T
16286931 TAAAATATTATATTTACATATAATTTATAT
1 TAAAATATTATATTTACATAT--TTTA-AT
*
16286961 TAAAATAATAT-TTTA
1 TAAAATATTATATTTA
16286976 TAAATATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 11 0.28
28 8 0.21
29 4 0.10
30 15 0.38
31 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAAATATTATATTTACATATTTTAAT
Found at i:16287427 original size:24 final size:24
Alignment explanation
Indices: 16287395--16287442 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16287385 AATATCTAAA
* *
16287395 AAATTTATAAAATGATAAAATATT
1 AAATGTATAAAATAATAAAATATT
*
16287419 AAATGTATAAAATAATATAATATT
1 AAATGTATAAAATAATAAAATATT
16287443 TTTCTATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATGTATAAAATAATAAAATATT
Found at i:16290759 original size:19 final size:20
Alignment explanation
Indices: 16290737--16290781 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
16290727 TTGTTAACAT
*
16290737 TTTATATTA-ATGTTTATGG
1 TTTATATTATATGTTTATGC
*
16290756 TTTATA-TATTTGTTTATGC
1 TTTATATTATATGTTTATGC
16290775 TTTATAT
1 TTTATAT
16290782 ATTAAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.62
Consensus pattern (20 bp):
TTTATATTATATGTTTATGC
Found at i:16290782 original size:19 final size:19
Alignment explanation
Indices: 16290747--16290784 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16290737 TTTATATTAA
*
16290747 TGTTTATGGTTTATATATT
1 TGTTTATGCTTTATATATT
16290766 TGTTTATGCTTTATATATT
1 TGTTTATGCTTTATATATT
16290785 AAACATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.13, T:0.63
Consensus pattern (19 bp):
TGTTTATGCTTTATATATT
Found at i:16294064 original size:19 final size:19
Alignment explanation
Indices: 16294029--16294066 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16294019 TACTATAATT
*
16294029 AAATAAAAAATATTTTAAA
1 AAATAAAAAATAATTTAAA
16294048 AAAT-AAAAATAAATTTAAA
1 AAATAAAAAAT-AATTTAAA
16294067 TTTATAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATAAAAAATAATTTAAA
Found at i:16296648 original size:17 final size:17
Alignment explanation
Indices: 16296626--16296659 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16296616 AACAAAGAAC
*
16296626 CCTAGATCTGATCTTTA
1 CCTAGATCTGACCTTTA
*
16296643 CCTAGATTTGACCTTTA
1 CCTAGATCTGACCTTTA
16296660 AAGAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
CCTAGATCTGACCTTTA
Found at i:16300232 original size:17 final size:19
Alignment explanation
Indices: 16300210--16300252 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
16300200 GTATTAAAAG
*
16300210 AATTTTTTTAAT-TTT-AA
1 AATTTTTTAAATGTTTAAA
16300227 AATTTTTTAAATGTTTAAA
1 AATTTTTTAAATGTTTAAA
16300246 AATTTTT
1 AATTTTT
16300253 CCAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 3 0.13
19 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTTAAATGTTTAAA
Found at i:16300377 original size:20 final size:20
Alignment explanation
Indices: 16300348--16300391 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16300338 TGAAGACTTA
16300348 AAAATGTTAA-AAAAAATCT
1 AAAATGTTAATAAAAAATCT
* *
16300367 CAAAATTTTAATGAAAAATCT
1 -AAAATGTTAATAAAAAATCT
16300388 AAAA
1 AAAA
16300392 AATTCAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAATGTTAATAAAAAATCT
Found at i:16300404 original size:10 final size:9
Alignment explanation
Indices: 16300388--16300421 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
16300378 TGAAAAATCT
16300388 AAAAAATTC
1 AAAAAATTC
16300397 AAACAAATTC
1 AAA-AAATTC
16300407 TAAAAAATTC
1 -AAAAAATTC
16300417 AAAAA
1 AAAAA
16300422 TAAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.35
10 12 0.52
11 3 0.13
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATTC
Done.